-- dump date 20140620_063503 -- class Genbank::misc_feature -- table misc_feature_note -- id note 399599000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 399599000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 399599000003 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 399599000004 Walker A motif; other site 399599000005 ATP binding site [chemical binding]; other site 399599000006 Walker B motif; other site 399599000007 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 399599000008 arginine finger; other site 399599000009 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 399599000010 DnaA box-binding interface [nucleotide binding]; other site 399599000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 399599000012 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 399599000013 putative DNA binding surface [nucleotide binding]; other site 399599000014 dimer interface [polypeptide binding]; other site 399599000015 beta-clamp/clamp loader binding surface; other site 399599000016 beta-clamp/translesion DNA polymerase binding surface; other site 399599000017 recombination protein F; Reviewed; Region: recF; PRK00064 399599000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599000019 Walker A/P-loop; other site 399599000020 ATP binding site [chemical binding]; other site 399599000021 Q-loop/lid; other site 399599000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599000023 ABC transporter signature motif; other site 399599000024 Walker B; other site 399599000025 D-loop; other site 399599000026 H-loop/switch region; other site 399599000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 399599000028 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599000029 ATP binding site [chemical binding]; other site 399599000030 Mg2+ binding site [ion binding]; other site 399599000031 G-X-G motif; other site 399599000032 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 399599000033 anchoring element; other site 399599000034 dimer interface [polypeptide binding]; other site 399599000035 ATP binding site [chemical binding]; other site 399599000036 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 399599000037 active site 399599000038 putative metal-binding site [ion binding]; other site 399599000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 399599000040 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 399599000041 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 399599000042 putative C-terminal domain interface [polypeptide binding]; other site 399599000043 putative GSH binding site (G-site) [chemical binding]; other site 399599000044 putative dimer interface [polypeptide binding]; other site 399599000045 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 399599000046 putative N-terminal domain interface [polypeptide binding]; other site 399599000047 putative dimer interface [polypeptide binding]; other site 399599000048 putative substrate binding pocket (H-site) [chemical binding]; other site 399599000049 Cytochrome c; Region: Cytochrom_C; cl11414 399599000050 sulfite oxidase; Provisional; Region: PLN00177 399599000051 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 399599000052 Moco binding site; other site 399599000053 metal coordination site [ion binding]; other site 399599000054 dimerization interface [polypeptide binding]; other site 399599000055 Cytochrome c; Region: Cytochrom_C; cl11414 399599000056 Allophanate hydrolase subunit 2 [Amino acid transport and metabolism]; Region: DUR1; COG1984 399599000057 HDOD domain; Region: HDOD; pfam08668 399599000058 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399599000059 Zn2+ binding site [ion binding]; other site 399599000060 Mg2+ binding site [ion binding]; other site 399599000061 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 399599000062 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 399599000063 dimer interface [polypeptide binding]; other site 399599000064 motif 1; other site 399599000065 active site 399599000066 motif 2; other site 399599000067 motif 3; other site 399599000068 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 399599000069 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 399599000070 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 399599000071 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 399599000072 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 399599000073 Amidohydrolase; Region: Amidohydro_5; pfam13594 399599000074 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 399599000075 active site 399599000076 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 399599000077 MOSC domain; Region: MOSC; pfam03473 399599000078 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 399599000079 CPxP motif; other site 399599000080 Globin domain present in Globin-Coupled-Sensors (GCS). These domains detect changes in intracellular concentrations of oxygen, carbon monoxyde, or nitrous oxide, which result in aerotaxis and/or gene regulation. One subgroup, the HemATs, are aerotactic...; Region: sensor_globin; cd01068 399599000081 heme-binding site [chemical binding]; other site 399599000082 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599000083 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599000084 metal binding site [ion binding]; metal-binding site 399599000085 active site 399599000086 I-site; other site 399599000087 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 399599000088 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 399599000089 dimer interface [polypeptide binding]; other site 399599000090 active site 399599000091 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 399599000092 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 399599000093 substrate binding site [chemical binding]; other site 399599000094 oxyanion hole (OAH) forming residues; other site 399599000095 trimer interface [polypeptide binding]; other site 399599000096 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 399599000097 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 399599000098 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 399599000099 proline dipeptidase; Provisional; Region: PRK13607 399599000100 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 399599000101 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 399599000102 active site 399599000103 hypothetical protein; Provisional; Region: PRK11568 399599000104 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 399599000105 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 399599000106 Cation transport protein; Region: TrkH; cl17365 399599000107 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 399599000108 Flavodoxin domain; Region: Flavodoxin_5; cl17428 399599000109 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 399599000110 dimerization interface [polypeptide binding]; other site 399599000111 putative DNA binding site [nucleotide binding]; other site 399599000112 putative Zn2+ binding site [ion binding]; other site 399599000113 Flavodoxin domain; Region: Flavodoxin_5; cl17428 399599000114 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 399599000115 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 399599000116 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 399599000117 TrkA-N domain; Region: TrkA_N; pfam02254 399599000118 TrkA-C domain; Region: TrkA_C; pfam02080 399599000119 TrkA-N domain; Region: TrkA_N; pfam02254 399599000120 TrkA-C domain; Region: TrkA_C; pfam02080 399599000121 16S rRNA methyltransferase B; Provisional; Region: PRK10901 399599000122 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 399599000123 putative RNA binding site [nucleotide binding]; other site 399599000124 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 399599000125 S-adenosylmethionine binding site [chemical binding]; other site 399599000126 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 399599000127 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 399599000128 putative active site [active] 399599000129 substrate binding site [chemical binding]; other site 399599000130 putative cosubstrate binding site; other site 399599000131 catalytic site [active] 399599000132 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 399599000133 substrate binding site [chemical binding]; other site 399599000134 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 399599000135 active site 399599000136 catalytic residues [active] 399599000137 metal binding site [ion binding]; metal-binding site 399599000138 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 399599000139 DNA protecting protein DprA; Region: dprA; TIGR00732 399599000140 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 399599000141 Protein of unknown function (DUF494); Region: DUF494; pfam04361 399599000142 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 399599000143 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 399599000144 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 399599000145 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 399599000146 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 399599000147 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 399599000148 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 399599000149 apolar tunnel; other site 399599000150 heme binding site [chemical binding]; other site 399599000151 dimerization interface [polypeptide binding]; other site 399599000152 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 399599000153 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 399599000154 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 399599000155 shikimate binding site; other site 399599000156 NAD(P) binding site [chemical binding]; other site 399599000157 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 399599000158 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 399599000159 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 399599000160 trimer interface [polypeptide binding]; other site 399599000161 putative metal binding site [ion binding]; other site 399599000162 Transcriptional regulator; Region: Rrf2; cl17282 399599000163 Rrf2 family protein; Region: rrf2_super; TIGR00738 399599000164 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 399599000165 putative active site [active] 399599000166 putative catalytic site [active] 399599000167 NodB motif; other site 399599000168 Zn binding site [ion binding]; other site 399599000169 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 399599000170 C-terminal peptidase (prc); Region: prc; TIGR00225 399599000171 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 399599000172 protein binding site [polypeptide binding]; other site 399599000173 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 399599000174 Catalytic dyad [active] 399599000175 AmiB activator; Provisional; Region: PRK11637 399599000176 Peptidase family M23; Region: Peptidase_M23; pfam01551 399599000177 phosphoglyceromutase; Provisional; Region: PRK05434 399599000178 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 399599000179 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 399599000180 active site residue [active] 399599000181 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 399599000182 SecA binding site; other site 399599000183 Preprotein binding site; other site 399599000184 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 399599000185 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 399599000186 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 399599000187 HI0933-like protein; Region: HI0933_like; pfam03486 399599000188 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 399599000189 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 399599000190 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 399599000191 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 399599000192 TrkA-N domain; Region: TrkA_N; pfam02254 399599000193 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 399599000194 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599000195 active site 399599000196 phosphorylation site [posttranslational modification] 399599000197 intermolecular recognition site; other site 399599000198 dimerization interface [polypeptide binding]; other site 399599000199 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 399599000200 DNA binding site [nucleotide binding] 399599000201 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 399599000202 dimer interface [polypeptide binding]; other site 399599000203 phosphorylation site [posttranslational modification] 399599000204 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599000205 ATP binding site [chemical binding]; other site 399599000206 Mg2+ binding site [ion binding]; other site 399599000207 G-X-G motif; other site 399599000208 Pirin-related protein [General function prediction only]; Region: COG1741 399599000209 Pirin; Region: Pirin; pfam02678 399599000210 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 399599000211 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 399599000212 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 399599000213 GAF domain; Region: GAF_3; pfam13492 399599000214 Histidine kinase; Region: His_kinase; pfam06580 399599000215 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599000216 ATP binding site [chemical binding]; other site 399599000217 Mg2+ binding site [ion binding]; other site 399599000218 G-X-G motif; other site 399599000219 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 399599000220 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599000221 active site 399599000222 phosphorylation site [posttranslational modification] 399599000223 intermolecular recognition site; other site 399599000224 dimerization interface [polypeptide binding]; other site 399599000225 LytTr DNA-binding domain; Region: LytTR; pfam04397 399599000226 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 399599000227 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 399599000228 NlpC/P60 family; Region: NLPC_P60; pfam00877 399599000229 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 399599000230 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599000231 putative substrate translocation pore; other site 399599000232 Transcriptional regulators [Transcription]; Region: PurR; COG1609 399599000233 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 399599000234 DNA binding site [nucleotide binding] 399599000235 domain linker motif; other site 399599000236 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_3; cd06279 399599000237 putative dimerization interface [polypeptide binding]; other site 399599000238 putative ligand binding site [chemical binding]; other site 399599000239 sucrose phosphorylase; Provisional; Region: PRK13840 399599000240 Alpha amylase catalytic domain found in sucrose phosphorylase (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase; cd11355 399599000241 active site 399599000242 homodimer interface [polypeptide binding]; other site 399599000243 catalytic site [active] 399599000244 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 399599000245 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599000246 putative substrate translocation pore; other site 399599000247 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 399599000248 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 399599000249 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 399599000250 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 399599000251 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 399599000252 putative substrate binding site [chemical binding]; other site 399599000253 putative ATP binding site [chemical binding]; other site 399599000254 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 399599000255 MPT binding site; other site 399599000256 trimer interface [polypeptide binding]; other site 399599000257 Large extracellular alpha-helical protein [General function prediction only]; Region: COG2373 399599000258 MG2 domain; Region: A2M_N; pfam01835 399599000259 Alpha-2-macroglobulin family; Region: A2M; pfam00207 399599000260 Proteins similar to alpha2-macroglobulin (alpha (2)-M). Alpha (2)-M is a major carrier protein in serum. It is a broadly specific proteinase inhibitor. The structural thioester of alpha (2)-M, is involved in the immobilization and entrapment of...; Region: A2M_like; cd02891 399599000261 surface patch; other site 399599000262 thioester region; other site 399599000263 specificity defining residues; other site 399599000264 penicillin-binding protein 1C; Region: PBP_1c; TIGR02073 399599000265 Transglycosylase; Region: Transgly; pfam00912 399599000266 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 399599000267 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 399599000268 Phage shock protein B; Region: PspB; cl05946 399599000269 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 399599000270 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 399599000271 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 399599000272 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599000273 Walker A/P-loop; other site 399599000274 ATP binding site [chemical binding]; other site 399599000275 Q-loop/lid; other site 399599000276 ABC transporter signature motif; other site 399599000277 Walker B; other site 399599000278 D-loop; other site 399599000279 H-loop/switch region; other site 399599000280 TAP-like protein; Region: Abhydrolase_4; pfam08386 399599000281 Predicted transcriptional regulators [Transcription]; Region: COG1725 399599000282 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399599000283 DNA-binding site [nucleotide binding]; DNA binding site 399599000284 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 399599000285 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 399599000286 Walker A/P-loop; other site 399599000287 ATP binding site [chemical binding]; other site 399599000288 Q-loop/lid; other site 399599000289 ABC transporter signature motif; other site 399599000290 Walker B; other site 399599000291 D-loop; other site 399599000292 H-loop/switch region; other site 399599000293 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 399599000294 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 399599000295 acyl-activating enzyme (AAE) consensus motif; other site 399599000296 putative AMP binding site [chemical binding]; other site 399599000297 putative active site [active] 399599000298 putative CoA binding site [chemical binding]; other site 399599000299 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 399599000300 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 399599000301 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 399599000302 active site 399599000303 HPP family; Region: HPP; pfam04982 399599000304 Predicted acetyltransferase [General function prediction only]; Region: COG2388 399599000305 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 399599000306 active site 399599000307 Uncharacterized conserved protein [Function unknown]; Region: COG3791 399599000308 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 399599000309 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 399599000310 DNA binding residues [nucleotide binding] 399599000311 putative dimer interface [polypeptide binding]; other site 399599000312 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 399599000313 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 399599000314 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 399599000315 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 399599000316 Uncharacterized conserved protein [Function unknown]; Region: COG2433 399599000317 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; pfam10110 399599000318 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 399599000319 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 399599000320 putative active site [active] 399599000321 catalytic site [active] 399599000322 putative metal binding site [ion binding]; other site 399599000323 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 399599000324 Lamin Tail Domain; Region: LTD; pfam00932 399599000325 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 399599000326 Endonuclease I; Region: Endonuclease_1; pfam04231 399599000327 Transcriptional regulators [Transcription]; Region: MarR; COG1846 399599000328 MarR family; Region: MarR_2; pfam12802 399599000329 MarR family; Region: MarR_2; cl17246 399599000330 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 399599000331 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 399599000332 FAD binding pocket [chemical binding]; other site 399599000333 FAD binding motif [chemical binding]; other site 399599000334 phosphate binding motif [ion binding]; other site 399599000335 NAD binding pocket [chemical binding]; other site 399599000336 imidazolonepropionase; Validated; Region: PRK09356 399599000337 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 399599000338 active site 399599000339 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 399599000340 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399599000341 DNA-binding site [nucleotide binding]; DNA binding site 399599000342 UTRA domain; Region: UTRA; pfam07702 399599000343 urocanate hydratase; Provisional; Region: PRK05414 399599000344 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 399599000345 active sites [active] 399599000346 tetramer interface [polypeptide binding]; other site 399599000347 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 399599000348 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 399599000349 molybdopterin cofactor binding site; other site 399599000350 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 399599000351 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 399599000352 molybdopterin cofactor binding site; other site 399599000353 formate dehydrogenase, beta subunit, Fe-S containing; Region: FDH-beta; TIGR01582 399599000354 4Fe-4S binding domain; Region: Fer4; pfam00037 399599000355 Formate dehydrogenase N, transmembrane; Region: Form-deh_trans; pfam09163 399599000356 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 399599000357 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 399599000358 Protein involved in formate dehydrogenase formation; Region: FdhE; pfam04216 399599000359 formate dehydrogenase accessory protein FdhE; Region: FdhE; TIGR01562 399599000360 selenocysteine synthase; Provisional; Region: PRK04311 399599000361 Selenocysteine synthase N terminal; Region: Se-cys_synth_N; pfam12390 399599000362 Selenocysteine synthase [seryl-tRNASer selenium transferase] [Amino acid transport and metabolism]; Region: SelA; COG1921 399599000363 selenocysteinyl-tRNA-specific translation factor; Provisional; Region: PRK10512 399599000364 SelB, the dedicated elongation factor for delivery of selenocysteinyl-tRNA to the ribosome; Region: SelB; cd04171 399599000365 G1 box; other site 399599000366 putative GEF interaction site [polypeptide binding]; other site 399599000367 GTP/Mg2+ binding site [chemical binding]; other site 399599000368 Switch I region; other site 399599000369 G2 box; other site 399599000370 G3 box; other site 399599000371 Switch II region; other site 399599000372 G4 box; other site 399599000373 G5 box; other site 399599000374 selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several...; Region: selB_II; cd03696 399599000375 Domain III of Elongation factor (EF) Tu (EF-TU) and EF-G. Elongation factors (EF) EF-Tu and EF-G participate in the elongation phase during protein biosynthesis on the ribosome. Their functional cycles depend on GTP binding and its hydrolysis. The EF-Tu...; Region: Translation_factor_III; cl02786 399599000376 Elongation factor SelB, winged helix; Region: SelB-wing_2; pfam09106 399599000377 Elongation factor SelB, winged helix; Region: SelB-wing_3; pfam09107 399599000378 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 399599000379 putative inner membrane protein; Provisional; Region: PRK11099 399599000380 YedF is a bacterial SirA-like protein of unknown function. SirA (also known as UvrY, and YhhP) belongs to a family of a two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system...; Region: YedF; cd03422 399599000381 CPxP motif; other site 399599000382 Peptidase family M48; Region: Peptidase_M48; cl12018 399599000383 Pilin (bacterial filament); Region: Pilin; pfam00114 399599000384 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 399599000385 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 399599000386 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399599000387 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 399599000388 Protein of unknown function, DUF481; Region: DUF481; cl01213 399599000389 Protein of unknown function (DUF3157); Region: DUF3157; pfam11355 399599000390 Protein of unknown function (DUF1090); Region: DUF1090; pfam06476 399599000391 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 399599000392 Mechanosensitive ion channel; Region: MS_channel; pfam00924 399599000393 LysE type translocator; Region: LysE; cl00565 399599000394 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 399599000395 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 399599000396 putative acyl-acceptor binding pocket; other site 399599000397 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 399599000398 SnoaL-like domain; Region: SnoaL_3; pfam13474 399599000399 NRDE protein; Region: NRDE; cl01315 399599000400 putative antibiotic transporter; Provisional; Region: PRK10739 399599000401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 399599000402 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 399599000403 FOG: PKD repeat [General function prediction only]; Region: COG3291 399599000404 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 399599000405 Chorismate lyase; Region: Chor_lyase; cl01230 399599000406 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 399599000407 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 399599000408 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 399599000409 S-adenosylmethionine binding site [chemical binding]; other site 399599000410 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 399599000411 Domain of unknown function (DUF333); Region: DUF333; pfam03891 399599000412 Inhibitor of apoptosis-promoting Bax1; Region: Bax1-I; pfam01027 399599000413 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 399599000414 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 399599000415 ATP binding site [chemical binding]; other site 399599000416 substrate interface [chemical binding]; other site 399599000417 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 399599000418 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 399599000419 dimer interface [polypeptide binding]; other site 399599000420 putative functional site; other site 399599000421 putative MPT binding site; other site 399599000422 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 399599000423 Ferritin-like domain; Region: Ferritin; pfam00210 399599000424 ferroxidase diiron center [ion binding]; other site 399599000425 Nitrate and nitrite sensing; Region: NIT; pfam08376 399599000426 HAMP domain; Region: HAMP; pfam00672 399599000427 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 399599000428 PAS domain; Region: PAS_9; pfam13426 399599000429 putative active site [active] 399599000430 heme pocket [chemical binding]; other site 399599000431 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599000432 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599000433 metal binding site [ion binding]; metal-binding site 399599000434 active site 399599000435 I-site; other site 399599000436 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 399599000437 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 399599000438 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 399599000439 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 399599000440 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 399599000441 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399599000442 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 399599000443 GIY-YIG motif/motif A; other site 399599000444 putative active site [active] 399599000445 putative metal binding site [ion binding]; other site 399599000446 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 399599000447 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 399599000448 S-adenosylmethionine binding site [chemical binding]; other site 399599000449 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 399599000450 putative active site [active] 399599000451 Zn binding site [ion binding]; other site 399599000452 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 399599000453 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 399599000454 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 399599000455 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 399599000456 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 399599000457 active site 399599000458 substrate-binding site [chemical binding]; other site 399599000459 metal-binding site [ion binding] 399599000460 ATP binding site [chemical binding]; other site 399599000461 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 399599000462 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 399599000463 dimerization interface [polypeptide binding]; other site 399599000464 domain crossover interface; other site 399599000465 redox-dependent activation switch; other site 399599000466 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 399599000467 RNA binding surface [nucleotide binding]; other site 399599000468 putative type II secretion protein GspC; Provisional; Region: PRK09681 399599000469 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 399599000470 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 399599000471 type II secretion system protein D; Region: type_II_gspD; TIGR02517 399599000472 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 399599000473 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 399599000474 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 399599000475 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 399599000476 type II secretion system protein E; Region: type_II_gspE; TIGR02533 399599000477 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 399599000478 Walker A motif; other site 399599000479 ATP binding site [chemical binding]; other site 399599000480 Walker B motif; other site 399599000481 type II secretion system protein F; Region: GspF; TIGR02120 399599000482 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 399599000483 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 399599000484 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 399599000485 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 399599000486 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 399599000487 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 399599000488 Type II transport protein GspH; Region: GspH; pfam12019 399599000489 Prokaryotic N-terminal methylation motif; Region: N_methyl; pfam07963 399599000490 type II secretion system protein I; Region: gspI; TIGR01707 399599000491 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 399599000492 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 399599000493 type II secretion system protein J; Region: gspJ; TIGR01711 399599000494 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 399599000495 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 399599000496 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 399599000497 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 399599000498 GspL periplasmic domain; Region: GspL_C; pfam12693 399599000499 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 399599000500 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 399599000501 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 399599000502 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 399599000503 motif II; other site 399599000504 Aspartyl/Asparaginyl beta-hydroxylase; Region: Asp_Arg_Hydrox; cl17820 399599000505 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 399599000506 S-adenosylmethionine binding site [chemical binding]; other site 399599000507 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 399599000508 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 399599000509 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599000510 Coenzyme A binding pocket [chemical binding]; other site 399599000511 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 399599000512 Phage Tail Collar Domain; Region: Collar; pfam07484 399599000513 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 399599000514 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 399599000515 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 399599000516 Cadherin repeat-like domain; Region: CA_like; cl15786 399599000517 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 399599000518 Cadherin repeat-like domain; Region: CA_like; cl15786 399599000519 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 399599000520 Cadherin repeat-like domain; Region: CA_like; cl15786 399599000521 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 399599000522 Cadherin repeat-like domain; Region: CA_like; cl15786 399599000523 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 399599000524 Cadherin repeat-like domain; Region: CA_like; cl15786 399599000525 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 399599000526 Cadherin repeat-like domain; Region: CA_like; cl15786 399599000527 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 399599000528 Cadherin repeat-like domain; Region: CA_like; cl15786 399599000529 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 399599000530 Cadherin repeat-like domain; Region: CA_like; cl15786 399599000531 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 399599000532 Cadherin repeat-like domain; Region: CA_like; cl15786 399599000533 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 399599000534 Cadherin repeat-like domain; Region: CA_like; cl15786 399599000535 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 399599000536 Cadherin repeat-like domain; Region: CA_like; cl15786 399599000537 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 399599000538 Cadherin repeat-like domain; Region: CA_like; cl15786 399599000539 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 399599000540 Cadherin repeat-like domain; Region: CA_like; cl15786 399599000541 Cadherin repeat-like domain; Region: CA_like; cl15786 399599000542 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 399599000543 Ca2+ binding site [ion binding]; other site 399599000544 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 399599000545 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 399599000546 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 399599000547 dimer interface [polypeptide binding]; other site 399599000548 ADP-ribose binding site [chemical binding]; other site 399599000549 active site 399599000550 nudix motif; other site 399599000551 metal binding site [ion binding]; metal-binding site 399599000552 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 399599000553 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 399599000554 active site 399599000555 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 399599000556 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599000557 Coenzyme A binding pocket [chemical binding]; other site 399599000558 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399599000559 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399599000560 WHG domain; Region: WHG; pfam13305 399599000561 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599000562 Major Facilitator Superfamily; Region: MFS_1; pfam07690 399599000563 putative substrate translocation pore; other site 399599000564 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 399599000565 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 399599000566 putative acyl-acceptor binding pocket; other site 399599000567 Member of the Rhodanese Homology Domain superfamily. This CD includes several putative ATP /GTP binding proteins including E. coli YbbB; Region: RHOD_YbbB; cd01520 399599000568 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 399599000569 active site residue [active] 399599000570 selenophosphate synthetase; Provisional; Region: PRK00943 399599000571 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 399599000572 dimerization interface [polypeptide binding]; other site 399599000573 putative ATP binding site [chemical binding]; other site 399599000574 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 399599000575 Fatty acid desaturase; Region: FA_desaturase; pfam00487 399599000576 Di-iron ligands [ion binding]; other site 399599000577 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 399599000578 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 399599000579 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399599000580 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 399599000581 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 399599000582 S-adenosylmethionine binding site [chemical binding]; other site 399599000583 glutamate racemase; Provisional; Region: PRK00865 399599000584 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 399599000585 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 399599000586 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 399599000587 FAD binding domain; Region: FAD_binding_4; pfam01565 399599000588 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 399599000589 Biotin operon repressor [Transcription]; Region: BirA; COG1654 399599000590 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 399599000591 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 399599000592 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 399599000593 pantothenate kinase; Provisional; Region: PRK05439 399599000594 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 399599000595 ATP-binding site [chemical binding]; other site 399599000596 CoA-binding site [chemical binding]; other site 399599000597 Mg2+-binding site [ion binding]; other site 399599000598 elongation factor Tu; Reviewed; Region: PRK00049 399599000599 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 399599000600 G1 box; other site 399599000601 GEF interaction site [polypeptide binding]; other site 399599000602 GTP/Mg2+ binding site [chemical binding]; other site 399599000603 Switch I region; other site 399599000604 G2 box; other site 399599000605 G3 box; other site 399599000606 Switch II region; other site 399599000607 G4 box; other site 399599000608 G5 box; other site 399599000609 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 399599000610 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 399599000611 Antibiotic Binding Site [chemical binding]; other site 399599000612 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 399599000613 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 399599000614 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 399599000615 putative homodimer interface [polypeptide binding]; other site 399599000616 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 399599000617 heterodimer interface [polypeptide binding]; other site 399599000618 homodimer interface [polypeptide binding]; other site 399599000619 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 399599000620 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 399599000621 23S rRNA interface [nucleotide binding]; other site 399599000622 L7/L12 interface [polypeptide binding]; other site 399599000623 putative thiostrepton binding site; other site 399599000624 L25 interface [polypeptide binding]; other site 399599000625 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 399599000626 mRNA/rRNA interface [nucleotide binding]; other site 399599000627 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 399599000628 23S rRNA interface [nucleotide binding]; other site 399599000629 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 399599000630 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 399599000631 core dimer interface [polypeptide binding]; other site 399599000632 peripheral dimer interface [polypeptide binding]; other site 399599000633 L10 interface [polypeptide binding]; other site 399599000634 L11 interface [polypeptide binding]; other site 399599000635 putative EF-Tu interaction site [polypeptide binding]; other site 399599000636 putative EF-G interaction site [polypeptide binding]; other site 399599000637 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 399599000638 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 399599000639 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 399599000640 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 399599000641 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 399599000642 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 399599000643 RPB3 interaction site [polypeptide binding]; other site 399599000644 RPB1 interaction site [polypeptide binding]; other site 399599000645 RPB11 interaction site [polypeptide binding]; other site 399599000646 RPB10 interaction site [polypeptide binding]; other site 399599000647 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 399599000648 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 399599000649 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 399599000650 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 399599000651 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 399599000652 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 399599000653 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 399599000654 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 399599000655 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 399599000656 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 399599000657 DNA binding site [nucleotide binding] 399599000658 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 399599000659 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 399599000660 S17 interaction site [polypeptide binding]; other site 399599000661 S8 interaction site; other site 399599000662 16S rRNA interaction site [nucleotide binding]; other site 399599000663 streptomycin interaction site [chemical binding]; other site 399599000664 23S rRNA interaction site [nucleotide binding]; other site 399599000665 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 399599000666 30S ribosomal protein S7; Validated; Region: PRK05302 399599000667 elongation factor G; Reviewed; Region: PRK00007 399599000668 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 399599000669 G1 box; other site 399599000670 putative GEF interaction site [polypeptide binding]; other site 399599000671 GTP/Mg2+ binding site [chemical binding]; other site 399599000672 Switch I region; other site 399599000673 G2 box; other site 399599000674 G3 box; other site 399599000675 Switch II region; other site 399599000676 G4 box; other site 399599000677 G5 box; other site 399599000678 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 399599000679 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 399599000680 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 399599000681 elongation factor Tu; Reviewed; Region: PRK00049 399599000682 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 399599000683 G1 box; other site 399599000684 GEF interaction site [polypeptide binding]; other site 399599000685 GTP/Mg2+ binding site [chemical binding]; other site 399599000686 Switch I region; other site 399599000687 G2 box; other site 399599000688 G3 box; other site 399599000689 Switch II region; other site 399599000690 G4 box; other site 399599000691 G5 box; other site 399599000692 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 399599000693 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 399599000694 Antibiotic Binding Site [chemical binding]; other site 399599000695 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 399599000696 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 399599000697 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 399599000698 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 399599000699 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 399599000700 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 399599000701 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 399599000702 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 399599000703 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 399599000704 putative translocon binding site; other site 399599000705 protein-rRNA interface [nucleotide binding]; other site 399599000706 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 399599000707 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 399599000708 G-X-X-G motif; other site 399599000709 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 399599000710 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 399599000711 23S rRNA interface [nucleotide binding]; other site 399599000712 5S rRNA interface [nucleotide binding]; other site 399599000713 putative antibiotic binding site [chemical binding]; other site 399599000714 L25 interface [polypeptide binding]; other site 399599000715 L27 interface [polypeptide binding]; other site 399599000716 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 399599000717 23S rRNA interface [nucleotide binding]; other site 399599000718 putative translocon interaction site; other site 399599000719 signal recognition particle (SRP54) interaction site; other site 399599000720 L23 interface [polypeptide binding]; other site 399599000721 trigger factor interaction site; other site 399599000722 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 399599000723 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 399599000724 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 399599000725 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 399599000726 RNA binding site [nucleotide binding]; other site 399599000727 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 399599000728 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 399599000729 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 399599000730 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 399599000731 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 399599000732 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 399599000733 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 399599000734 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 399599000735 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 399599000736 23S rRNA interface [nucleotide binding]; other site 399599000737 L21e interface [polypeptide binding]; other site 399599000738 5S rRNA interface [nucleotide binding]; other site 399599000739 L27 interface [polypeptide binding]; other site 399599000740 L5 interface [polypeptide binding]; other site 399599000741 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 399599000742 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 399599000743 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 399599000744 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 399599000745 23S rRNA binding site [nucleotide binding]; other site 399599000746 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 399599000747 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 399599000748 SecY translocase; Region: SecY; pfam00344 399599000749 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 399599000750 30S ribosomal protein S13; Region: bact_S13; TIGR03631 399599000751 30S ribosomal protein S11; Validated; Region: PRK05309 399599000752 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 399599000753 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 399599000754 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 399599000755 RNA binding surface [nucleotide binding]; other site 399599000756 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 399599000757 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 399599000758 alphaNTD homodimer interface [polypeptide binding]; other site 399599000759 alphaNTD - beta interaction site [polypeptide binding]; other site 399599000760 alphaNTD - beta' interaction site [polypeptide binding]; other site 399599000761 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 399599000762 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 399599000763 ABC transporter substrate binding protein; Region: ABC_sub_bind; cl17301 399599000764 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 399599000765 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 399599000766 heme exporter protein CcmC; Region: ccmC; TIGR01191 399599000767 CcmB protein; Region: CcmB; pfam03379 399599000768 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 399599000769 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599000770 Walker A/P-loop; other site 399599000771 ATP binding site [chemical binding]; other site 399599000772 Q-loop/lid; other site 399599000773 ABC transporter signature motif; other site 399599000774 Walker B; other site 399599000775 D-loop; other site 399599000776 H-loop/switch region; other site 399599000777 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 399599000778 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 399599000779 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 399599000780 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 399599000781 TPR motif; other site 399599000782 binding surface 399599000783 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 399599000784 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 399599000785 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 399599000786 catalytic residues [active] 399599000787 central insert; other site 399599000788 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 399599000789 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 399599000790 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 399599000791 catalytic residues [active] 399599000792 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 399599000793 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 399599000794 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599000795 Coenzyme A binding pocket [chemical binding]; other site 399599000796 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399599000797 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 399599000798 dimer interface [polypeptide binding]; other site 399599000799 phosphorylation site [posttranslational modification] 399599000800 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599000801 ATP binding site [chemical binding]; other site 399599000802 Mg2+ binding site [ion binding]; other site 399599000803 G-X-G motif; other site 399599000804 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 399599000805 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599000806 active site 399599000807 phosphorylation site [posttranslational modification] 399599000808 intermolecular recognition site; other site 399599000809 dimerization interface [polypeptide binding]; other site 399599000810 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 399599000811 DNA binding site [nucleotide binding] 399599000812 Predicted membrane protein [Function unknown]; Region: COG3212 399599000813 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 399599000814 Dihaem cytochrome c; Region: DHC; pfam09626 399599000815 Domain of unknown function (DUF1924); Region: DUF1924; pfam09086 399599000816 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 399599000817 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 399599000818 transcriptional regulator; Provisional; Region: PRK10632 399599000819 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599000820 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 399599000821 putative effector binding pocket; other site 399599000822 putative dimerization interface [polypeptide binding]; other site 399599000823 short chain dehydrogenase; Provisional; Region: PRK12939 399599000824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399599000825 NAD(P) binding site [chemical binding]; other site 399599000826 active site 399599000827 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 399599000828 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 399599000829 NAD(P) binding site [chemical binding]; other site 399599000830 catalytic residues [active] 399599000831 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 399599000832 GAF domain; Region: GAF; pfam01590 399599000833 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 399599000834 Walker A motif; other site 399599000835 ATP binding site [chemical binding]; other site 399599000836 Walker B motif; other site 399599000837 arginine finger; other site 399599000838 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399599000839 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 399599000840 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 399599000841 tetramer interface [polypeptide binding]; other site 399599000842 heme binding pocket [chemical binding]; other site 399599000843 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 399599000844 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 399599000845 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 399599000846 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 399599000847 NADP binding site [chemical binding]; other site 399599000848 dimer interface [polypeptide binding]; other site 399599000849 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 399599000850 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 399599000851 Predicted oxidoreductase [General function prediction only]; Region: COG3573 399599000852 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 399599000853 heme-binding residues [chemical binding]; other site 399599000854 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599000855 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599000856 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 399599000857 dimerization interface [polypeptide binding]; other site 399599000858 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399599000859 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399599000860 two-component sensor protein; Provisional; Region: cpxA; PRK09470 399599000861 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 399599000862 dimerization interface [polypeptide binding]; other site 399599000863 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 399599000864 dimer interface [polypeptide binding]; other site 399599000865 phosphorylation site [posttranslational modification] 399599000866 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599000867 ATP binding site [chemical binding]; other site 399599000868 Mg2+ binding site [ion binding]; other site 399599000869 G-X-G motif; other site 399599000870 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599000871 active site 399599000872 phosphorylation site [posttranslational modification] 399599000873 intermolecular recognition site; other site 399599000874 dimerization interface [polypeptide binding]; other site 399599000875 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 399599000876 DNA binding site [nucleotide binding] 399599000877 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 399599000878 dimer interface [polypeptide binding]; other site 399599000879 Cation efflux family; Region: Cation_efflux; cl00316 399599000880 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 399599000881 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 399599000882 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 399599000883 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599000884 active site 399599000885 phosphorylation site [posttranslational modification] 399599000886 intermolecular recognition site; other site 399599000887 dimerization interface [polypeptide binding]; other site 399599000888 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 399599000889 Walker A motif; other site 399599000890 ATP binding site [chemical binding]; other site 399599000891 Walker B motif; other site 399599000892 arginine finger; other site 399599000893 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399599000894 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 399599000895 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 399599000896 dimer interface [polypeptide binding]; other site 399599000897 phosphorylation site [posttranslational modification] 399599000898 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599000899 ATP binding site [chemical binding]; other site 399599000900 Mg2+ binding site [ion binding]; other site 399599000901 G-X-G motif; other site 399599000902 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 399599000903 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 399599000904 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 399599000905 putative C-terminal domain interface [polypeptide binding]; other site 399599000906 putative GSH binding site (G-site) [chemical binding]; other site 399599000907 putative dimer interface [polypeptide binding]; other site 399599000908 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 399599000909 N-terminal domain interface [polypeptide binding]; other site 399599000910 dimer interface [polypeptide binding]; other site 399599000911 substrate binding pocket (H-site) [chemical binding]; other site 399599000912 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 399599000913 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 399599000914 potential catalytic triad [active] 399599000915 conserved cys residue [active] 399599000916 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 399599000917 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 399599000918 dimer interface [polypeptide binding]; other site 399599000919 active site 399599000920 metal binding site [ion binding]; metal-binding site 399599000921 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399599000922 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399599000923 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 399599000924 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599000925 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599000926 dimer interface [polypeptide binding]; other site 399599000927 putative CheW interface [polypeptide binding]; other site 399599000928 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 399599000929 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 399599000930 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 399599000931 S-adenosylmethionine binding site [chemical binding]; other site 399599000932 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 399599000933 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 399599000934 substrate binding site [chemical binding]; other site 399599000935 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 399599000936 ATP binding site [chemical binding]; other site 399599000937 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599000938 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599000939 metal binding site [ion binding]; metal-binding site 399599000940 active site 399599000941 I-site; other site 399599000942 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 399599000943 MOSC domain; Region: MOSC; pfam03473 399599000944 3-alpha domain; Region: 3-alpha; pfam03475 399599000945 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 399599000946 Cache domain; Region: Cache_1; pfam02743 399599000947 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 399599000948 dimerization interface [polypeptide binding]; other site 399599000949 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599000950 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599000951 dimer interface [polypeptide binding]; other site 399599000952 putative CheW interface [polypeptide binding]; other site 399599000953 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 399599000954 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 399599000955 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 399599000956 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 399599000957 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 399599000958 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 399599000959 FeS/SAM binding site; other site 399599000960 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 399599000961 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 399599000962 trimer interface [polypeptide binding]; other site 399599000963 dimer interface [polypeptide binding]; other site 399599000964 putative active site [active] 399599000965 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 399599000966 MoaE interaction surface [polypeptide binding]; other site 399599000967 MoeB interaction surface [polypeptide binding]; other site 399599000968 thiocarboxylated glycine; other site 399599000969 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 399599000970 MoaE homodimer interface [polypeptide binding]; other site 399599000971 MoaD interaction [polypeptide binding]; other site 399599000972 active site residues [active] 399599000973 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 399599000974 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 399599000975 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 399599000976 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 399599000977 dimer interface [polypeptide binding]; other site 399599000978 conserved gate region; other site 399599000979 putative PBP binding loops; other site 399599000980 ABC-ATPase subunit interface; other site 399599000981 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599000982 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 399599000983 Walker A/P-loop; other site 399599000984 ATP binding site [chemical binding]; other site 399599000985 Q-loop/lid; other site 399599000986 ABC transporter signature motif; other site 399599000987 Walker B; other site 399599000988 D-loop; other site 399599000989 H-loop/switch region; other site 399599000990 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 399599000991 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599000992 active site 399599000993 phosphorylation site [posttranslational modification] 399599000994 intermolecular recognition site; other site 399599000995 dimerization interface [polypeptide binding]; other site 399599000996 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 399599000997 DNA binding site [nucleotide binding] 399599000998 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399599000999 HAMP domain; Region: HAMP; pfam00672 399599001000 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 399599001001 dimer interface [polypeptide binding]; other site 399599001002 phosphorylation site [posttranslational modification] 399599001003 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599001004 ATP binding site [chemical binding]; other site 399599001005 Mg2+ binding site [ion binding]; other site 399599001006 G-X-G motif; other site 399599001007 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 399599001008 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 399599001009 active site 399599001010 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599001011 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599001012 metal binding site [ion binding]; metal-binding site 399599001013 active site 399599001014 I-site; other site 399599001015 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 399599001016 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 399599001017 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 399599001018 N-terminal plug; other site 399599001019 ligand-binding site [chemical binding]; other site 399599001020 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 399599001021 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 399599001022 Peptidase family M23; Region: Peptidase_M23; pfam01551 399599001023 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 399599001024 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 399599001025 Domain of unknown function (DUF1864); Region: DUF1864; pfam08933 399599001026 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 399599001027 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 399599001028 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 399599001029 catalytic residue [active] 399599001030 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 399599001031 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 399599001032 sensor protein RstB; Provisional; Region: PRK10604 399599001033 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 399599001034 dimer interface [polypeptide binding]; other site 399599001035 phosphorylation site [posttranslational modification] 399599001036 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599001037 ATP binding site [chemical binding]; other site 399599001038 Mg2+ binding site [ion binding]; other site 399599001039 G-X-G motif; other site 399599001040 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 399599001041 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599001042 active site 399599001043 phosphorylation site [posttranslational modification] 399599001044 intermolecular recognition site; other site 399599001045 dimerization interface [polypeptide binding]; other site 399599001046 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 399599001047 DNA binding site [nucleotide binding] 399599001048 glutamine synthetase; Provisional; Region: glnA; PRK09469 399599001049 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 399599001050 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 399599001051 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 399599001052 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 399599001053 G1 box; other site 399599001054 putative GEF interaction site [polypeptide binding]; other site 399599001055 GTP/Mg2+ binding site [chemical binding]; other site 399599001056 Switch I region; other site 399599001057 G2 box; other site 399599001058 G3 box; other site 399599001059 Switch II region; other site 399599001060 G4 box; other site 399599001061 G5 box; other site 399599001062 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 399599001063 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 399599001064 SnoaL-like domain; Region: SnoaL_3; pfam13474 399599001065 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599001066 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599001067 metal binding site [ion binding]; metal-binding site 399599001068 active site 399599001069 I-site; other site 399599001070 4Fe-4S binding domain; Region: Fer4_5; pfam12801 399599001071 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 399599001072 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 399599001073 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 399599001074 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 399599001075 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 399599001076 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 399599001077 homodimer interface [polypeptide binding]; other site 399599001078 substrate-cofactor binding pocket; other site 399599001079 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599001080 catalytic residue [active] 399599001081 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 399599001082 hypothetical protein; Reviewed; Region: PRK01637 399599001083 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 399599001084 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 399599001085 putative active site [active] 399599001086 dimerization interface [polypeptide binding]; other site 399599001087 putative tRNAtyr binding site [nucleotide binding]; other site 399599001088 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 399599001089 CoenzymeA binding site [chemical binding]; other site 399599001090 subunit interaction site [polypeptide binding]; other site 399599001091 PHB binding site; other site 399599001092 azoreductase; Reviewed; Region: PRK00170 399599001093 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 399599001094 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 399599001095 active site residue [active] 399599001096 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 399599001097 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 399599001098 non-specific DNA binding site [nucleotide binding]; other site 399599001099 salt bridge; other site 399599001100 sequence-specific DNA binding site [nucleotide binding]; other site 399599001101 Cupin domain; Region: Cupin_2; pfam07883 399599001102 Benzoate membrane transport protein; Region: BenE; pfam03594 399599001103 benzoate transporter; Region: benE; TIGR00843 399599001104 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599001105 Coenzyme A binding pocket [chemical binding]; other site 399599001106 AAA domain; Region: AAA_25; pfam13481 399599001107 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 399599001108 Walker A motif; other site 399599001109 ATP binding site [chemical binding]; other site 399599001110 Walker B motif; other site 399599001111 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; cd00164 399599001112 RNA binding site [nucleotide binding]; other site 399599001113 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 399599001114 RNA binding site [nucleotide binding]; other site 399599001115 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 399599001116 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 399599001117 dimer interface [polypeptide binding]; other site 399599001118 active site 399599001119 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 399599001120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399599001121 NAD(P) binding site [chemical binding]; other site 399599001122 active site 399599001123 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 399599001124 putative active site 1 [active] 399599001125 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 399599001126 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 399599001127 dimer interface [polypeptide binding]; other site 399599001128 active site 399599001129 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 399599001130 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 399599001131 Predicted exporter [General function prediction only]; Region: COG4258 399599001132 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 399599001133 active site 399599001134 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 399599001135 active sites [active] 399599001136 tetramer interface [polypeptide binding]; other site 399599001137 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 399599001138 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 399599001139 Ligand binding site; other site 399599001140 Putative Catalytic site; other site 399599001141 DXD motif; other site 399599001142 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 399599001143 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 399599001144 putative acyl-acceptor binding pocket; other site 399599001145 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 399599001146 active site 2 [active] 399599001147 dimer interface [polypeptide binding]; other site 399599001148 active site 1 [active] 399599001149 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 399599001150 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 399599001151 acyl-activating enzyme (AAE) consensus motif; other site 399599001152 AMP binding site [chemical binding]; other site 399599001153 active site 399599001154 CoA binding site [chemical binding]; other site 399599001155 Predicted membrane protein [Function unknown]; Region: COG4648 399599001156 acyl carrier protein; Provisional; Region: PRK05350 399599001157 Phosphopantetheine attachment site; Region: PP-binding; cl09936 399599001158 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 399599001159 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 399599001160 putative acyl-acceptor binding pocket; other site 399599001161 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 399599001162 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 399599001163 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 399599001164 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 399599001165 generic binding surface II; other site 399599001166 ssDNA binding site; other site 399599001167 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 399599001168 ATP binding site [chemical binding]; other site 399599001169 putative Mg++ binding site [ion binding]; other site 399599001170 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 399599001171 nucleotide binding region [chemical binding]; other site 399599001172 ATP-binding site [chemical binding]; other site 399599001173 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 399599001174 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599001175 active site 399599001176 phosphorylation site [posttranslational modification] 399599001177 intermolecular recognition site; other site 399599001178 dimerization interface [polypeptide binding]; other site 399599001179 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 399599001180 DNA binding residues [nucleotide binding] 399599001181 dimerization interface [polypeptide binding]; other site 399599001182 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 399599001183 Histidine kinase; Region: HisKA_3; pfam07730 399599001184 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599001185 ATP binding site [chemical binding]; other site 399599001186 Mg2+ binding site [ion binding]; other site 399599001187 G-X-G motif; other site 399599001188 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 399599001189 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 399599001190 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 399599001191 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 399599001192 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 399599001193 acyl-activating enzyme (AAE) consensus motif; other site 399599001194 putative AMP binding site [chemical binding]; other site 399599001195 putative active site [active] 399599001196 putative CoA binding site [chemical binding]; other site 399599001197 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 399599001198 homotrimer interaction site [polypeptide binding]; other site 399599001199 putative active site [active] 399599001200 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 399599001201 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399599001202 Zn2+ binding site [ion binding]; other site 399599001203 Mg2+ binding site [ion binding]; other site 399599001204 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 399599001205 synthetase active site [active] 399599001206 NTP binding site [chemical binding]; other site 399599001207 metal binding site [ion binding]; metal-binding site 399599001208 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 399599001209 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 399599001210 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 399599001211 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 399599001212 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 399599001213 catalytic site [active] 399599001214 G-X2-G-X-G-K; other site 399599001215 ribonuclease E; Reviewed; Region: rne; PRK10811 399599001216 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 399599001217 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 399599001218 active site 399599001219 Phosphotransferase enzyme family; Region: APH; pfam01636 399599001220 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 399599001221 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599001222 putative substrate translocation pore; other site 399599001223 Major Facilitator Superfamily; Region: MFS_1; pfam07690 399599001224 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 399599001225 Fic family protein [Function unknown]; Region: COG3177 399599001226 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 399599001227 Fic/DOC family; Region: Fic; pfam02661 399599001228 AAA domain; Region: AAA_14; pfam13173 399599001229 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 399599001230 Fic family protein [Function unknown]; Region: COG3177 399599001231 Restriction endonuclease; Region: Mrr_cat; pfam04471 399599001232 RNase E inhibitor protein; Provisional; Region: PRK11191 399599001233 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 399599001234 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399599001235 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599001236 ATP binding site [chemical binding]; other site 399599001237 Mg2+ binding site [ion binding]; other site 399599001238 G-X-G motif; other site 399599001239 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 399599001240 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 399599001241 cofactor binding site; other site 399599001242 DNA binding site [nucleotide binding] 399599001243 substrate interaction site [chemical binding]; other site 399599001244 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 399599001245 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599001246 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599001247 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 399599001248 putative effector binding pocket; other site 399599001249 dimerization interface [polypeptide binding]; other site 399599001250 dUMP phosphatase; Provisional; Region: PRK09449 399599001251 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 399599001252 motif II; other site 399599001253 ERCC4 domain; Region: ERCC4; smart00891 399599001254 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 399599001255 non-specific DNA binding site [nucleotide binding]; other site 399599001256 salt bridge; other site 399599001257 sequence-specific DNA binding site [nucleotide binding]; other site 399599001258 HipA N-terminal domain; Region: Couple_hipA; cl11853 399599001259 hypothetical protein; Provisional; Region: PRK11820 399599001260 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 399599001261 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 399599001262 ribonuclease PH; Reviewed; Region: rph; PRK00173 399599001263 Ribonuclease PH; Region: RNase_PH_bact; cd11362 399599001264 hexamer interface [polypeptide binding]; other site 399599001265 active site 399599001266 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 399599001267 active site 399599001268 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 399599001269 GTP cyclohydrolase I; Provisional; Region: PLN03044 399599001270 active site 399599001271 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 399599001272 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399599001273 division inhibitor protein; Provisional; Region: slmA; PRK09480 399599001274 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399599001275 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 399599001276 trimer interface [polypeptide binding]; other site 399599001277 active site 399599001278 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 399599001279 Flavoprotein; Region: Flavoprotein; pfam02441 399599001280 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 399599001281 hypothetical protein; Reviewed; Region: PRK00024 399599001282 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 399599001283 MPN+ (JAMM) motif; other site 399599001284 Zinc-binding site [ion binding]; other site 399599001285 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 399599001286 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 399599001287 N-acetylglutamate synthase; Validated; Region: PRK05279 399599001288 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 399599001289 putative feedback inhibition sensing region; other site 399599001290 putative nucleotide binding site [chemical binding]; other site 399599001291 putative substrate binding site [chemical binding]; other site 399599001292 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599001293 Coenzyme A binding pocket [chemical binding]; other site 399599001294 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 399599001295 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 399599001296 CoenzymeA binding site [chemical binding]; other site 399599001297 subunit interaction site [polypeptide binding]; other site 399599001298 PHB binding site; other site 399599001299 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 399599001300 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 399599001301 ATP binding site [chemical binding]; other site 399599001302 putative Mg++ binding site [ion binding]; other site 399599001303 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 399599001304 nucleotide binding region [chemical binding]; other site 399599001305 ATP-binding site [chemical binding]; other site 399599001306 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 399599001307 HRDC domain; Region: HRDC; pfam00570 399599001308 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599001309 I-site; other site 399599001310 active site 399599001311 metal binding site [ion binding]; metal-binding site 399599001312 2-isopropylmalate synthase; Validated; Region: PRK00915 399599001313 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 399599001314 active site 399599001315 catalytic residues [active] 399599001316 metal binding site [ion binding]; metal-binding site 399599001317 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 399599001318 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 399599001319 tartrate dehydrogenase; Region: TTC; TIGR02089 399599001320 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 399599001321 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 399599001322 substrate binding site [chemical binding]; other site 399599001323 ligand binding site [chemical binding]; other site 399599001324 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 399599001325 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 399599001326 substrate binding site [chemical binding]; other site 399599001327 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 399599001328 glycerol kinase; Provisional; Region: glpK; PRK00047 399599001329 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 399599001330 N- and C-terminal domain interface [polypeptide binding]; other site 399599001331 active site 399599001332 MgATP binding site [chemical binding]; other site 399599001333 catalytic site [active] 399599001334 metal binding site [ion binding]; metal-binding site 399599001335 glycerol binding site [chemical binding]; other site 399599001336 homotetramer interface [polypeptide binding]; other site 399599001337 homodimer interface [polypeptide binding]; other site 399599001338 FBP binding site [chemical binding]; other site 399599001339 protein IIAGlc interface [polypeptide binding]; other site 399599001340 cell division protein MraZ; Reviewed; Region: PRK00326 399599001341 MraZ protein; Region: MraZ; pfam02381 399599001342 MraZ protein; Region: MraZ; pfam02381 399599001343 MraW methylase family; Region: Methyltransf_5; pfam01795 399599001344 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 399599001345 Cell division protein FtsL; Region: FtsL; pfam04999 399599001346 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 399599001347 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 399599001348 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 399599001349 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 399599001350 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 399599001351 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 399599001352 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 399599001353 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 399599001354 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 399599001355 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 399599001356 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 399599001357 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 399599001358 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 399599001359 Mg++ binding site [ion binding]; other site 399599001360 putative catalytic motif [active] 399599001361 putative substrate binding site [chemical binding]; other site 399599001362 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 399599001363 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 399599001364 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 399599001365 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 399599001366 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 399599001367 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 399599001368 active site 399599001369 homodimer interface [polypeptide binding]; other site 399599001370 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 399599001371 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 399599001372 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 399599001373 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 399599001374 cell division protein FtsQ; Provisional; Region: PRK10775 399599001375 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 399599001376 Cell division protein FtsQ; Region: FtsQ; pfam03799 399599001377 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 399599001378 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 399599001379 nucleotide binding site [chemical binding]; other site 399599001380 Cell division protein FtsA; Region: FtsA; pfam14450 399599001381 cell division protein FtsZ; Validated; Region: PRK09330 399599001382 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 399599001383 nucleotide binding site [chemical binding]; other site 399599001384 SulA interaction site; other site 399599001385 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 399599001386 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 399599001387 Protein of unknown function (DUF721); Region: DUF721; cl02324 399599001388 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 399599001389 Peptidase family M23; Region: Peptidase_M23; pfam01551 399599001390 preprotein translocase subunit SecA; Reviewed; Region: PRK13107 399599001391 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 399599001392 SEC-C motif; Region: SEC-C; pfam02810 399599001393 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 399599001394 dimer interface [polypeptide binding]; other site 399599001395 allosteric magnesium binding site [ion binding]; other site 399599001396 active site 399599001397 aspartate-rich active site metal binding site; other site 399599001398 Schiff base residues; other site 399599001399 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 399599001400 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 399599001401 hypothetical protein; Region: PHA02277 399599001402 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599001403 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599001404 metal binding site [ion binding]; metal-binding site 399599001405 active site 399599001406 I-site; other site 399599001407 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 399599001408 active site 399599001409 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 399599001410 sec-independent translocase; Provisional; Region: PRK01770 399599001411 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 399599001412 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 399599001413 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 399599001414 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 399599001415 SCP-2 sterol transfer family; Region: SCP2; pfam02036 399599001416 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 399599001417 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 399599001418 S-adenosylmethionine binding site [chemical binding]; other site 399599001419 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 399599001420 putative active site [active] 399599001421 putative metal binding site [ion binding]; other site 399599001422 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 399599001423 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 399599001424 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 399599001425 active site 399599001426 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 399599001427 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 399599001428 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 399599001429 nucleophilic elbow; other site 399599001430 catalytic triad; other site 399599001431 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 399599001432 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 399599001433 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 399599001434 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 399599001435 DHHA2 domain; Region: DHHA2; pfam02833 399599001436 Domain of unknown function (DUF386); Region: DUF386; cl01047 399599001437 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 399599001438 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 399599001439 N-terminal plug; other site 399599001440 ligand-binding site [chemical binding]; other site 399599001441 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 399599001442 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 399599001443 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 399599001444 probable active site [active] 399599001445 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 399599001446 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 399599001447 DXD motif; other site 399599001448 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 399599001449 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 399599001450 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 399599001451 metal binding site [ion binding]; metal-binding site 399599001452 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 399599001453 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 399599001454 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 399599001455 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 399599001456 NADP binding site [chemical binding]; other site 399599001457 active site 399599001458 putative substrate binding site [chemical binding]; other site 399599001459 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399599001460 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599001461 ATP binding site [chemical binding]; other site 399599001462 Mg2+ binding site [ion binding]; other site 399599001463 G-X-G motif; other site 399599001464 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 399599001465 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599001466 active site 399599001467 phosphorylation site [posttranslational modification] 399599001468 intermolecular recognition site; other site 399599001469 dimerization interface [polypeptide binding]; other site 399599001470 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399599001471 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 399599001472 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 399599001473 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 399599001474 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 399599001475 active site 399599001476 Zn binding site [ion binding]; other site 399599001477 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 399599001478 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 399599001479 C factor cell-cell signaling protein; Provisional; Region: PRK09009 399599001480 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 399599001481 NADP binding site [chemical binding]; other site 399599001482 homodimer interface [polypeptide binding]; other site 399599001483 active site 399599001484 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 399599001485 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 399599001486 Domain of unknown function (DUF4375); Region: DUF4375; pfam14300 399599001487 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 399599001488 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 399599001489 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 399599001490 Walker A motif; other site 399599001491 ATP binding site [chemical binding]; other site 399599001492 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 399599001493 Walker B motif; other site 399599001494 arginine finger; other site 399599001495 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 399599001496 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 399599001497 active site 399599001498 HslU subunit interaction site [polypeptide binding]; other site 399599001499 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 399599001500 RibD C-terminal domain; Region: RibD_C; cl17279 399599001501 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 399599001502 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599001503 active site 399599001504 phosphorylation site [posttranslational modification] 399599001505 intermolecular recognition site; other site 399599001506 dimerization interface [polypeptide binding]; other site 399599001507 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 399599001508 DNA binding residues [nucleotide binding] 399599001509 dimerization interface [polypeptide binding]; other site 399599001510 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 399599001511 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 399599001512 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599001513 ATP binding site [chemical binding]; other site 399599001514 Mg2+ binding site [ion binding]; other site 399599001515 G-X-G motif; other site 399599001516 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599001517 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599001518 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 399599001519 putative effector binding pocket; other site 399599001520 dimerization interface [polypeptide binding]; other site 399599001521 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 399599001522 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 399599001523 FMN binding site [chemical binding]; other site 399599001524 active site 399599001525 substrate binding site [chemical binding]; other site 399599001526 catalytic residue [active] 399599001527 SnoaL-like polyketide cyclase; Region: SnoaL; pfam07366 399599001528 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 399599001529 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 399599001530 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 399599001531 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 399599001532 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 399599001533 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 399599001534 Cytochrome c; Region: Cytochrom_C; cl11414 399599001535 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 399599001536 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 399599001537 classical (c) SDRs; Region: SDR_c; cd05233 399599001538 NAD(P) binding site [chemical binding]; other site 399599001539 active site 399599001540 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599001541 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599001542 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 399599001543 dimerization interface [polypeptide binding]; other site 399599001544 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 399599001545 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 399599001546 substrate binding pocket [chemical binding]; other site 399599001547 membrane-bound complex binding site; other site 399599001548 hinge residues; other site 399599001549 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 399599001550 Sel1-like repeats; Region: SEL1; smart00671 399599001551 Sel1-like repeats; Region: SEL1; smart00671 399599001552 Sel1-like repeats; Region: SEL1; smart00671 399599001553 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 399599001554 Mechanosensitive ion channel; Region: MS_channel; pfam00924 399599001555 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 399599001556 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Ornithine Decarboxylase; Region: PLPDE_III_ODC; cd00622 399599001557 dimer interface [polypeptide binding]; other site 399599001558 active site 399599001559 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 399599001560 catalytic residues [active] 399599001561 substrate binding site [chemical binding]; other site 399599001562 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2841 399599001563 uridine phosphorylase; Provisional; Region: PRK11178 399599001564 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 399599001565 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 399599001566 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 399599001567 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 399599001568 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 399599001569 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 399599001570 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 399599001571 Cell division protein [Cell division and chromosome partitioning]; Region: FtsN; COG3087 399599001572 Sporulation related domain; Region: SPOR; pfam05036 399599001573 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 399599001574 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 399599001575 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 399599001576 active site 399599001577 HIGH motif; other site 399599001578 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 399599001579 KMSK motif region; other site 399599001580 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 399599001581 tRNA binding surface [nucleotide binding]; other site 399599001582 anticodon binding site; other site 399599001583 primosome assembly protein PriA; Validated; Region: PRK05580 399599001584 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 399599001585 ATP binding site [chemical binding]; other site 399599001586 putative Mg++ binding site [ion binding]; other site 399599001587 helicase superfamily c-terminal domain; Region: HELICc; smart00490 399599001588 FimV N-terminal domain; Region: FimV_core; TIGR03505 399599001589 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 399599001590 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 399599001591 Malic enzyme, N-terminal domain; Region: malic; pfam00390 399599001592 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 399599001593 putative NAD(P) binding site [chemical binding]; other site 399599001594 regulatory protein CsrD; Provisional; Region: PRK11059 399599001595 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599001596 metal binding site [ion binding]; metal-binding site 399599001597 active site 399599001598 I-site; other site 399599001599 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 399599001600 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 399599001601 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 399599001602 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 399599001603 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 399599001604 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 399599001605 Walker A motif; other site 399599001606 ATP binding site [chemical binding]; other site 399599001607 Walker B motif; other site 399599001608 arginine finger; other site 399599001609 Tetratricopeptide repeat; Region: TPR_16; pfam13432 399599001610 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 399599001611 TPR motif; other site 399599001612 binding surface 399599001613 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 399599001614 binding surface 399599001615 TPR motif; other site 399599001616 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 399599001617 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 399599001618 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 399599001619 Walker A motif; other site 399599001620 ATP binding site [chemical binding]; other site 399599001621 Walker B motif; other site 399599001622 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 399599001623 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 399599001624 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 399599001625 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 399599001626 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 399599001627 VcfQ bacterial pilus biogenesis protein, lectin domain; Region: lectin_VcfQ; cd06900 399599001628 putative metal binding site [ion binding]; other site 399599001629 rod shape-determining protein MreB; Provisional; Region: PRK13927 399599001630 MreB and similar proteins; Region: MreB_like; cd10225 399599001631 nucleotide binding site [chemical binding]; other site 399599001632 Mg binding site [ion binding]; other site 399599001633 putative protofilament interaction site [polypeptide binding]; other site 399599001634 RodZ interaction site [polypeptide binding]; other site 399599001635 rod shape-determining protein MreC; Region: mreC; TIGR00219 399599001636 rod shape-determining protein MreC; Region: MreC; pfam04085 399599001637 rod shape-determining protein MreD; Region: MreD; cl01087 399599001638 Maf-like protein; Region: Maf; pfam02545 399599001639 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 399599001640 active site 399599001641 dimer interface [polypeptide binding]; other site 399599001642 ribonuclease G; Provisional; Region: PRK11712 399599001643 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 399599001644 homodimer interface [polypeptide binding]; other site 399599001645 oligonucleotide binding site [chemical binding]; other site 399599001646 TIGR02099 family protein; Region: TIGR02099 399599001647 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 399599001648 nitrilase; Region: PLN02798 399599001649 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 399599001650 putative active site [active] 399599001651 catalytic triad [active] 399599001652 dimer interface [polypeptide binding]; other site 399599001653 protease TldD; Provisional; Region: tldD; PRK10735 399599001654 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 399599001655 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 399599001656 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399599001657 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599001658 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 399599001659 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 399599001660 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 399599001661 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 399599001662 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 399599001663 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 399599001664 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 399599001665 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 399599001666 hypothetical protein; Provisional; Region: PRK05255 399599001667 peptidase PmbA; Provisional; Region: PRK11040 399599001668 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 399599001669 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 399599001670 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399599001671 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 399599001672 substrate binding pocket [chemical binding]; other site 399599001673 membrane-bound complex binding site; other site 399599001674 hinge residues; other site 399599001675 Domain of unknown function; Region: DUF331; pfam03889 399599001676 fumarate hydratase; Reviewed; Region: fumC; PRK00485 399599001677 Class II fumarases; Region: Fumarase_classII; cd01362 399599001678 active site 399599001679 tetramer interface [polypeptide binding]; other site 399599001680 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 399599001681 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 399599001682 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 399599001683 FeS/SAM binding site; other site 399599001684 Uncharacterized conserved protein [Function unknown]; Region: COG2968 399599001685 oxidative stress defense protein; Provisional; Region: PRK11087 399599001686 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 399599001687 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 399599001688 N-terminal plug; other site 399599001689 ligand-binding site [chemical binding]; other site 399599001690 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 399599001691 Methyltransferase domain; Region: Methyltransf_23; pfam13489 399599001692 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 399599001693 S-adenosylmethionine binding site [chemical binding]; other site 399599001694 nicotinamide riboside transporter PnuC; Provisional; Region: PRK15397 399599001695 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 399599001696 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 399599001697 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 399599001698 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 399599001699 ligand binding site [chemical binding]; other site 399599001700 flexible hinge region; other site 399599001701 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 399599001702 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 399599001703 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 399599001704 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 399599001705 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 399599001706 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 399599001707 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 399599001708 ATP binding site [chemical binding]; other site 399599001709 active site 399599001710 substrate binding site [chemical binding]; other site 399599001711 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 399599001712 putative hydrophobic ligand binding site [chemical binding]; other site 399599001713 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 399599001714 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 399599001715 thiosulfate reductase PhsA; Provisional; Region: PRK15488 399599001716 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 399599001717 putative [Fe4-S4] binding site [ion binding]; other site 399599001718 putative molybdopterin cofactor binding site [chemical binding]; other site 399599001719 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 399599001720 putative molybdopterin cofactor binding site; other site 399599001721 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 399599001722 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 399599001723 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 399599001724 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 399599001725 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 399599001726 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 399599001727 dimerization interface [polypeptide binding]; other site 399599001728 DNA binding site [nucleotide binding] 399599001729 corepressor binding sites; other site 399599001730 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 399599001731 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 399599001732 homodimer interface [polypeptide binding]; other site 399599001733 substrate-cofactor binding pocket; other site 399599001734 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599001735 catalytic residue [active] 399599001736 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 399599001737 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 399599001738 nucleotide binding site [chemical binding]; other site 399599001739 substrate binding site [chemical binding]; other site 399599001740 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 399599001741 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 399599001742 FAD binding site [chemical binding]; other site 399599001743 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 399599001744 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 399599001745 dimerization interface [polypeptide binding]; other site 399599001746 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599001747 dimer interface [polypeptide binding]; other site 399599001748 putative CheW interface [polypeptide binding]; other site 399599001749 transcriptional regulator SlyA; Provisional; Region: PRK03573 399599001750 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 399599001751 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 399599001752 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399599001753 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599001754 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 399599001755 Cytochrome c; Region: Cytochrom_C; cl11414 399599001756 Cytochrome c; Region: Cytochrom_C; pfam00034 399599001757 Cytochrome c [Energy production and conversion]; Region: COG3258 399599001758 Cytochrome c; Region: Cytochrom_C; pfam00034 399599001759 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 399599001760 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 399599001761 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 399599001762 rarD protein; Region: rarD; TIGR00688 399599001763 EamA-like transporter family; Region: EamA; pfam00892 399599001764 phosphoglycolate phosphatase; Provisional; Region: PRK13222 399599001765 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 399599001766 active site 399599001767 motif I; other site 399599001768 motif II; other site 399599001769 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 399599001770 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 399599001771 ATP binding site [chemical binding]; other site 399599001772 Mg++ binding site [ion binding]; other site 399599001773 motif III; other site 399599001774 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 399599001775 nucleotide binding region [chemical binding]; other site 399599001776 ATP-binding site [chemical binding]; other site 399599001777 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 399599001778 putative RNA binding site [nucleotide binding]; other site 399599001779 M28 Zn-Peptidases; Region: M28_like_2; cd05662 399599001780 Peptidase family M28; Region: Peptidase_M28; pfam04389 399599001781 metal binding site [ion binding]; metal-binding site 399599001782 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 399599001783 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 399599001784 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 399599001785 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 399599001786 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599001787 Major Facilitator Superfamily; Region: MFS_1; pfam07690 399599001788 putative substrate translocation pore; other site 399599001789 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 399599001790 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 399599001791 dimer interface [polypeptide binding]; other site 399599001792 ssDNA binding site [nucleotide binding]; other site 399599001793 tetramer (dimer of dimers) interface [polypeptide binding]; other site 399599001794 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 399599001795 DNA binding site [nucleotide binding] 399599001796 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 399599001797 active site 399599001798 catalytic residues [active] 399599001799 DNA binding site [nucleotide binding] 399599001800 Int/Topo IB signature motif; other site 399599001801 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4688 399599001802 chromosome segregation protein; Provisional; Region: PRK03918 399599001803 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 399599001804 AAA domain; Region: AAA_30; pfam13604 399599001805 Family description; Region: UvrD_C_2; pfam13538 399599001806 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 399599001807 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 399599001808 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 399599001809 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 399599001810 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 399599001811 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 399599001812 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 399599001813 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 399599001814 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 399599001815 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; cl17747 399599001816 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 399599001817 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 399599001818 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 399599001819 Domain of unknown function (DUF1835); Region: DUF1835; pfam08874 399599001820 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 399599001821 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 399599001822 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 399599001823 Domain of unknown function (DUF4354); Region: DUF4354; pfam14263 399599001824 Salmonella virulence plasmid 28.1kDa A protein; Region: VRP1; pfam03538 399599001825 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 399599001826 Family description; Region: VCBS; pfam13517 399599001827 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 399599001828 Insecticide toxin TcdB middle/C-terminal region; Region: TcdB_toxin_midC; pfam12255 399599001829 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 399599001830 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 399599001831 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 399599001832 Archaebacterial flagellin; Region: Arch_flagellin; cl00732 399599001833 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 399599001834 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 399599001835 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 399599001836 catalytic residues [active] 399599001837 catalytic nucleophile [active] 399599001838 Presynaptic Site I dimer interface [polypeptide binding]; other site 399599001839 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 399599001840 Synaptic Flat tetramer interface [polypeptide binding]; other site 399599001841 Synaptic Site I dimer interface [polypeptide binding]; other site 399599001842 DNA binding site [nucleotide binding] 399599001843 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 399599001844 DNA-binding interface [nucleotide binding]; DNA binding site 399599001845 Integrase core domain; Region: rve; pfam00665 399599001846 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 399599001847 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 399599001848 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 399599001849 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 399599001850 DNA binding site [nucleotide binding] 399599001851 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 399599001852 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 399599001853 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 399599001854 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 399599001855 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 399599001856 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 399599001857 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 399599001858 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 399599001859 Bacterial Ig-like domain (group 1); Region: BID_1; smart00634 399599001860 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 399599001861 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 399599001862 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 399599001863 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 399599001864 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13640 399599001865 Protein of unknown function (DUF1566); Region: DUF1566; pfam07603 399599001866 Transposase; Region: HTH_Tnp_1; cl17663 399599001867 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599001868 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599001869 Walker A/P-loop; other site 399599001870 ATP binding site [chemical binding]; other site 399599001871 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 399599001872 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 399599001873 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 399599001874 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599001875 active site 399599001876 phosphorylation site [posttranslational modification] 399599001877 intermolecular recognition site; other site 399599001878 dimerization interface [polypeptide binding]; other site 399599001879 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 399599001880 DNA binding site [nucleotide binding] 399599001881 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399599001882 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 399599001883 dimerization interface [polypeptide binding]; other site 399599001884 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 399599001885 dimer interface [polypeptide binding]; other site 399599001886 phosphorylation site [posttranslational modification] 399599001887 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 399599001888 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 399599001889 substrate binding site [chemical binding]; other site 399599001890 macrolide transporter subunit MacA; Provisional; Region: PRK11578 399599001891 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399599001892 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599001893 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 399599001894 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 399599001895 Walker A/P-loop; other site 399599001896 ATP binding site [chemical binding]; other site 399599001897 Q-loop/lid; other site 399599001898 ABC transporter signature motif; other site 399599001899 Walker B; other site 399599001900 D-loop; other site 399599001901 H-loop/switch region; other site 399599001902 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 399599001903 FtsX-like permease family; Region: FtsX; pfam02687 399599001904 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 399599001905 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 399599001906 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 399599001907 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399599001908 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 399599001909 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 399599001910 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 399599001911 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 399599001912 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 399599001913 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 399599001914 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 399599001915 eyelet of channel; other site 399599001916 trimer interface [polypeptide binding]; other site 399599001917 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 399599001918 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 399599001919 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 399599001920 L-aspartate oxidase; Provisional; Region: PRK06175 399599001921 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 399599001922 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13554 399599001923 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 399599001924 Iron-sulfur protein interface; other site 399599001925 proximal heme binding site [chemical binding]; other site 399599001926 distal heme binding site [chemical binding]; other site 399599001927 dimer interface [polypeptide binding]; other site 399599001928 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 399599001929 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 399599001930 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 399599001931 Aspartase; Region: Aspartase; cd01357 399599001932 active sites [active] 399599001933 tetramer interface [polypeptide binding]; other site 399599001934 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 399599001935 active site 399599001936 homodimer interface [polypeptide binding]; other site 399599001937 homotetramer interface [polypeptide binding]; other site 399599001938 Domain of unknown function (DUF4234); Region: DUF4234; pfam14018 399599001939 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 399599001940 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 399599001941 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 399599001942 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 399599001943 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 399599001944 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 399599001945 Part of AAA domain; Region: AAA_19; pfam13245 399599001946 AAA domain; Region: AAA_12; pfam13087 399599001947 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 399599001948 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 399599001949 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 399599001950 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 399599001951 N-acetyl-D-glucosamine binding site [chemical binding]; other site 399599001952 catalytic residue [active] 399599001953 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 399599001954 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 399599001955 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 399599001956 Leucine rich repeat; Region: LRR_8; pfam13855 399599001957 Substrate binding site [chemical binding]; other site 399599001958 Leucine rich repeat; Region: LRR_8; pfam13855 399599001959 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 399599001960 Protein kinase domain; Region: Pkinase; pfam00069 399599001961 active site 399599001962 ATP binding site [chemical binding]; other site 399599001963 substrate binding site [chemical binding]; other site 399599001964 activation loop (A-loop); other site 399599001965 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399599001966 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599001967 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 399599001968 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 399599001969 Sel1-like repeats; Region: SEL1; smart00671 399599001970 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 399599001971 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 399599001972 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 399599001973 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 399599001974 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 399599001975 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 399599001976 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 399599001977 NAD(P) binding site [chemical binding]; other site 399599001978 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 399599001979 active site 399599001980 catalytic residues [active] 399599001981 galactokinase; Provisional; Region: PRK05101 399599001982 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 399599001983 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 399599001984 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 399599001985 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 399599001986 TrkA-N domain; Region: TrkA_N; pfam02254 399599001987 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 399599001988 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 399599001989 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 399599001990 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 399599001991 DsbD alpha interface [polypeptide binding]; other site 399599001992 catalytic residues [active] 399599001993 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 399599001994 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 399599001995 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 399599001996 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399599001997 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599001998 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599001999 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599002000 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 399599002001 putative effector binding pocket; other site 399599002002 dimerization interface [polypeptide binding]; other site 399599002003 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 399599002004 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 399599002005 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 399599002006 oligomerisation interface [polypeptide binding]; other site 399599002007 mobile loop; other site 399599002008 roof hairpin; other site 399599002009 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 399599002010 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 399599002011 ring oligomerisation interface [polypeptide binding]; other site 399599002012 ATP/Mg binding site [chemical binding]; other site 399599002013 stacking interactions; other site 399599002014 hinge regions; other site 399599002015 HEAT repeats; Region: HEAT_2; pfam13646 399599002016 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 399599002017 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 399599002018 non-specific DNA binding site [nucleotide binding]; other site 399599002019 salt bridge; other site 399599002020 sequence-specific DNA binding site [nucleotide binding]; other site 399599002021 HipA N-terminal domain; Region: Couple_hipA; pfam13657 399599002022 HipA-like N-terminal domain; Region: HipA_N; pfam07805 399599002023 HipA-like C-terminal domain; Region: HipA_C; pfam07804 399599002024 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599002025 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599002026 metal binding site [ion binding]; metal-binding site 399599002027 active site 399599002028 I-site; other site 399599002029 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 399599002030 Protein of unknown function (DUF2999); Region: DUF2999; pfam11212 399599002031 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 399599002032 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599002033 ATP binding site [chemical binding]; other site 399599002034 Q-loop/lid; other site 399599002035 ABC transporter signature motif; other site 399599002036 Walker B; other site 399599002037 D-loop; other site 399599002038 H-loop/switch region; other site 399599002039 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599002040 Walker A/P-loop; other site 399599002041 ATP binding site [chemical binding]; other site 399599002042 Q-loop/lid; other site 399599002043 ABC transporter signature motif; other site 399599002044 Walker B; other site 399599002045 D-loop; other site 399599002046 H-loop/switch region; other site 399599002047 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 399599002048 Zn binding site [ion binding]; other site 399599002049 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 399599002050 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 399599002051 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 399599002052 catalytic residues [active] 399599002053 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 399599002054 DNA-binding site [nucleotide binding]; DNA binding site 399599002055 RNA-binding motif; other site 399599002056 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 399599002057 Predicted transcriptional regulators [Transcription]; Region: COG1695 399599002058 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 399599002059 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 399599002060 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 399599002061 putative active site [active] 399599002062 heme pocket [chemical binding]; other site 399599002063 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 399599002064 putative active site [active] 399599002065 heme pocket [chemical binding]; other site 399599002066 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599002067 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599002068 metal binding site [ion binding]; metal-binding site 399599002069 active site 399599002070 I-site; other site 399599002071 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 399599002072 dimer interface [polypeptide binding]; other site 399599002073 Alkaline phosphatase homologues; Region: alkPPc; smart00098 399599002074 active site 399599002075 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 399599002076 dimer interface [polypeptide binding]; other site 399599002077 Alkaline phosphatase homologues; Region: alkPPc; smart00098 399599002078 active site 399599002079 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 399599002080 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399599002081 Helix-turn-helix domain; Region: HTH_18; pfam12833 399599002082 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399599002083 LysE type translocator; Region: LysE; cl00565 399599002084 outer membrane protein A; Reviewed; Region: PRK10808 399599002085 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 399599002086 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399599002087 ligand binding site [chemical binding]; other site 399599002088 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 399599002089 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 399599002090 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 399599002091 GAF domain; Region: GAF; pfam01590 399599002092 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599002093 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599002094 metal binding site [ion binding]; metal-binding site 399599002095 active site 399599002096 I-site; other site 399599002097 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 399599002098 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 399599002099 active site 399599002100 lipoprotein; Provisional; Region: PRK11443 399599002101 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 399599002102 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 399599002103 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 399599002104 ATP binding site [chemical binding]; other site 399599002105 Transposase; Region: HTH_Tnp_1; cl17663 399599002106 putative outer membrane lipoprotein; Provisional; Region: PRK10510 399599002107 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399599002108 ligand binding site [chemical binding]; other site 399599002109 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 399599002110 molybdate ABC transporter periplasmic molybdate-binding protein; Provisional; Region: PRK03537 399599002111 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 399599002112 MgtE intracellular N domain; Region: MgtE_N; smart00924 399599002113 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 399599002114 Divalent cation transporter; Region: MgtE; pfam01769 399599002115 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 399599002116 dimerization domain swap beta strand [polypeptide binding]; other site 399599002117 regulatory protein interface [polypeptide binding]; other site 399599002118 active site 399599002119 regulatory phosphorylation site [posttranslational modification]; other site 399599002120 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 399599002121 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 399599002122 active site 399599002123 phosphorylation site [posttranslational modification] 399599002124 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 399599002125 30S subunit binding site; other site 399599002126 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 399599002127 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 399599002128 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 399599002129 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 399599002130 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 399599002131 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 399599002132 Walker A/P-loop; other site 399599002133 ATP binding site [chemical binding]; other site 399599002134 Q-loop/lid; other site 399599002135 ABC transporter signature motif; other site 399599002136 Walker B; other site 399599002137 D-loop; other site 399599002138 H-loop/switch region; other site 399599002139 OstA-like protein; Region: OstA; cl00844 399599002140 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 399599002141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 399599002142 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 399599002143 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 399599002144 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 399599002145 active site 399599002146 motif I; other site 399599002147 motif II; other site 399599002148 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 399599002149 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 399599002150 putative active site [active] 399599002151 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 399599002152 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 399599002153 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 399599002154 Walker A/P-loop; other site 399599002155 ATP binding site [chemical binding]; other site 399599002156 Q-loop/lid; other site 399599002157 ABC transporter signature motif; other site 399599002158 Walker B; other site 399599002159 D-loop; other site 399599002160 H-loop/switch region; other site 399599002161 conserved hypothetical integral membrane protein; Region: TIGR00056 399599002162 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 399599002163 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 399599002164 mce related protein; Region: MCE; pfam02470 399599002165 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 399599002166 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 399599002167 anti sigma factor interaction site; other site 399599002168 regulatory phosphorylation site [posttranslational modification]; other site 399599002169 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 399599002170 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 399599002171 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 399599002172 hinge; other site 399599002173 active site 399599002174 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 399599002175 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 399599002176 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 399599002177 protein binding site [polypeptide binding]; other site 399599002178 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 399599002179 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 399599002180 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 399599002181 protein binding site [polypeptide binding]; other site 399599002182 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 399599002183 Predicted ATPase [General function prediction only]; Region: COG1485 399599002184 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 399599002185 23S rRNA interface [nucleotide binding]; other site 399599002186 L3 interface [polypeptide binding]; other site 399599002187 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 399599002188 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 399599002189 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 399599002190 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 399599002191 GDP-binding site [chemical binding]; other site 399599002192 ACT binding site; other site 399599002193 IMP binding site; other site 399599002194 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 399599002195 Sel1-like repeats; Region: SEL1; smart00671 399599002196 exoribonuclease R; Provisional; Region: PRK11642 399599002197 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 399599002198 RNB domain; Region: RNB; pfam00773 399599002199 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 399599002200 RNA binding site [nucleotide binding]; other site 399599002201 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 399599002202 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 399599002203 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 399599002204 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599002205 Major Facilitator Superfamily; Region: MFS_1; pfam07690 399599002206 putative substrate translocation pore; other site 399599002207 Protein of unknown function, DUF481; Region: DUF481; pfam04338 399599002208 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 399599002209 primosomal replication protein N; Provisional; Region: PRK02801 399599002210 generic binding surface II; other site 399599002211 generic binding surface I; other site 399599002212 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 399599002213 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 399599002214 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 399599002215 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 399599002216 Peptidase S46; Region: Peptidase_S46; pfam10459 399599002217 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 399599002218 replicative DNA helicase; Provisional; Region: PRK08006 399599002219 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 399599002220 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 399599002221 Walker A motif; other site 399599002222 ATP binding site [chemical binding]; other site 399599002223 Walker B motif; other site 399599002224 DNA binding loops [nucleotide binding] 399599002225 alanine racemase; Reviewed; Region: alr; PRK00053 399599002226 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 399599002227 active site 399599002228 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 399599002229 substrate binding site [chemical binding]; other site 399599002230 catalytic residues [active] 399599002231 dimer interface [polypeptide binding]; other site 399599002232 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 399599002233 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 399599002234 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 399599002235 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 399599002236 N-terminal plug; other site 399599002237 ligand-binding site [chemical binding]; other site 399599002238 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 399599002239 Protein of unknown function (DUF1778); Region: DUF1778; cl01845 399599002240 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 399599002241 Coenzyme A binding pocket [chemical binding]; other site 399599002242 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 399599002243 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 399599002244 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 399599002245 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 399599002246 active site 399599002247 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 399599002248 non-specific DNA binding site [nucleotide binding]; other site 399599002249 salt bridge; other site 399599002250 sequence-specific DNA binding site [nucleotide binding]; other site 399599002251 Predicted transcriptional regulator [Transcription]; Region: COG2932 399599002252 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 399599002253 Catalytic site [active] 399599002254 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 399599002255 Helix-turn-helix domain; Region: HTH_36; pfam13730 399599002256 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 399599002257 Replication protein P; Region: Phage_lambda_P; pfam06992 399599002258 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 399599002259 active site 399599002260 DNA binding site [nucleotide binding] 399599002261 Int/Topo IB signature motif; other site 399599002262 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 399599002263 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 399599002264 non-specific DNA binding site [nucleotide binding]; other site 399599002265 salt bridge; other site 399599002266 sequence-specific DNA binding site [nucleotide binding]; other site 399599002267 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 399599002268 catalytic site [active] 399599002269 putative active site [active] 399599002270 putative substrate binding site [chemical binding]; other site 399599002271 dimer interface [polypeptide binding]; other site 399599002272 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 399599002273 Phage DNA packaging protein Nu1; Region: Phage_Nu1; cl01720 399599002274 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 399599002275 Bacteriophage capsid protein [General function prediction only]; Region: COG5511 399599002276 phage portal protein, lambda family; Region: portal_lambda; TIGR01539 399599002277 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 399599002278 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 399599002279 oligomer interface [polypeptide binding]; other site 399599002280 active site residues [active] 399599002281 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 399599002282 Uncharacterized conserved protein (DUF2190); Region: DUF2190; pfam09956 399599002283 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 399599002284 Predicted transcriptional regulator [Transcription]; Region: COG2944 399599002285 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 399599002286 non-specific DNA binding site [nucleotide binding]; other site 399599002287 salt bridge; other site 399599002288 sequence-specific DNA binding site [nucleotide binding]; other site 399599002289 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; pfam09669 399599002290 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 399599002291 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 399599002292 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 399599002293 active site 399599002294 DNA binding site [nucleotide binding] 399599002295 Int/Topo IB signature motif; other site 399599002296 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 399599002297 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 399599002298 FMN binding site [chemical binding]; other site 399599002299 active site 399599002300 catalytic residues [active] 399599002301 substrate binding site [chemical binding]; other site 399599002302 PspC domain; Region: PspC; pfam04024 399599002303 enoyl-CoA hydratase; Provisional; Region: PRK06688 399599002304 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 399599002305 substrate binding site [chemical binding]; other site 399599002306 oxyanion hole (OAH) forming residues; other site 399599002307 trimer interface [polypeptide binding]; other site 399599002308 Protein of unknown function (DUF461); Region: DUF461; pfam04314 399599002309 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 399599002310 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 399599002311 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 399599002312 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 399599002313 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 399599002314 dimer interface [polypeptide binding]; other site 399599002315 ADP-ribose binding site [chemical binding]; other site 399599002316 active site 399599002317 nudix motif; other site 399599002318 metal binding site [ion binding]; metal-binding site 399599002319 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 399599002320 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 399599002321 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 399599002322 active site 399599002323 metal binding site [ion binding]; metal-binding site 399599002324 hexamer interface [polypeptide binding]; other site 399599002325 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 399599002326 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399599002327 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 399599002328 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599002329 ATP binding site [chemical binding]; other site 399599002330 Mg2+ binding site [ion binding]; other site 399599002331 G-X-G motif; other site 399599002332 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 399599002333 anchoring element; other site 399599002334 dimer interface [polypeptide binding]; other site 399599002335 ATP binding site [chemical binding]; other site 399599002336 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 399599002337 active site 399599002338 metal binding site [ion binding]; metal-binding site 399599002339 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 399599002340 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 399599002341 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 399599002342 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 399599002343 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 399599002344 CAP-like domain; other site 399599002345 active site 399599002346 primary dimer interface [polypeptide binding]; other site 399599002347 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 399599002348 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 399599002349 trimer interface [polypeptide binding]; other site 399599002350 eyelet of channel; other site 399599002351 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 399599002352 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 399599002353 eyelet of channel; other site 399599002354 trimer interface [polypeptide binding]; other site 399599002355 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 399599002356 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 399599002357 putative ATP binding site [chemical binding]; other site 399599002358 putative substrate interface [chemical binding]; other site 399599002359 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599002360 ATP binding site [chemical binding]; other site 399599002361 Mg2+ binding site [ion binding]; other site 399599002362 G-X-G motif; other site 399599002363 Superinfection exclusion protein B; Region: SieB; pfam14163 399599002364 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 399599002365 HAMP domain; Region: HAMP; pfam00672 399599002366 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599002367 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599002368 dimer interface [polypeptide binding]; other site 399599002369 putative CheW interface [polypeptide binding]; other site 399599002370 Hemerythrin; Region: Hemerythrin; cd12107 399599002371 Fe binding site [ion binding]; other site 399599002372 molybdate transporter ATP-binding protein; Provisional; Region: modC; PRK11144 399599002373 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599002374 Walker A/P-loop; other site 399599002375 ATP binding site [chemical binding]; other site 399599002376 Q-loop/lid; other site 399599002377 ABC transporter signature motif; other site 399599002378 Walker B; other site 399599002379 D-loop; other site 399599002380 H-loop/switch region; other site 399599002381 TOBE domain; Region: TOBE; cl01440 399599002382 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 399599002383 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 399599002384 dimer interface [polypeptide binding]; other site 399599002385 conserved gate region; other site 399599002386 putative PBP binding loops; other site 399599002387 ABC-ATPase subunit interface; other site 399599002388 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 399599002389 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 399599002390 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 399599002391 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 399599002392 molybdenum-pterin binding domain; Region: Mop; TIGR00638 399599002393 macrolide transporter subunit MacA; Provisional; Region: PRK11578 399599002394 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399599002395 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599002396 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 399599002397 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 399599002398 Walker A/P-loop; other site 399599002399 ATP binding site [chemical binding]; other site 399599002400 Q-loop/lid; other site 399599002401 ABC transporter signature motif; other site 399599002402 Walker B; other site 399599002403 D-loop; other site 399599002404 H-loop/switch region; other site 399599002405 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 399599002406 FtsX-like permease family; Region: FtsX; pfam02687 399599002407 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 399599002408 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 399599002409 Peptidase family M50; Region: Peptidase_M50; pfam02163 399599002410 active site 399599002411 putative substrate binding region [chemical binding]; other site 399599002412 protein structure with unknown function; Region: DUF4144; pfam13642 399599002413 Protein of unknown function (DUF342); Region: DUF342; pfam03961 399599002414 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 399599002415 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 399599002416 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 399599002417 S-adenosylmethionine binding site [chemical binding]; other site 399599002418 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 399599002419 dimer interface [polypeptide binding]; other site 399599002420 Alkaline phosphatase homologues; Region: alkPPc; smart00098 399599002421 active site 399599002422 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; cl15837 399599002423 glutathione synthetase; Provisional; Region: PRK05246 399599002424 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 399599002425 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 399599002426 RNA methyltransferase, RsmE family; Region: TIGR00046 399599002427 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 399599002428 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 399599002429 hypothetical protein; Provisional; Region: PRK04860 399599002430 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 399599002431 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 399599002432 putative substrate binding pocket [chemical binding]; other site 399599002433 AC domain interface; other site 399599002434 catalytic triad [active] 399599002435 AB domain interface; other site 399599002436 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 399599002437 LysR family transcriptional regulator; Provisional; Region: PRK14997 399599002438 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599002439 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 399599002440 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 399599002441 putative effector binding pocket; other site 399599002442 dimerization interface [polypeptide binding]; other site 399599002443 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 399599002444 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 399599002445 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 399599002446 ATP-grasp domain; Region: ATP-grasp_4; cl17255 399599002447 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 399599002448 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 399599002449 carboxyltransferase (CT) interaction site; other site 399599002450 biotinylation site [posttranslational modification]; other site 399599002451 Homeodomain-like domain; Region: HTH_23; pfam13384 399599002452 Winged helix-turn helix; Region: HTH_29; pfam13551 399599002453 Homeodomain-like domain; Region: HTH_32; pfam13565 399599002454 Winged helix-turn helix; Region: HTH_33; pfam13592 399599002455 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 399599002456 DDE superfamily endonuclease; Region: DDE_3; pfam13358 399599002457 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 399599002458 Transposase; Region: DEDD_Tnp_IS110; pfam01548 399599002459 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 399599002460 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 399599002461 Transposase; Region: DEDD_Tnp_IS110; pfam01548 399599002462 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 399599002463 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 399599002464 substrate binding pocket [chemical binding]; other site 399599002465 membrane-bound complex binding site; other site 399599002466 hinge residues; other site 399599002467 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599002468 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599002469 metal binding site [ion binding]; metal-binding site 399599002470 active site 399599002471 I-site; other site 399599002472 elongation factor G; Reviewed; Region: PRK00007 399599002473 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 399599002474 G1 box; other site 399599002475 putative GEF interaction site [polypeptide binding]; other site 399599002476 GTP/Mg2+ binding site [chemical binding]; other site 399599002477 Switch I region; other site 399599002478 G2 box; other site 399599002479 G3 box; other site 399599002480 Switch II region; other site 399599002481 G4 box; other site 399599002482 G5 box; other site 399599002483 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 399599002484 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 399599002485 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 399599002486 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599002487 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599002488 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 399599002489 putative dimerization interface [polypeptide binding]; other site 399599002490 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 399599002491 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 399599002492 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 399599002493 [4Fe-4S] binding site [ion binding]; other site 399599002494 molybdopterin cofactor binding site; other site 399599002495 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 399599002496 molybdopterin cofactor binding site; other site 399599002497 NapD protein; Region: NapD; pfam03927 399599002498 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 399599002499 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 399599002500 hypothetical protein; Provisional; Region: PRK10506 399599002501 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 399599002502 Type II transport protein GspH; Region: GspH; pfam12019 399599002503 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 399599002504 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 399599002505 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 399599002506 FtsX-like permease family; Region: FtsX; pfam02687 399599002507 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 399599002508 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 399599002509 Walker A/P-loop; other site 399599002510 ATP binding site [chemical binding]; other site 399599002511 Q-loop/lid; other site 399599002512 ABC transporter signature motif; other site 399599002513 Walker B; other site 399599002514 D-loop; other site 399599002515 H-loop/switch region; other site 399599002516 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 399599002517 amino acid carrier protein; Region: agcS; TIGR00835 399599002518 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 399599002519 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 399599002520 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 399599002521 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 399599002522 putative active site [active] 399599002523 heme pocket [chemical binding]; other site 399599002524 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 399599002525 putative active site [active] 399599002526 heme pocket [chemical binding]; other site 399599002527 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 399599002528 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 399599002529 putative active site [active] 399599002530 heme pocket [chemical binding]; other site 399599002531 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 399599002532 putative active site [active] 399599002533 heme pocket [chemical binding]; other site 399599002534 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 399599002535 dimer interface [polypeptide binding]; other site 399599002536 phosphorylation site [posttranslational modification] 399599002537 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599002538 ATP binding site [chemical binding]; other site 399599002539 Mg2+ binding site [ion binding]; other site 399599002540 G-X-G motif; other site 399599002541 Response regulator receiver domain; Region: Response_reg; pfam00072 399599002542 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599002543 active site 399599002544 phosphorylation site [posttranslational modification] 399599002545 intermolecular recognition site; other site 399599002546 dimerization interface [polypeptide binding]; other site 399599002547 Response regulator receiver domain; Region: Response_reg; pfam00072 399599002548 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599002549 active site 399599002550 phosphorylation site [posttranslational modification] 399599002551 intermolecular recognition site; other site 399599002552 dimerization interface [polypeptide binding]; other site 399599002553 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 399599002554 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 399599002555 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599002556 active site 399599002557 phosphorylation site [posttranslational modification] 399599002558 intermolecular recognition site; other site 399599002559 dimerization interface [polypeptide binding]; other site 399599002560 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399599002561 Zn2+ binding site [ion binding]; other site 399599002562 Mg2+ binding site [ion binding]; other site 399599002563 putative global regulator; Reviewed; Region: PRK09559 399599002564 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 399599002565 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 399599002566 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 399599002567 ligand binding site [chemical binding]; other site 399599002568 NAD binding site [chemical binding]; other site 399599002569 tetramer interface [polypeptide binding]; other site 399599002570 catalytic site [active] 399599002571 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 399599002572 L-serine binding site [chemical binding]; other site 399599002573 ACT domain interface; other site 399599002574 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 399599002575 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 399599002576 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 399599002577 DNA binding residues [nucleotide binding] 399599002578 dimerization interface [polypeptide binding]; other site 399599002579 major curlin subunit; Provisional; Region: csgA; PRK10051 399599002580 Curlin associated repeat; Region: Curlin_rpt; pfam07012 399599002581 Curlin associated repeat; Region: Curlin_rpt; pfam07012 399599002582 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 399599002583 Curlin associated repeat; Region: Curlin_rpt; pfam07012 399599002584 Curlin associated repeat; Region: Curlin_rpt; pfam07012 399599002585 Curlin associated repeat; Region: Curlin_rpt; pfam07012 399599002586 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 399599002587 Pantoate-beta-alanine ligase; Region: PanC; cd00560 399599002588 pantoate--beta-alanine ligase; Region: panC; TIGR00018 399599002589 active site 399599002590 ATP-binding site [chemical binding]; other site 399599002591 pantoate-binding site; other site 399599002592 HXXH motif; other site 399599002593 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 399599002594 oligomerization interface [polypeptide binding]; other site 399599002595 active site 399599002596 metal binding site [ion binding]; metal-binding site 399599002597 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 399599002598 catalytic center binding site [active] 399599002599 ATP binding site [chemical binding]; other site 399599002600 poly(A) polymerase; Region: pcnB; TIGR01942 399599002601 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 399599002602 active site 399599002603 NTP binding site [chemical binding]; other site 399599002604 metal binding triad [ion binding]; metal-binding site 399599002605 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 399599002606 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 399599002607 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 399599002608 active site 399599002609 nucleotide binding site [chemical binding]; other site 399599002610 HIGH motif; other site 399599002611 KMSKS motif; other site 399599002612 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 399599002613 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 399599002614 aminopeptidase B; Provisional; Region: PRK05015 399599002615 Peptidase; Region: DUF3663; pfam12404 399599002616 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 399599002617 interface (dimer of trimers) [polypeptide binding]; other site 399599002618 Substrate-binding/catalytic site; other site 399599002619 Zn-binding sites [ion binding]; other site 399599002620 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 399599002621 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599002622 Coenzyme A binding pocket [chemical binding]; other site 399599002623 phosphoribulokinase; Provisional; Region: PRK15453 399599002624 active site 399599002625 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 399599002626 putative hydrolase; Provisional; Region: PRK10985 399599002627 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 399599002628 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 399599002629 Transcriptional activator [Transcription]; Region: ChrR; COG3806 399599002630 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 399599002631 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 399599002632 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 399599002633 classical (c) SDRs; Region: SDR_c; cd05233 399599002634 NAD(P) binding site [chemical binding]; other site 399599002635 active site 399599002636 Predicted transcriptional regulators [Transcription]; Region: COG1733 399599002637 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 399599002638 Uncharacterized conserved protein [Function unknown]; Region: COG3791 399599002639 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 399599002640 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 399599002641 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599002642 Walker A/P-loop; other site 399599002643 ATP binding site [chemical binding]; other site 399599002644 Q-loop/lid; other site 399599002645 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399599002646 ABC transporter; Region: ABC_tran_2; pfam12848 399599002647 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399599002648 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 399599002649 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 399599002650 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 399599002651 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 399599002652 putative active site [active] 399599002653 putative NTP binding site [chemical binding]; other site 399599002654 putative nucleic acid binding site [nucleotide binding]; other site 399599002655 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 399599002656 Pirin-related protein [General function prediction only]; Region: COG1741 399599002657 Pirin; Region: Pirin; pfam02678 399599002658 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 399599002659 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 399599002660 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 399599002661 ATP binding site [chemical binding]; other site 399599002662 Mg++ binding site [ion binding]; other site 399599002663 motif III; other site 399599002664 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 399599002665 nucleotide binding region [chemical binding]; other site 399599002666 ATP-binding site [chemical binding]; other site 399599002667 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 399599002668 putative RNA binding site [nucleotide binding]; other site 399599002669 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 399599002670 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 399599002671 ATP binding site [chemical binding]; other site 399599002672 Mg++ binding site [ion binding]; other site 399599002673 motif III; other site 399599002674 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 399599002675 nucleotide binding region [chemical binding]; other site 399599002676 ATP-binding site [chemical binding]; other site 399599002677 Protein of unknown function (DUF3626); Region: DUF3626; pfam12294 399599002678 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 399599002679 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 399599002680 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599002681 Walker A/P-loop; other site 399599002682 ATP binding site [chemical binding]; other site 399599002683 Q-loop/lid; other site 399599002684 ABC transporter signature motif; other site 399599002685 Walker B; other site 399599002686 D-loop; other site 399599002687 H-loop/switch region; other site 399599002688 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 399599002689 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 399599002690 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599002691 Walker A/P-loop; other site 399599002692 ATP binding site [chemical binding]; other site 399599002693 Q-loop/lid; other site 399599002694 ABC transporter signature motif; other site 399599002695 Walker B; other site 399599002696 D-loop; other site 399599002697 H-loop/switch region; other site 399599002698 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 399599002699 putative active site [active] 399599002700 putative metal binding residues [ion binding]; other site 399599002701 signature motif; other site 399599002702 putative triphosphate binding site [ion binding]; other site 399599002703 dimer interface [polypeptide binding]; other site 399599002704 Helix-turn-helix domain; Region: HTH_17; pfam12728 399599002705 Protein of unknown function, DUF599; Region: DUF599; pfam04654 399599002706 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 399599002707 Proline dehydrogenase; Region: Pro_dh; pfam01619 399599002708 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 399599002709 Glutamate binding site [chemical binding]; other site 399599002710 NAD binding site [chemical binding]; other site 399599002711 catalytic residues [active] 399599002712 SH3 domain-containing protein; Provisional; Region: PRK10884 399599002713 Bacterial SH3 domain homologues; Region: SH3b; smart00287 399599002714 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 399599002715 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 399599002716 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 399599002717 Uncharacterized conserved protein [Function unknown]; Region: COG3025 399599002718 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 399599002719 putative active site [active] 399599002720 putative metal binding residues [ion binding]; other site 399599002721 signature motif; other site 399599002722 putative triphosphate binding site [ion binding]; other site 399599002723 Ion channel; Region: Ion_trans_2; pfam07885 399599002724 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 399599002725 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 399599002726 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 399599002727 spermidine synthase; Provisional; Region: PRK03612 399599002728 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 399599002729 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 399599002730 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 399599002731 metal binding triad; other site 399599002732 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 399599002733 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 399599002734 metal binding triad; other site 399599002735 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 399599002736 GAF domain; Region: GAF; pfam01590 399599002737 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599002738 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599002739 metal binding site [ion binding]; metal-binding site 399599002740 active site 399599002741 I-site; other site 399599002742 Domain of unknown function (DUF897); Region: DUF897; pfam05982 399599002743 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599002744 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599002745 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 399599002746 dimerization interface [polypeptide binding]; other site 399599002747 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 399599002748 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 399599002749 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 399599002750 dimerization interface [polypeptide binding]; other site 399599002751 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599002752 dimer interface [polypeptide binding]; other site 399599002753 putative CheW interface [polypeptide binding]; other site 399599002754 Predicted ATPase [General function prediction only]; Region: COG1485 399599002755 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599002756 Walker A/P-loop; other site 399599002757 ATP binding site [chemical binding]; other site 399599002758 ABC transporter signature motif; other site 399599002759 Walker B; other site 399599002760 D-loop; other site 399599002761 H-loop/switch region; other site 399599002762 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 399599002763 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 399599002764 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 399599002765 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 399599002766 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 399599002767 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 399599002768 PAS domain; Region: PAS; smart00091 399599002769 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599002770 ATP binding site [chemical binding]; other site 399599002771 Mg2+ binding site [ion binding]; other site 399599002772 G-X-G motif; other site 399599002773 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 399599002774 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599002775 active site 399599002776 phosphorylation site [posttranslational modification] 399599002777 intermolecular recognition site; other site 399599002778 dimerization interface [polypeptide binding]; other site 399599002779 Transcriptional regulator; Region: CitT; pfam12431 399599002780 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 399599002781 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 399599002782 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 399599002783 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 399599002784 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 399599002785 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 399599002786 putative active site [active] 399599002787 Zn binding site [ion binding]; other site 399599002788 L,D-transpeptidase; Provisional; Region: PRK10260 399599002789 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 399599002790 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 399599002791 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 399599002792 potassium/proton antiporter; Reviewed; Region: PRK05326 399599002793 TrkA-C domain; Region: TrkA_C; pfam02080 399599002794 Transporter associated domain; Region: CorC_HlyC; smart01091 399599002795 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 399599002796 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 399599002797 putative acyl-acceptor binding pocket; other site 399599002798 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 399599002799 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 399599002800 putative ribose interaction site [chemical binding]; other site 399599002801 putative ADP binding site [chemical binding]; other site 399599002802 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 399599002803 active site 399599002804 HIGH motif; other site 399599002805 nucleotide binding site [chemical binding]; other site 399599002806 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399599002807 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 399599002808 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 399599002809 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 399599002810 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 399599002811 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 399599002812 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 399599002813 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 399599002814 ligand binding site [chemical binding]; other site 399599002815 homodimer interface [polypeptide binding]; other site 399599002816 NAD(P) binding site [chemical binding]; other site 399599002817 trimer interface B [polypeptide binding]; other site 399599002818 trimer interface A [polypeptide binding]; other site 399599002819 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 399599002820 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 399599002821 Flavodoxin; Region: Flavodoxin_1; pfam00258 399599002822 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 399599002823 FAD binding pocket [chemical binding]; other site 399599002824 FAD binding motif [chemical binding]; other site 399599002825 catalytic residues [active] 399599002826 NAD binding pocket [chemical binding]; other site 399599002827 phosphate binding motif [ion binding]; other site 399599002828 beta-alpha-beta structure motif; other site 399599002829 sulfite reductase subunit beta; Provisional; Region: PRK13504 399599002830 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 399599002831 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 399599002832 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 399599002833 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 399599002834 Active Sites [active] 399599002835 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 399599002836 Transglycosylase; Region: Transgly; cl17702 399599002837 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 399599002838 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 399599002839 Active site serine [active] 399599002840 Phage endonuclease I; Region: Phage_endo_I; cl11622 399599002841 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 399599002842 dimerization interface [polypeptide binding]; other site 399599002843 substrate binding site [chemical binding]; other site 399599002844 active site 399599002845 calcium binding site [ion binding]; other site 399599002846 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 399599002847 active site 399599002848 SAM binding site [chemical binding]; other site 399599002849 homodimer interface [polypeptide binding]; other site 399599002850 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 399599002851 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 399599002852 Active Sites [active] 399599002853 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 399599002854 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 399599002855 CysD dimerization site [polypeptide binding]; other site 399599002856 G1 box; other site 399599002857 putative GEF interaction site [polypeptide binding]; other site 399599002858 GTP/Mg2+ binding site [chemical binding]; other site 399599002859 Switch I region; other site 399599002860 G2 box; other site 399599002861 G3 box; other site 399599002862 Switch II region; other site 399599002863 G4 box; other site 399599002864 G5 box; other site 399599002865 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 399599002866 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 399599002867 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 399599002868 TrkA-C domain; Region: TrkA_C; pfam02080 399599002869 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 399599002870 TrkA-C domain; Region: TrkA_C; pfam02080 399599002871 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 399599002872 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 399599002873 ligand-binding site [chemical binding]; other site 399599002874 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399599002875 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599002876 ATP binding site [chemical binding]; other site 399599002877 Mg2+ binding site [ion binding]; other site 399599002878 G-X-G motif; other site 399599002879 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399599002880 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 399599002881 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599002882 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599002883 metal binding site [ion binding]; metal-binding site 399599002884 active site 399599002885 I-site; other site 399599002886 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 399599002887 TIGR03899 family protein; Region: TIGR03899 399599002888 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599002889 Major Facilitator Superfamily; Region: MFS_1; pfam07690 399599002890 putative substrate translocation pore; other site 399599002891 Imelysin; Region: Peptidase_M75; pfam09375 399599002892 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 399599002893 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 399599002894 Flavodoxin domain; Region: Flavodoxin_5; cl17428 399599002895 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 399599002896 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 399599002897 catalytic residues [active] 399599002898 hinge region; other site 399599002899 alpha helical domain; other site 399599002900 GlyGly-CTERM domain; Region: GlyGly_CTERM; TIGR03501 399599002901 DNA-J related protein; Region: DNAJ_related; pfam12339 399599002902 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 399599002903 HSP70 interaction site [polypeptide binding]; other site 399599002904 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 399599002905 FMN binding site [chemical binding]; other site 399599002906 dimer interface [polypeptide binding]; other site 399599002907 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 399599002908 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 399599002909 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 399599002910 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 399599002911 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 399599002912 putative active site [active] 399599002913 putative NTP binding site [chemical binding]; other site 399599002914 putative nucleic acid binding site [nucleotide binding]; other site 399599002915 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 399599002916 Predicted permeases [General function prediction only]; Region: RarD; COG2962 399599002917 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 399599002918 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 399599002919 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 399599002920 putative DNA binding site [nucleotide binding]; other site 399599002921 putative Zn2+ binding site [ion binding]; other site 399599002922 AsnC family; Region: AsnC_trans_reg; pfam01037 399599002923 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 399599002924 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 399599002925 Walker A/P-loop; other site 399599002926 ATP binding site [chemical binding]; other site 399599002927 Q-loop/lid; other site 399599002928 ABC transporter signature motif; other site 399599002929 Walker B; other site 399599002930 D-loop; other site 399599002931 H-loop/switch region; other site 399599002932 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 399599002933 dimer interface [polypeptide binding]; other site 399599002934 conserved gate region; other site 399599002935 putative PBP binding loops; other site 399599002936 ABC-ATPase subunit interface; other site 399599002937 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 399599002938 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399599002939 substrate binding pocket [chemical binding]; other site 399599002940 membrane-bound complex binding site; other site 399599002941 hinge residues; other site 399599002942 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599002943 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599002944 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 399599002945 putative dimerization interface [polypeptide binding]; other site 399599002946 LrgA family; Region: LrgA; cl00608 399599002947 LrgB-like family; Region: LrgB; pfam04172 399599002948 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 399599002949 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 399599002950 D-alanyl-D-alanine endopeptidase; Provisional; Region: pbpG; PRK11669 399599002951 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 399599002952 Rhomboid family; Region: Rhomboid; pfam01694 399599002953 calcium/sodium:proton antiporter; Provisional; Region: PRK10599 399599002954 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 399599002955 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 399599002956 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 399599002957 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 399599002958 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 399599002959 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 399599002960 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 399599002961 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 399599002962 Nucleoside recognition; Region: Gate; pfam07670 399599002963 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 399599002964 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599002965 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599002966 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 399599002967 putative effector binding pocket; other site 399599002968 dimerization interface [polypeptide binding]; other site 399599002969 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 399599002970 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399599002971 Cytochrome c; Region: Cytochrom_C; pfam00034 399599002972 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 399599002973 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 399599002974 Cytochrome c; Region: Cytochrom_C; pfam00034 399599002975 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 399599002976 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 399599002977 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 399599002978 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 399599002979 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 399599002980 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 399599002981 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 399599002982 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 399599002983 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 399599002984 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 399599002985 substrate binding pocket [chemical binding]; other site 399599002986 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 399599002987 B12 binding site [chemical binding]; other site 399599002988 cobalt ligand [ion binding]; other site 399599002989 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 399599002990 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 399599002991 catalytic core [active] 399599002992 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 399599002993 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 399599002994 Walker A/P-loop; other site 399599002995 ATP binding site [chemical binding]; other site 399599002996 Q-loop/lid; other site 399599002997 ABC transporter signature motif; other site 399599002998 Walker B; other site 399599002999 D-loop; other site 399599003000 H-loop/switch region; other site 399599003001 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 399599003002 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 399599003003 ABC-ATPase subunit interface; other site 399599003004 dimer interface [polypeptide binding]; other site 399599003005 putative PBP binding regions; other site 399599003006 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 399599003007 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 399599003008 putative dimer interface [polypeptide binding]; other site 399599003009 active site pocket [active] 399599003010 putative cataytic base [active] 399599003011 cobalamin synthase; Reviewed; Region: cobS; PRK00235 399599003012 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 399599003013 homotrimer interface [polypeptide binding]; other site 399599003014 Walker A motif; other site 399599003015 GTP binding site [chemical binding]; other site 399599003016 Walker B motif; other site 399599003017 cobyric acid synthase; Provisional; Region: PRK00784 399599003018 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 399599003019 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 399599003020 catalytic triad [active] 399599003021 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 399599003022 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 399599003023 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 399599003024 homodimer interface [polypeptide binding]; other site 399599003025 Walker A motif; other site 399599003026 ATP binding site [chemical binding]; other site 399599003027 hydroxycobalamin binding site [chemical binding]; other site 399599003028 Walker B motif; other site 399599003029 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 399599003030 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 399599003031 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 399599003032 cobalamin binding residues [chemical binding]; other site 399599003033 putative BtuC binding residues; other site 399599003034 dimer interface [polypeptide binding]; other site 399599003035 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 399599003036 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 399599003037 NAD(P) binding site [chemical binding]; other site 399599003038 catalytic residues [active] 399599003039 Glycerol dehydrogenase and related enzymes [Energy production and conversion]; Region: GldA; COG0371 399599003040 Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation; Region: GlyDH; cd08170 399599003041 dimer interface [polypeptide binding]; other site 399599003042 active site 399599003043 metal binding site [ion binding]; metal-binding site 399599003044 AAA domain; Region: AAA_33; pfam13671 399599003045 AAA domain; Region: AAA_17; pfam13207 399599003046 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599003047 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 399599003048 Coenzyme A binding pocket [chemical binding]; other site 399599003049 MAPEG family; Region: MAPEG; cl09190 399599003050 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 399599003051 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399599003052 DNA-binding site [nucleotide binding]; DNA binding site 399599003053 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 399599003054 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599003055 homodimer interface [polypeptide binding]; other site 399599003056 catalytic residue [active] 399599003057 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 399599003058 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599003059 Coenzyme A binding pocket [chemical binding]; other site 399599003060 This domain contains a conserved N-terminal (F/Y)RG motif. It is functionally uncharacterised; Region: FRG; smart00901 399599003061 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 399599003062 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 399599003063 active site 399599003064 substrate binding pocket [chemical binding]; other site 399599003065 dimer interface [polypeptide binding]; other site 399599003066 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399599003067 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399599003068 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599003069 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 399599003070 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 399599003071 Walker A/P-loop; other site 399599003072 ATP binding site [chemical binding]; other site 399599003073 Q-loop/lid; other site 399599003074 ABC transporter signature motif; other site 399599003075 Walker B; other site 399599003076 D-loop; other site 399599003077 H-loop/switch region; other site 399599003078 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 399599003079 FtsX-like permease family; Region: FtsX; pfam02687 399599003080 FtsX-like permease family; Region: FtsX; pfam02687 399599003081 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 399599003082 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599003083 active site 399599003084 phosphorylation site [posttranslational modification] 399599003085 intermolecular recognition site; other site 399599003086 dimerization interface [polypeptide binding]; other site 399599003087 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 399599003088 Walker A motif; other site 399599003089 ATP binding site [chemical binding]; other site 399599003090 Walker B motif; other site 399599003091 arginine finger; other site 399599003092 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399599003093 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 399599003094 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 399599003095 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599003096 ATP binding site [chemical binding]; other site 399599003097 Mg2+ binding site [ion binding]; other site 399599003098 G-X-G motif; other site 399599003099 Curli assembly protein CsgE; Region: CsgE; pfam10627 399599003100 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 399599003101 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 399599003102 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399599003103 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399599003104 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 399599003105 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 399599003106 NAD(P) binding site [chemical binding]; other site 399599003107 catalytic residues [active] 399599003108 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 399599003109 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 399599003110 Ligand Binding Site [chemical binding]; other site 399599003111 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 399599003112 Ligand Binding Site [chemical binding]; other site 399599003113 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399599003114 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 399599003115 membrane-bound complex binding site; other site 399599003116 hinge residues; other site 399599003117 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 399599003118 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 399599003119 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 399599003120 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 399599003121 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 399599003122 Walker A/P-loop; other site 399599003123 ATP binding site [chemical binding]; other site 399599003124 Q-loop/lid; other site 399599003125 ABC transporter signature motif; other site 399599003126 Walker B; other site 399599003127 D-loop; other site 399599003128 H-loop/switch region; other site 399599003129 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 399599003130 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 399599003131 ABC-ATPase subunit interface; other site 399599003132 dimer interface [polypeptide binding]; other site 399599003133 putative PBP binding regions; other site 399599003134 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 399599003135 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 399599003136 putative hemin binding site; other site 399599003137 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 399599003138 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 399599003139 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 399599003140 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 399599003141 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 399599003142 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 399599003143 N-terminal plug; other site 399599003144 ligand-binding site [chemical binding]; other site 399599003145 Haem utilisation ChuX/HutX; Region: ChuX_HutX; pfam06228 399599003146 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 399599003147 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 399599003148 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 399599003149 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 399599003150 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599003151 Walker A/P-loop; other site 399599003152 ATP binding site [chemical binding]; other site 399599003153 Q-loop/lid; other site 399599003154 ABC transporter signature motif; other site 399599003155 Walker B; other site 399599003156 D-loop; other site 399599003157 H-loop/switch region; other site 399599003158 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 399599003159 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 399599003160 acyl-activating enzyme (AAE) consensus motif; other site 399599003161 putative AMP binding site [chemical binding]; other site 399599003162 putative active site [active] 399599003163 putative CoA binding site [chemical binding]; other site 399599003164 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 399599003165 4Fe-4S binding domain; Region: Fer4_5; pfam12801 399599003166 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 399599003167 PAS domain S-box; Region: sensory_box; TIGR00229 399599003168 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 399599003169 putative active site [active] 399599003170 heme pocket [chemical binding]; other site 399599003171 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 399599003172 phage shock protein operon transcriptional activator; Provisional; Region: pspF; PRK11608 399599003173 Walker A motif; other site 399599003174 ATP binding site [chemical binding]; other site 399599003175 Walker B motif; other site 399599003176 arginine finger; other site 399599003177 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399599003178 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 399599003179 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 399599003180 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 399599003181 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 399599003182 DsbD alpha interface [polypeptide binding]; other site 399599003183 catalytic residues [active] 399599003184 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 399599003185 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 399599003186 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 399599003187 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 399599003188 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 399599003189 ligand binding site [chemical binding]; other site 399599003190 active site 399599003191 UGI interface [polypeptide binding]; other site 399599003192 catalytic site [active] 399599003193 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 399599003194 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 399599003195 substrate binding pocket [chemical binding]; other site 399599003196 chain length determination region; other site 399599003197 substrate-Mg2+ binding site; other site 399599003198 catalytic residues [active] 399599003199 aspartate-rich region 1; other site 399599003200 active site lid residues [active] 399599003201 aspartate-rich region 2; other site 399599003202 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 399599003203 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 399599003204 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 399599003205 GTPase CgtA; Reviewed; Region: obgE; PRK12298 399599003206 GTP1/OBG; Region: GTP1_OBG; pfam01018 399599003207 Obg GTPase; Region: Obg; cd01898 399599003208 G1 box; other site 399599003209 GTP/Mg2+ binding site [chemical binding]; other site 399599003210 Switch I region; other site 399599003211 G2 box; other site 399599003212 G3 box; other site 399599003213 Switch II region; other site 399599003214 G4 box; other site 399599003215 G5 box; other site 399599003216 Uncharacterized conserved protein [Function unknown]; Region: COG2966 399599003217 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 399599003218 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 399599003219 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 399599003220 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 399599003221 folate binding site [chemical binding]; other site 399599003222 NADP+ binding site [chemical binding]; other site 399599003223 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 399599003224 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 399599003225 dimerization interface [polypeptide binding]; other site 399599003226 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599003227 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599003228 dimer interface [polypeptide binding]; other site 399599003229 putative CheW interface [polypeptide binding]; other site 399599003230 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 399599003231 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 399599003232 active site 399599003233 metal binding site [ion binding]; metal-binding site 399599003234 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 399599003235 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 399599003236 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 399599003237 S-adenosylmethionine binding site [chemical binding]; other site 399599003238 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 399599003239 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 399599003240 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 399599003241 SurA N-terminal domain; Region: SurA_N; pfam09312 399599003242 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 399599003243 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 399599003244 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 399599003245 OstA-like protein; Region: OstA; cl00844 399599003246 Organic solvent tolerance protein; Region: OstA_C; pfam04453 399599003247 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 399599003248 Phosphotransferase enzyme family; Region: APH; pfam01636 399599003249 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 399599003250 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 399599003251 Substrate binding site; other site 399599003252 metal-binding site 399599003253 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 399599003254 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 399599003255 putative metal binding site [ion binding]; other site 399599003256 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 399599003257 HSP70 interaction site [polypeptide binding]; other site 399599003258 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 399599003259 glycerate dehydrogenase; Provisional; Region: PRK06487 399599003260 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 399599003261 putative ligand binding site [chemical binding]; other site 399599003262 putative NAD binding site [chemical binding]; other site 399599003263 catalytic site [active] 399599003264 TolA protein; Region: tolA_full; TIGR02794 399599003265 Gram-negative bacterial tonB protein; Region: TonB; cl10048 399599003266 Protein of unknown function (DUF3142); Region: DUF3142; pfam11340 399599003267 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 399599003268 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 399599003269 active site 399599003270 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 399599003271 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399599003272 ATP-grasp domain; Region: ATP-grasp; pfam02222 399599003273 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 399599003274 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 399599003275 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399599003276 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599003277 Ycf46; Provisional; Region: ycf46; CHL00195 399599003278 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 399599003279 Walker A motif; other site 399599003280 ATP binding site [chemical binding]; other site 399599003281 Walker B motif; other site 399599003282 arginine finger; other site 399599003283 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 399599003284 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 399599003285 Walker A/P-loop; other site 399599003286 ATP binding site [chemical binding]; other site 399599003287 Q-loop/lid; other site 399599003288 ABC transporter signature motif; other site 399599003289 Walker B; other site 399599003290 D-loop; other site 399599003291 H-loop/switch region; other site 399599003292 TOBE-like domain; Region: TOBE_3; pfam12857 399599003293 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 399599003294 dimer interface [polypeptide binding]; other site 399599003295 conserved gate region; other site 399599003296 putative PBP binding loops; other site 399599003297 ABC-ATPase subunit interface; other site 399599003298 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 399599003299 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 399599003300 dimer interface [polypeptide binding]; other site 399599003301 conserved gate region; other site 399599003302 putative PBP binding loops; other site 399599003303 ABC-ATPase subunit interface; other site 399599003304 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CysP; COG4150 399599003305 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 399599003306 cysteine synthase B; Region: cysM; TIGR01138 399599003307 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 399599003308 dimer interface [polypeptide binding]; other site 399599003309 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599003310 catalytic residue [active] 399599003311 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 399599003312 Predicted Fe-S protein [General function prediction only]; Region: COG3313 399599003313 sensor protein RstB; Provisional; Region: PRK10604 399599003314 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 399599003315 dimer interface [polypeptide binding]; other site 399599003316 phosphorylation site [posttranslational modification] 399599003317 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599003318 ATP binding site [chemical binding]; other site 399599003319 Mg2+ binding site [ion binding]; other site 399599003320 G-X-G motif; other site 399599003321 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 399599003322 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599003323 active site 399599003324 phosphorylation site [posttranslational modification] 399599003325 intermolecular recognition site; other site 399599003326 dimerization interface [polypeptide binding]; other site 399599003327 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 399599003328 DNA binding site [nucleotide binding] 399599003329 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 399599003330 MltA-interacting protein MipA; Region: MipA; cl01504 399599003331 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 399599003332 YcxB-like protein; Region: YcxB; pfam14317 399599003333 Domain of unknown function (DUF1971); Region: DUF1971; pfam09313 399599003334 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399599003335 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 399599003336 active site 399599003337 metal binding site [ion binding]; metal-binding site 399599003338 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 399599003339 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 399599003340 Predicted transcriptional regulator [Transcription]; Region: COG2345 399599003341 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 399599003342 TPR motif; other site 399599003343 TPR repeat; Region: TPR_11; pfam13414 399599003344 binding surface 399599003345 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 399599003346 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 399599003347 RNA binding surface [nucleotide binding]; other site 399599003348 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 399599003349 active site 399599003350 uracil binding [chemical binding]; other site 399599003351 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 399599003352 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 399599003353 heme-binding site [chemical binding]; other site 399599003354 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 399599003355 FAD binding pocket [chemical binding]; other site 399599003356 FAD binding motif [chemical binding]; other site 399599003357 phosphate binding motif [ion binding]; other site 399599003358 beta-alpha-beta structure motif; other site 399599003359 NAD binding pocket [chemical binding]; other site 399599003360 Heme binding pocket [chemical binding]; other site 399599003361 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 399599003362 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 399599003363 HAMP domain; Region: HAMP; pfam00672 399599003364 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599003365 dimer interface [polypeptide binding]; other site 399599003366 putative CheW interface [polypeptide binding]; other site 399599003367 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 399599003368 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 399599003369 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 399599003370 RNA binding surface [nucleotide binding]; other site 399599003371 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 399599003372 active site 399599003373 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 399599003374 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 399599003375 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 399599003376 Clp amino terminal domain; Region: Clp_N; pfam02861 399599003377 Clp amino terminal domain; Region: Clp_N; pfam02861 399599003378 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 399599003379 Walker A motif; other site 399599003380 ATP binding site [chemical binding]; other site 399599003381 Walker B motif; other site 399599003382 arginine finger; other site 399599003383 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 399599003384 Walker A motif; other site 399599003385 ATP binding site [chemical binding]; other site 399599003386 Walker B motif; other site 399599003387 arginine finger; other site 399599003388 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 399599003389 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 399599003390 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 399599003391 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 399599003392 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 399599003393 oxaloacetate decarboxylase; Provisional; Region: PRK14040 399599003394 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 399599003395 active site 399599003396 catalytic residues [active] 399599003397 metal binding site [ion binding]; metal-binding site 399599003398 homodimer binding site [polypeptide binding]; other site 399599003399 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 399599003400 carboxyltransferase (CT) interaction site; other site 399599003401 biotinylation site [posttranslational modification]; other site 399599003402 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 399599003403 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 399599003404 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 399599003405 Predicted membrane protein [Function unknown]; Region: COG1238 399599003406 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 399599003407 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 399599003408 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 399599003409 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 399599003410 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 399599003411 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 399599003412 glutamate--cysteine ligase; Provisional; Region: PRK02107 399599003413 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 399599003414 N-acetyl-D-glucosamine binding site [chemical binding]; other site 399599003415 catalytic residue [active] 399599003416 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 399599003417 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 399599003418 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599003419 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599003420 metal binding site [ion binding]; metal-binding site 399599003421 active site 399599003422 I-site; other site 399599003423 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 399599003424 ATP-grasp domain; Region: ATP-grasp; pfam02222 399599003425 AIR carboxylase; Region: AIRC; pfam00731 399599003426 putative transporter; Provisional; Region: PRK11660 399599003427 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 399599003428 Sulfate transporter family; Region: Sulfate_transp; pfam00916 399599003429 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 399599003430 von Willebrand factor; Region: vWF_A; pfam12450 399599003431 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 399599003432 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 399599003433 metal ion-dependent adhesion site (MIDAS); other site 399599003434 Domain of unknown function (DUF3520); Region: DUF3520; pfam12034 399599003435 RNA polymerase sigma factor; Provisional; Region: PRK12513 399599003436 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399599003437 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 399599003438 DNA binding residues [nucleotide binding] 399599003439 Hemerythrin-like domain; Region: Hr-like; cd12108 399599003440 Fe binding site [ion binding]; other site 399599003441 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 399599003442 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 399599003443 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 399599003444 active site 399599003445 dimer interface [polypeptide binding]; other site 399599003446 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 399599003447 dimer interface [polypeptide binding]; other site 399599003448 active site 399599003449 transaldolase-like protein; Provisional; Region: PTZ00411 399599003450 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 399599003451 active site 399599003452 dimer interface [polypeptide binding]; other site 399599003453 catalytic residue [active] 399599003454 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 399599003455 outer membrane protein A; Reviewed; Region: PRK10808 399599003456 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399599003457 ligand binding site [chemical binding]; other site 399599003458 putative phosphoketolase; Provisional; Region: PRK05261 399599003459 XFP N-terminal domain; Region: XFP_N; pfam09364 399599003460 XFP C-terminal domain; Region: XFP_C; pfam09363 399599003461 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 399599003462 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 399599003463 hypothetical protein; Validated; Region: PRK02101 399599003464 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 399599003465 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 399599003466 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 399599003467 PA/protease or protease-like domain interface [polypeptide binding]; other site 399599003468 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 399599003469 Peptidase family M28; Region: Peptidase_M28; pfam04389 399599003470 metal binding site [ion binding]; metal-binding site 399599003471 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 399599003472 dimerization interface [polypeptide binding]; other site 399599003473 putative DNA binding site [nucleotide binding]; other site 399599003474 putative Zn2+ binding site [ion binding]; other site 399599003475 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 399599003476 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 399599003477 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 399599003478 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 399599003479 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 399599003480 active site 399599003481 Riboflavin kinase; Region: Flavokinase; smart00904 399599003482 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 399599003483 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 399599003484 HIGH motif; other site 399599003485 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 399599003486 active site 399599003487 KMSKS motif; other site 399599003488 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 399599003489 tRNA binding surface [nucleotide binding]; other site 399599003490 anticodon binding site; other site 399599003491 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 399599003492 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 399599003493 lipoprotein signal peptidase; Provisional; Region: PRK14787 399599003494 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 399599003495 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 399599003496 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 399599003497 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 399599003498 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 399599003499 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 399599003500 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 399599003501 PilX N-terminal; Region: PilX_N; pfam14341 399599003502 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 399599003503 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 399599003504 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 399599003505 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 399599003506 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 399599003507 Type II transport protein GspH; Region: GspH; pfam12019 399599003508 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 399599003509 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 399599003510 Type II transport protein GspH; Region: GspH; pfam12019 399599003511 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 399599003512 Nitrogen regulatory protein P-II; Region: P-II; smart00938 399599003513 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 399599003514 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 399599003515 Transcriptional regulators [Transcription]; Region: PurR; COG1609 399599003516 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 399599003517 DNA binding site [nucleotide binding] 399599003518 domain linker motif; other site 399599003519 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 399599003520 putative ligand binding site [chemical binding]; other site 399599003521 putative dimerization interface [polypeptide binding]; other site 399599003522 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 399599003523 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 399599003524 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 399599003525 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 399599003526 SapC; Region: SapC; pfam07277 399599003527 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 399599003528 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399599003529 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 399599003530 dimerization interface [polypeptide binding]; other site 399599003531 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599003532 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599003533 dimer interface [polypeptide binding]; other site 399599003534 putative CheW interface [polypeptide binding]; other site 399599003535 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 399599003536 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 399599003537 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 399599003538 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 399599003539 active site 399599003540 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 399599003541 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 399599003542 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 399599003543 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 399599003544 dimer interface [polypeptide binding]; other site 399599003545 active site 399599003546 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 399599003547 dimer interface [polypeptide binding]; other site 399599003548 active site 399599003549 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 399599003550 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 399599003551 active site 399599003552 dimer interface [polypeptide binding]; other site 399599003553 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 399599003554 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 399599003555 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599003556 putative substrate translocation pore; other site 399599003557 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 399599003558 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 399599003559 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 399599003560 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 399599003561 tetrameric interface [polypeptide binding]; other site 399599003562 NAD binding site [chemical binding]; other site 399599003563 catalytic residues [active] 399599003564 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 399599003565 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 399599003566 inhibitor-cofactor binding pocket; inhibition site 399599003567 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599003568 catalytic residue [active] 399599003569 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 399599003570 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 399599003571 NAD(P) binding site [chemical binding]; other site 399599003572 catalytic residues [active] 399599003573 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 399599003574 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 399599003575 Int/Topo IB signature motif; other site 399599003576 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 399599003577 Putative transposase; Region: Y2_Tnp; pfam04986 399599003578 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 399599003579 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 399599003580 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 399599003581 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 399599003582 active site residue [active] 399599003583 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 399599003584 active site 399599003585 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 399599003586 active site residue [active] 399599003587 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 399599003588 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 399599003589 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 399599003590 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 399599003591 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 399599003592 non-specific DNA binding site [nucleotide binding]; other site 399599003593 salt bridge; other site 399599003594 sequence-specific DNA binding site [nucleotide binding]; other site 399599003595 Cupin domain; Region: Cupin_2; pfam07883 399599003596 Peptidase C26; Region: Peptidase_C26; pfam07722 399599003597 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 399599003598 catalytic triad [active] 399599003599 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 399599003600 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 399599003601 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 399599003602 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 399599003603 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 399599003604 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599003605 Walker A/P-loop; other site 399599003606 ATP binding site [chemical binding]; other site 399599003607 Q-loop/lid; other site 399599003608 ABC transporter signature motif; other site 399599003609 Walker B; other site 399599003610 D-loop; other site 399599003611 H-loop/switch region; other site 399599003612 TOBE domain; Region: TOBE_2; pfam08402 399599003613 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 399599003614 dimer interface [polypeptide binding]; other site 399599003615 conserved gate region; other site 399599003616 putative PBP binding loops; other site 399599003617 ABC-ATPase subunit interface; other site 399599003618 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 399599003619 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 399599003620 dimer interface [polypeptide binding]; other site 399599003621 conserved gate region; other site 399599003622 putative PBP binding loops; other site 399599003623 ABC-ATPase subunit interface; other site 399599003624 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 399599003625 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 399599003626 succinate-semialdehyde dehydrogenase I; Provisional; Region: gabD; PRK11241 399599003627 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 399599003628 tetramerization interface [polypeptide binding]; other site 399599003629 NAD(P) binding site [chemical binding]; other site 399599003630 catalytic residues [active] 399599003631 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 399599003632 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 399599003633 inhibitor-cofactor binding pocket; inhibition site 399599003634 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599003635 catalytic residue [active] 399599003636 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 399599003637 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 399599003638 dipeptide/tripeptide permease B; Provisional; Region: PRK10207 399599003639 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599003640 putative substrate translocation pore; other site 399599003641 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 399599003642 Cupin-like domain; Region: Cupin_8; pfam13621 399599003643 SapC; Region: SapC; pfam07277 399599003644 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 399599003645 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 399599003646 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 399599003647 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 399599003648 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 399599003649 Transcriptional regulators [Transcription]; Region: PurR; COG1609 399599003650 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 399599003651 DNA binding site [nucleotide binding] 399599003652 domain linker motif; other site 399599003653 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 399599003654 dimerization interface (closed form) [polypeptide binding]; other site 399599003655 ligand binding site [chemical binding]; other site 399599003656 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 399599003657 putative symporter YagG; Provisional; Region: PRK09669 399599003658 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 399599003659 beta-galactosidase; Region: BGL; TIGR03356 399599003660 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 399599003661 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599003662 putative substrate translocation pore; other site 399599003663 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 399599003664 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 399599003665 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 399599003666 fructokinase; Reviewed; Region: PRK09557 399599003667 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 399599003668 nucleotide binding site [chemical binding]; other site 399599003669 Acetokinase family; Region: Acetate_kinase; cl17229 399599003670 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 399599003671 dimerization interface [polypeptide binding]; other site 399599003672 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599003673 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599003674 dimer interface [polypeptide binding]; other site 399599003675 putative CheW interface [polypeptide binding]; other site 399599003676 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 399599003677 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 399599003678 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 399599003679 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 399599003680 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399599003681 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 399599003682 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 399599003683 DNA binding residues [nucleotide binding] 399599003684 DNA primase; Validated; Region: dnaG; PRK05667 399599003685 CHC2 zinc finger; Region: zf-CHC2; pfam01807 399599003686 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 399599003687 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 399599003688 active site 399599003689 metal binding site [ion binding]; metal-binding site 399599003690 interdomain interaction site; other site 399599003691 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 399599003692 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 399599003693 Yqey-like protein; Region: YqeY; pfam09424 399599003694 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 399599003695 UGMP family protein; Validated; Region: PRK09604 399599003696 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 399599003697 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 399599003698 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 399599003699 homooctamer interface [polypeptide binding]; other site 399599003700 active site 399599003701 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 399599003702 catalytic center binding site [active] 399599003703 ATP binding site [chemical binding]; other site 399599003704 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 399599003705 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 399599003706 Methyltransferase domain; Region: Methyltransf_11; pfam08241 399599003707 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 399599003708 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 399599003709 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 399599003710 active site 399599003711 NTP binding site [chemical binding]; other site 399599003712 metal binding triad [ion binding]; metal-binding site 399599003713 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 399599003714 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399599003715 Zn2+ binding site [ion binding]; other site 399599003716 Mg2+ binding site [ion binding]; other site 399599003717 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 399599003718 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 399599003719 Walker A motif; other site 399599003720 ATP binding site [chemical binding]; other site 399599003721 Walker B motif; other site 399599003722 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 399599003723 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 399599003724 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 399599003725 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 399599003726 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 399599003727 inhibitor-cofactor binding pocket; inhibition site 399599003728 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599003729 catalytic residue [active] 399599003730 aspartate carbamoyltransferase; Provisional; Region: PRK08192 399599003731 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 399599003732 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 399599003733 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 399599003734 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 399599003735 Cl- selectivity filter; other site 399599003736 Cl- binding residues [ion binding]; other site 399599003737 pore gating glutamate residue; other site 399599003738 dimer interface [polypeptide binding]; other site 399599003739 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 399599003740 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 399599003741 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 399599003742 amphipathic channel; other site 399599003743 Asn-Pro-Ala signature motifs; other site 399599003744 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 399599003745 putative peptidase; Provisional; Region: PRK11649 399599003746 Opacity-associated protein A N-terminal motif; Region: OapA_N; pfam08525 399599003747 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 399599003748 Peptidase family M23; Region: Peptidase_M23; pfam01551 399599003749 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 399599003750 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 399599003751 active site 399599003752 HIGH motif; other site 399599003753 dimer interface [polypeptide binding]; other site 399599003754 KMSKS motif; other site 399599003755 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 399599003756 RNA binding surface [nucleotide binding]; other site 399599003757 SnoaL-like domain; Region: SnoaL_2; pfam12680 399599003758 hypothetical protein; Provisional; Region: PRK10578 399599003759 UPF0126 domain; Region: UPF0126; pfam03458 399599003760 UPF0126 domain; Region: UPF0126; pfam03458 399599003761 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 399599003762 Cobalamin biosynthesis protein CobD/CbiB [Coenzyme metabolism]; Region: CbiB; COG1270 399599003763 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 399599003764 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 399599003765 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 399599003766 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 399599003767 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 399599003768 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 399599003769 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 399599003770 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 399599003771 active site 399599003772 dimer interface [polypeptide binding]; other site 399599003773 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 399599003774 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 399599003775 active site 399599003776 FMN binding site [chemical binding]; other site 399599003777 substrate binding site [chemical binding]; other site 399599003778 3Fe-4S cluster binding site [ion binding]; other site 399599003779 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 399599003780 domain interface; other site 399599003781 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 399599003782 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 399599003783 FeS/SAM binding site; other site 399599003784 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 399599003785 putative binding surface; other site 399599003786 active site 399599003787 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599003788 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599003789 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 399599003790 dimerization interface [polypeptide binding]; other site 399599003791 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 399599003792 cyclase homology domain; Region: CHD; cd07302 399599003793 nucleotidyl binding site; other site 399599003794 metal binding site [ion binding]; metal-binding site 399599003795 dimer interface [polypeptide binding]; other site 399599003796 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 399599003797 putative DNA-binding cleft [nucleotide binding]; other site 399599003798 putative DNA clevage site; other site 399599003799 molecular lever; other site 399599003800 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 399599003801 putative active site [active] 399599003802 Ap4A binding site [chemical binding]; other site 399599003803 nudix motif; other site 399599003804 putative metal binding site [ion binding]; other site 399599003805 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 399599003806 GAF domain; Region: GAF; pfam01590 399599003807 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 399599003808 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 399599003809 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 399599003810 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 399599003811 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 399599003812 thymidylate synthase; Reviewed; Region: thyA; PRK01827 399599003813 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 399599003814 dimerization interface [polypeptide binding]; other site 399599003815 active site 399599003816 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 399599003817 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 399599003818 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599003819 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 399599003820 dimerization interface [polypeptide binding]; other site 399599003821 Uncharacterized conserved protein [Function unknown]; Region: COG2938 399599003822 L-aspartate oxidase; Provisional; Region: PRK09077 399599003823 L-aspartate oxidase; Provisional; Region: PRK06175 399599003824 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 399599003825 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 399599003826 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399599003827 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 399599003828 DNA binding residues [nucleotide binding] 399599003829 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 399599003830 anti-RNA polymerase sigma factor SigE; Provisional; Region: PRK10863 399599003831 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 399599003832 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 399599003833 anti-sigma E factor; Provisional; Region: rseB; PRK09455 399599003834 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 399599003835 GTP-binding protein LepA; Provisional; Region: PRK05433 399599003836 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 399599003837 G1 box; other site 399599003838 putative GEF interaction site [polypeptide binding]; other site 399599003839 GTP/Mg2+ binding site [chemical binding]; other site 399599003840 Switch I region; other site 399599003841 G2 box; other site 399599003842 G3 box; other site 399599003843 Switch II region; other site 399599003844 G4 box; other site 399599003845 G5 box; other site 399599003846 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 399599003847 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 399599003848 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 399599003849 signal peptidase I; Provisional; Region: PRK10861 399599003850 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 399599003851 Catalytic site [active] 399599003852 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 399599003853 ribonuclease III; Reviewed; Region: rnc; PRK00102 399599003854 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 399599003855 dimerization interface [polypeptide binding]; other site 399599003856 active site 399599003857 metal binding site [ion binding]; metal-binding site 399599003858 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 399599003859 dsRNA binding site [nucleotide binding]; other site 399599003860 GTPase Era; Reviewed; Region: era; PRK00089 399599003861 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 399599003862 G1 box; other site 399599003863 GTP/Mg2+ binding site [chemical binding]; other site 399599003864 Switch I region; other site 399599003865 G2 box; other site 399599003866 Switch II region; other site 399599003867 G3 box; other site 399599003868 G4 box; other site 399599003869 G5 box; other site 399599003870 KH domain; Region: KH_2; pfam07650 399599003871 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 399599003872 Recombination protein O N terminal; Region: RecO_N; pfam11967 399599003873 Recombination protein O C terminal; Region: RecO_C; pfam02565 399599003874 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 399599003875 active site 399599003876 hydrophilic channel; other site 399599003877 dimerization interface [polypeptide binding]; other site 399599003878 catalytic residues [active] 399599003879 active site lid [active] 399599003880 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 399599003881 Protein of unknown function (DUF962); Region: DUF962; cl01879 399599003882 Domain of unknown function DUF21; Region: DUF21; pfam01595 399599003883 hypothetical protein; Provisional; Region: PRK11573 399599003884 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 399599003885 Transporter associated domain; Region: CorC_HlyC; smart01091 399599003886 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 399599003887 signal recognition particle protein; Provisional; Region: PRK10867 399599003888 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 399599003889 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 399599003890 P loop; other site 399599003891 GTP binding site [chemical binding]; other site 399599003892 Signal peptide binding domain; Region: SRP_SPB; pfam02978 399599003893 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 399599003894 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 399599003895 RimM N-terminal domain; Region: RimM; pfam01782 399599003896 PRC-barrel domain; Region: PRC; pfam05239 399599003897 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 399599003898 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 399599003899 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 399599003900 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 399599003901 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 399599003902 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 399599003903 prephenate dehydrogenase; Validated; Region: PRK08507 399599003904 hybrid cluster protein; Provisional; Region: PRK05290 399599003905 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 399599003906 ACS interaction site; other site 399599003907 CODH interaction site; other site 399599003908 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 399599003909 hybrid metal cluster; other site 399599003910 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 399599003911 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 399599003912 FAD binding pocket [chemical binding]; other site 399599003913 FAD binding motif [chemical binding]; other site 399599003914 phosphate binding motif [ion binding]; other site 399599003915 beta-alpha-beta structure motif; other site 399599003916 NAD binding pocket [chemical binding]; other site 399599003917 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 399599003918 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 399599003919 catalytic loop [active] 399599003920 iron binding site [ion binding]; other site 399599003921 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 399599003922 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 399599003923 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 399599003924 Prephenate dehydratase; Region: PDT; pfam00800 399599003925 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 399599003926 putative L-Phe binding site [chemical binding]; other site 399599003927 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 399599003928 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 399599003929 30S subunit binding site; other site 399599003930 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 399599003931 Cytochrome C' Region: Cytochrom_C_2; pfam01322 399599003932 Trp repressor protein; Region: Trp_repressor; pfam01371 399599003933 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 399599003934 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 399599003935 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 399599003936 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 399599003937 putative catalytic residues [active] 399599003938 putative nucleotide binding site [chemical binding]; other site 399599003939 putative aspartate binding site [chemical binding]; other site 399599003940 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 399599003941 dimer interface [polypeptide binding]; other site 399599003942 putative threonine allosteric regulatory site; other site 399599003943 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 399599003944 putative threonine allosteric regulatory site; other site 399599003945 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 399599003946 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 399599003947 homoserine kinase; Provisional; Region: PRK01212 399599003948 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 399599003949 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 399599003950 threonine synthase; Validated; Region: PRK09225 399599003951 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 399599003952 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 399599003953 catalytic residue [active] 399599003954 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 399599003955 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399599003956 substrate binding pocket [chemical binding]; other site 399599003957 membrane-bound complex binding site; other site 399599003958 hinge residues; other site 399599003959 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 399599003960 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 399599003961 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 399599003962 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 399599003963 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 399599003964 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 399599003965 protein binding site [polypeptide binding]; other site 399599003966 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 399599003967 Domain interface; other site 399599003968 Peptide binding site; other site 399599003969 Active site tetrad [active] 399599003970 OsmC-like protein; Region: OsmC; cl00767 399599003971 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 399599003972 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 399599003973 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 399599003974 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 399599003975 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 399599003976 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 399599003977 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 399599003978 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 399599003979 carbohydrate binding site [chemical binding]; other site 399599003980 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 399599003981 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 399599003982 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 399599003983 Ca binding site [ion binding]; other site 399599003984 active site 399599003985 catalytic site [active] 399599003986 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 399599003987 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 399599003988 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 399599003989 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 399599003990 PAS domain; Region: PAS_9; pfam13426 399599003991 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 399599003992 putative active site [active] 399599003993 heme pocket [chemical binding]; other site 399599003994 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 399599003995 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599003996 dimer interface [polypeptide binding]; other site 399599003997 putative CheW interface [polypeptide binding]; other site 399599003998 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 399599003999 30S subunit binding site; other site 399599004000 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 399599004001 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599004002 active site 399599004003 phosphorylation site [posttranslational modification] 399599004004 intermolecular recognition site; other site 399599004005 dimerization interface [polypeptide binding]; other site 399599004006 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 399599004007 dimerization interface [polypeptide binding]; other site 399599004008 DNA binding residues [nucleotide binding] 399599004009 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 399599004010 Histidine kinase; Region: HisKA_3; pfam07730 399599004011 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 399599004012 ATP binding site [chemical binding]; other site 399599004013 Mg2+ binding site [ion binding]; other site 399599004014 G-X-G motif; other site 399599004015 Uncharacterized protein conserved in bacteria (DUF2141); Region: DUF2141; pfam09912 399599004016 Lignostilbene-alpha,beta-dioxygenase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3670 399599004017 Retinal pigment epithelial membrane protein; Region: RPE65; pfam03055 399599004018 hypothetical protein; Provisional; Region: PRK12378 399599004019 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599004020 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599004021 dimer interface [polypeptide binding]; other site 399599004022 putative CheW interface [polypeptide binding]; other site 399599004023 Protein of unknown function (DUF2375); Region: DUF2375; pfam09558 399599004024 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399599004025 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399599004026 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 399599004027 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 399599004028 FMN binding site [chemical binding]; other site 399599004029 active site 399599004030 substrate binding site [chemical binding]; other site 399599004031 catalytic residue [active] 399599004032 AAA domain; Region: AAA_32; pfam13654 399599004033 ATP-dependent protease Lon; Provisional; Region: PRK13765 399599004034 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 399599004035 PAS domain; Region: PAS_9; pfam13426 399599004036 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 399599004037 PAS domain; Region: PAS_9; pfam13426 399599004038 putative active site [active] 399599004039 heme pocket [chemical binding]; other site 399599004040 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599004041 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599004042 metal binding site [ion binding]; metal-binding site 399599004043 active site 399599004044 I-site; other site 399599004045 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 399599004046 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 399599004047 DEAD-like helicases superfamily; Region: DEXDc; smart00487 399599004048 ATP binding site [chemical binding]; other site 399599004049 Mg++ binding site [ion binding]; other site 399599004050 motif III; other site 399599004051 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 399599004052 nucleotide binding region [chemical binding]; other site 399599004053 ATP-binding site [chemical binding]; other site 399599004054 Transposase; Region: HTH_Tnp_1; pfam01527 399599004055 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599004056 putative transposase OrfB; Reviewed; Region: PHA02517 399599004057 HTH-like domain; Region: HTH_21; pfam13276 399599004058 Integrase core domain; Region: rve; pfam00665 399599004059 Integrase core domain; Region: rve_2; pfam13333 399599004060 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 399599004061 SmpB-tmRNA interface; other site 399599004062 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 399599004063 putative coenzyme Q binding site [chemical binding]; other site 399599004064 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 399599004065 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 399599004066 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 399599004067 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 399599004068 active site 399599004069 SAM binding site [chemical binding]; other site 399599004070 homodimer interface [polypeptide binding]; other site 399599004071 Subunit A of Class III extradiol dioxygenases; Region: Extradiol_Dioxygenase_3A_like; cl06673 399599004072 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599004073 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599004074 metal binding site [ion binding]; metal-binding site 399599004075 active site 399599004076 I-site; other site 399599004077 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 399599004078 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 399599004079 TrkA-N domain; Region: TrkA_N; pfam02254 399599004080 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 399599004081 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 399599004082 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 399599004083 malate synthase A; Region: malate_syn_A; TIGR01344 399599004084 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 399599004085 active site 399599004086 isocitrate lyase; Provisional; Region: PRK15063 399599004087 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 399599004088 tetramer interface [polypeptide binding]; other site 399599004089 active site 399599004090 Mg2+/Mn2+ binding site [ion binding]; other site 399599004091 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 399599004092 putative alcohol dehydrogenase; Provisional; Region: PRK09860 399599004093 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 399599004094 dimer interface [polypeptide binding]; other site 399599004095 active site 399599004096 metal binding site [ion binding]; metal-binding site 399599004097 transcriptional regulator BetI; Validated; Region: PRK00767 399599004098 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399599004099 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 399599004100 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 399599004101 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 399599004102 NAD(P) binding site [chemical binding]; other site 399599004103 catalytic residues [active] 399599004104 choline dehydrogenase; Validated; Region: PRK02106 399599004105 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 399599004106 BCCT family transporter; Region: BCCT; cl00569 399599004107 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 399599004108 Transcriptional regulators [Transcription]; Region: MarR; COG1846 399599004109 MarR family; Region: MarR; pfam01047 399599004110 MarR family; Region: MarR_2; cl17246 399599004111 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 399599004112 active site 399599004113 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 399599004114 glycogen branching enzyme; Provisional; Region: PRK05402 399599004115 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 399599004116 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 399599004117 active site 399599004118 catalytic site [active] 399599004119 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 399599004120 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 399599004121 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 399599004122 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 399599004123 active site 399599004124 catalytic site [active] 399599004125 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 399599004126 homodimer interface [polypeptide binding]; other site 399599004127 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 399599004128 active site pocket [active] 399599004129 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 399599004130 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 399599004131 ligand binding site; other site 399599004132 oligomer interface; other site 399599004133 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 399599004134 dimer interface [polypeptide binding]; other site 399599004135 N-terminal domain interface [polypeptide binding]; other site 399599004136 sulfate 1 binding site; other site 399599004137 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 399599004138 glycogen synthase; Provisional; Region: glgA; PRK00654 399599004139 ADP-binding pocket [chemical binding]; other site 399599004140 homodimer interface [polypeptide binding]; other site 399599004141 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 399599004142 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 399599004143 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 399599004144 putative active site [active] 399599004145 heme pocket [chemical binding]; other site 399599004146 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 399599004147 PAS domain; Region: PAS_9; pfam13426 399599004148 putative active site [active] 399599004149 heme pocket [chemical binding]; other site 399599004150 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599004151 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599004152 metal binding site [ion binding]; metal-binding site 399599004153 active site 399599004154 I-site; other site 399599004155 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 399599004156 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 399599004157 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 399599004158 ATP binding site [chemical binding]; other site 399599004159 Mg++ binding site [ion binding]; other site 399599004160 motif III; other site 399599004161 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 399599004162 nucleotide binding region [chemical binding]; other site 399599004163 ATP-binding site [chemical binding]; other site 399599004164 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 399599004165 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 399599004166 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 399599004167 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 399599004168 substrate binding pocket [chemical binding]; other site 399599004169 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399599004170 membrane-bound complex binding site; other site 399599004171 hinge residues; other site 399599004172 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 399599004173 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 399599004174 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 399599004175 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 399599004176 dimer interface [polypeptide binding]; other site 399599004177 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399599004178 ligand binding site [chemical binding]; other site 399599004179 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 399599004180 ATPase family associated with various cellular activities (AAA); Region: AAA; pfam00004 399599004181 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 399599004182 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 399599004183 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 399599004184 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 399599004185 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 399599004186 Cysteine-rich domain; Region: CCG; pfam02754 399599004187 Cysteine-rich domain; Region: CCG; pfam02754 399599004188 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 399599004189 FAD binding domain; Region: FAD_binding_4; pfam01565 399599004190 4Fe-4S binding domain; Region: Fer4; pfam00037 399599004191 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 399599004192 L-lactate permease; Region: Lactate_perm; cl00701 399599004193 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 399599004194 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 399599004195 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 399599004196 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 399599004197 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 399599004198 dimer interface [polypeptide binding]; other site 399599004199 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 399599004200 Integrase core domain; Region: rve; pfam00665 399599004201 Integrase core domain; Region: rve_3; pfam13683 399599004202 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 399599004203 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 399599004204 TPP-binding site; other site 399599004205 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 399599004206 PYR/PP interface [polypeptide binding]; other site 399599004207 dimer interface [polypeptide binding]; other site 399599004208 TPP binding site [chemical binding]; other site 399599004209 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 399599004210 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 399599004211 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 399599004212 substrate binding pocket [chemical binding]; other site 399599004213 chain length determination region; other site 399599004214 substrate-Mg2+ binding site; other site 399599004215 catalytic residues [active] 399599004216 aspartate-rich region 1; other site 399599004217 active site lid residues [active] 399599004218 aspartate-rich region 2; other site 399599004219 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 399599004220 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 399599004221 flagellar motor protein PomA; Reviewed; Region: PRK08990 399599004222 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 399599004223 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 399599004224 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399599004225 ligand binding site [chemical binding]; other site 399599004226 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 399599004227 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 399599004228 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 399599004229 Ligand Binding Site [chemical binding]; other site 399599004230 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 399599004231 active site residue [active] 399599004232 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 399599004233 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599004234 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 399599004235 dimerization interface [polypeptide binding]; other site 399599004236 substrate binding pocket [chemical binding]; other site 399599004237 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 399599004238 Protein of unknown function (DUF423); Region: DUF423; pfam04241 399599004239 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 399599004240 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 399599004241 isocitrate dehydrogenase; Provisional; Region: PRK08997 399599004242 tartrate dehydrogenase; Region: TTC; TIGR02089 399599004243 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 399599004244 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399599004245 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 399599004246 flap endonuclease-like protein; Provisional; Region: PRK09482 399599004247 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 399599004248 active site 399599004249 metal binding site 1 [ion binding]; metal-binding site 399599004250 putative 5' ssDNA interaction site; other site 399599004251 metal binding site 3; metal-binding site 399599004252 metal binding site 2 [ion binding]; metal-binding site 399599004253 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 399599004254 putative DNA binding site [nucleotide binding]; other site 399599004255 putative metal binding site [ion binding]; other site 399599004256 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 399599004257 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 399599004258 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599004259 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599004260 metal binding site [ion binding]; metal-binding site 399599004261 active site 399599004262 I-site; other site 399599004263 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 399599004264 TPR motif; other site 399599004265 binding surface 399599004266 Tetratricopeptide repeat; Region: TPR_12; pfam13424 399599004267 Tetratricopeptide repeat; Region: TPR_12; pfam13424 399599004268 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 399599004269 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 399599004270 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 399599004271 protein binding site [polypeptide binding]; other site 399599004272 recombination associated protein; Reviewed; Region: rdgC; PRK00321 399599004273 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 399599004274 trimer interface [polypeptide binding]; other site 399599004275 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 399599004276 eyelet of channel; other site 399599004277 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 399599004278 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599004279 active site 399599004280 phosphorylation site [posttranslational modification] 399599004281 intermolecular recognition site; other site 399599004282 dimerization interface [polypeptide binding]; other site 399599004283 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 399599004284 DNA binding site [nucleotide binding] 399599004285 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 399599004286 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 399599004287 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 399599004288 putative active site [active] 399599004289 heme pocket [chemical binding]; other site 399599004290 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 399599004291 dimer interface [polypeptide binding]; other site 399599004292 phosphorylation site [posttranslational modification] 399599004293 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599004294 ATP binding site [chemical binding]; other site 399599004295 Mg2+ binding site [ion binding]; other site 399599004296 G-X-G motif; other site 399599004297 PBP superfamily domain; Region: PBP_like_2; cl17296 399599004298 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 399599004299 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 399599004300 active site 399599004301 Zn binding site [ion binding]; other site 399599004302 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 399599004303 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 399599004304 catalytic residues [active] 399599004305 dimer interface [polypeptide binding]; other site 399599004306 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 399599004307 MgtE intracellular N domain; Region: MgtE_N; smart00924 399599004308 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 399599004309 Divalent cation transporter; Region: MgtE; cl00786 399599004310 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 399599004311 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599004312 Coenzyme A binding pocket [chemical binding]; other site 399599004313 YfaZ precursor; Region: YfaZ; pfam07437 399599004314 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 399599004315 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 399599004316 EamA-like transporter family; Region: EamA; pfam00892 399599004317 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 399599004318 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 399599004319 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599004320 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599004321 metal binding site [ion binding]; metal-binding site 399599004322 active site 399599004323 I-site; other site 399599004324 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 399599004325 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 399599004326 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 399599004327 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 399599004328 S-adenosylmethionine binding site [chemical binding]; other site 399599004329 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 399599004330 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 399599004331 C-terminal domain interface [polypeptide binding]; other site 399599004332 GSH binding site (G-site) [chemical binding]; other site 399599004333 dimer interface [polypeptide binding]; other site 399599004334 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 399599004335 N-terminal domain interface [polypeptide binding]; other site 399599004336 putative dimer interface [polypeptide binding]; other site 399599004337 active site 399599004338 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 399599004339 GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing...; Region: GST_N_GTT2_like; cd03051 399599004340 putative C-terminal domain interface [polypeptide binding]; other site 399599004341 putative GSH binding site (G-site) [chemical binding]; other site 399599004342 putative dimer interface [polypeptide binding]; other site 399599004343 C-terminal, alpha helical domain of GTT2-like Glutathione S-transferases; Region: GST_C_GTT2_like; cd03182 399599004344 putative N-terminal domain interface [polypeptide binding]; other site 399599004345 putative dimer interface [polypeptide binding]; other site 399599004346 putative substrate binding pocket (H-site) [chemical binding]; other site 399599004347 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399599004348 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399599004349 TIGR02453 family protein; Region: TIGR02453 399599004350 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 399599004351 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 399599004352 N-terminal plug; other site 399599004353 ligand-binding site [chemical binding]; other site 399599004354 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; smart00782 399599004355 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 399599004356 PhnA protein; Region: PhnA; pfam03831 399599004357 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 399599004358 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599004359 putative substrate translocation pore; other site 399599004360 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 399599004361 MarR family; Region: MarR; pfam01047 399599004362 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 399599004363 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 399599004364 putative active site [active] 399599004365 Zn binding site [ion binding]; other site 399599004366 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 399599004367 dimerization interface [polypeptide binding]; other site 399599004368 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599004369 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599004370 dimer interface [polypeptide binding]; other site 399599004371 putative CheW interface [polypeptide binding]; other site 399599004372 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 399599004373 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 399599004374 Predicted DNA-binding proteins [General function prediction only]; Region: COG1342 399599004375 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 399599004376 metal binding site 2 [ion binding]; metal-binding site 399599004377 putative DNA binding helix; other site 399599004378 metal binding site 1 [ion binding]; metal-binding site 399599004379 dimer interface [polypeptide binding]; other site 399599004380 structural Zn2+ binding site [ion binding]; other site 399599004381 CoA-disulfide reductase; Region: CoA_CoA_reduc; TIGR03385 399599004382 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 399599004383 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 399599004384 Member of the Rhodanese Homology Domain superfamily. Included in this CD are the Lactococcus lactis NADH oxidase, Bacillus cereus NADH dehydrogenase, and Bacteroides thetaiotaomicron pyridine nucleotide-disulphide oxidoreductase, and similar...; Region: RHOD_Pyr_redox; cd01524 399599004385 active site residue [active] 399599004386 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 399599004387 CoenzymeA binding site [chemical binding]; other site 399599004388 subunit interaction site [polypeptide binding]; other site 399599004389 PHB binding site; other site 399599004390 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 399599004391 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 399599004392 Beta-N-acetylhexosaminidases of glycosyl hydrolase family 20 (GH20) catalyze the removal of beta-1,4-linked N-acetyl-D-hexosamine residues from the non-reducing ends of N-acetyl-beta-D-hexosaminides including N-acetylglucosides and N-acetylgalactosides; Region: GH20_hexosaminidase; cl02948 399599004393 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 399599004394 active site 399599004395 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 399599004396 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 399599004397 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 399599004398 nucleotide binding site [chemical binding]; other site 399599004399 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 399599004400 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599004401 putative substrate translocation pore; other site 399599004402 L-fucose transporter; Provisional; Region: PRK10133; cl17665 399599004403 Helix-turn-helix domain; Region: HTH_18; pfam12833 399599004404 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 399599004405 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 399599004406 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 399599004407 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 399599004408 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 399599004409 Putative catalytic NodB homology domain of uncharacterized Mll8295 protein encoded from Rhizobium loti and its bacterial homologs; Region: CE4_Mll8295_like; cd10946 399599004410 NodB motif; other site 399599004411 putative active site [active] 399599004412 putative catalytic site [active] 399599004413 putative Zn binding site [ion binding]; other site 399599004414 chitin-binding domain of Chi A1-like proteins; Region: ChiA1_BD; cd12214 399599004415 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 399599004416 BON domain; Region: BON; pfam04972 399599004417 BON domain; Region: BON; pfam04972 399599004418 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 399599004419 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 399599004420 Walker A motif; other site 399599004421 ATP binding site [chemical binding]; other site 399599004422 Walker B motif; other site 399599004423 arginine finger; other site 399599004424 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399599004425 hypothetical protein; Provisional; Region: PRK12361 399599004426 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 399599004427 active site 399599004428 catalytic residues [active] 399599004429 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 399599004430 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 399599004431 non-specific DNA binding site [nucleotide binding]; other site 399599004432 salt bridge; other site 399599004433 sequence-specific DNA binding site [nucleotide binding]; other site 399599004434 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 399599004435 FMN binding site [chemical binding]; other site 399599004436 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 399599004437 substrate binding site [chemical binding]; other site 399599004438 putative catalytic residue [active] 399599004439 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 399599004440 3-oxoacyl-acyl carrier protein synthase; Provisional; Region: PTZ00050 399599004441 active site 399599004442 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 399599004443 active site 399599004444 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 399599004445 active site 2 [active] 399599004446 dimer interface [polypeptide binding]; other site 399599004447 active site 1 [active] 399599004448 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 399599004449 active site 1 [active] 399599004450 dimer interface [polypeptide binding]; other site 399599004451 active site 2 [active] 399599004452 Acyl transferase domain; Region: Acyl_transf_1; cl08282 399599004453 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 399599004454 3-oxoacyl-acyl carrier protein synthase; Provisional; Region: PTZ00050 399599004455 active site 399599004456 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 399599004457 Acyl transferase domain in polyketide synthase (PKS) enzymes; Region: PKS_AT; smart00827 399599004458 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 399599004459 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 399599004460 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 399599004461 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 399599004462 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 399599004463 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 399599004464 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 399599004465 putative NADP binding site [chemical binding]; other site 399599004466 active site 399599004467 Winged helix-turn helix; Region: HTH_29; pfam13551 399599004468 Homeodomain-like domain; Region: HTH_23; pfam13384 399599004469 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 399599004470 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 399599004471 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 399599004472 SpoOM protein; Region: Spo0M; pfam07070 399599004473 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 399599004474 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 399599004475 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 399599004476 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599004477 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 399599004478 putative substrate binding pocket [chemical binding]; other site 399599004479 putative dimerization interface [polypeptide binding]; other site 399599004480 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 399599004481 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 399599004482 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 399599004483 SecY interacting protein Syd; Provisional; Region: PRK04968 399599004484 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 399599004485 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 399599004486 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 399599004487 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 399599004488 Coenzyme A binding pocket [chemical binding]; other site 399599004489 Protein of unknown function (DUF962); Region: DUF962; pfam06127 399599004490 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 399599004491 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 399599004492 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 399599004493 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 399599004494 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 399599004495 probable active site [active] 399599004496 flavodoxin; Provisional; Region: PRK08105 399599004497 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 399599004498 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 399599004499 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 399599004500 active site turn [active] 399599004501 phosphorylation site [posttranslational modification] 399599004502 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 399599004503 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 399599004504 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 399599004505 putative active site [active] 399599004506 putative substrate binding site [chemical binding]; other site 399599004507 putative cosubstrate binding site; other site 399599004508 catalytic site [active] 399599004509 PAS domain; Region: PAS_9; pfam13426 399599004510 GAF domain; Region: GAF_2; pfam13185 399599004511 GAF domain; Region: GAF; pfam01590 399599004512 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 399599004513 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399599004514 Zn2+ binding site [ion binding]; other site 399599004515 Mg2+ binding site [ion binding]; other site 399599004516 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 399599004517 FOG: CBS domain [General function prediction only]; Region: COG0517 399599004518 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 399599004519 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 399599004520 trimer interface [polypeptide binding]; other site 399599004521 active site 399599004522 substrate binding site [chemical binding]; other site 399599004523 CoA binding site [chemical binding]; other site 399599004524 PII uridylyl-transferase; Provisional; Region: PRK05007 399599004525 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 399599004526 metal binding triad; other site 399599004527 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 399599004528 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 399599004529 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 399599004530 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 399599004531 active site 399599004532 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 399599004533 rRNA interaction site [nucleotide binding]; other site 399599004534 S8 interaction site; other site 399599004535 putative laminin-1 binding site; other site 399599004536 elongation factor Ts; Provisional; Region: tsf; PRK09377 399599004537 UBA/TS-N domain; Region: UBA; pfam00627 399599004538 Elongation factor TS; Region: EF_TS; pfam00889 399599004539 Elongation factor TS; Region: EF_TS; pfam00889 399599004540 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 399599004541 putative nucleotide binding site [chemical binding]; other site 399599004542 uridine monophosphate binding site [chemical binding]; other site 399599004543 homohexameric interface [polypeptide binding]; other site 399599004544 ribosome recycling factor; Reviewed; Region: frr; PRK00083 399599004545 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 399599004546 hinge region; other site 399599004547 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 399599004548 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 399599004549 catalytic residue [active] 399599004550 putative FPP diphosphate binding site; other site 399599004551 putative FPP binding hydrophobic cleft; other site 399599004552 dimer interface [polypeptide binding]; other site 399599004553 putative IPP diphosphate binding site; other site 399599004554 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 399599004555 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 399599004556 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 399599004557 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 399599004558 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 399599004559 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 399599004560 zinc metallopeptidase RseP; Provisional; Region: PRK10779 399599004561 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 399599004562 active site 399599004563 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 399599004564 protein binding site [polypeptide binding]; other site 399599004565 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 399599004566 protein binding site [polypeptide binding]; other site 399599004567 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 399599004568 putative substrate binding region [chemical binding]; other site 399599004569 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 399599004570 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 399599004571 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 399599004572 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 399599004573 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 399599004574 Surface antigen; Region: Bac_surface_Ag; pfam01103 399599004575 periplasmic chaperone; Provisional; Region: PRK10780 399599004576 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 399599004577 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 399599004578 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 399599004579 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 399599004580 trimer interface [polypeptide binding]; other site 399599004581 active site 399599004582 UDP-GlcNAc binding site [chemical binding]; other site 399599004583 lipid binding site [chemical binding]; lipid-binding site 399599004584 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 399599004585 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 399599004586 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 399599004587 active site 399599004588 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 399599004589 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 399599004590 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 399599004591 RNA/DNA hybrid binding site [nucleotide binding]; other site 399599004592 active site 399599004593 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 399599004594 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 399599004595 putative active site [active] 399599004596 putative PHP Thumb interface [polypeptide binding]; other site 399599004597 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 399599004598 generic binding surface II; other site 399599004599 generic binding surface I; other site 399599004600 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 399599004601 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 399599004602 Ligand Binding Site [chemical binding]; other site 399599004603 TilS substrate binding domain; Region: TilS; pfam09179 399599004604 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 399599004605 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599004606 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599004607 metal binding site [ion binding]; metal-binding site 399599004608 active site 399599004609 I-site; other site 399599004610 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 399599004611 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 399599004612 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 399599004613 TrkA-N domain; Region: TrkA_N; pfam02254 399599004614 TrkA-C domain; Region: TrkA_C; pfam02080 399599004615 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 399599004616 DNA-binding site [nucleotide binding]; DNA binding site 399599004617 RNA-binding motif; other site 399599004618 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 399599004619 SWIM zinc finger; Region: SWIM; pfam04434 399599004620 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 399599004621 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 399599004622 ATP binding site [chemical binding]; other site 399599004623 putative Mg++ binding site [ion binding]; other site 399599004624 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 399599004625 nucleotide binding region [chemical binding]; other site 399599004626 ATP-binding site [chemical binding]; other site 399599004627 putative hydrolase; Validated; Region: PRK09248 399599004628 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 399599004629 active site 399599004630 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 399599004631 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 399599004632 NADP binding site [chemical binding]; other site 399599004633 active site 399599004634 putative substrate binding site [chemical binding]; other site 399599004635 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 399599004636 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 399599004637 active site 399599004638 fructokinase; Reviewed; Region: PRK09557 399599004639 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 399599004640 nucleotide binding site [chemical binding]; other site 399599004641 Uncharacterized conserved protein [Function unknown]; Region: COG1434 399599004642 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 399599004643 putative active site [active] 399599004644 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 399599004645 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 399599004646 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599004647 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599004648 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 399599004649 dimerization interface [polypeptide binding]; other site 399599004650 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 399599004651 ferredoxin-type protein; Provisional; Region: PRK10194 399599004652 4Fe-4S binding domain; Region: Fer4; cl02805 399599004653 UDP-glucose 4-epimerase; Region: PLN02240 399599004654 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 399599004655 NAD binding site [chemical binding]; other site 399599004656 homodimer interface [polypeptide binding]; other site 399599004657 active site 399599004658 substrate binding site [chemical binding]; other site 399599004659 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 399599004660 active site 399599004661 tetramer interface; other site 399599004662 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 399599004663 cofactor binding site; other site 399599004664 metal binding site [ion binding]; metal-binding site 399599004665 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 399599004666 aromatic arch; other site 399599004667 DCoH dimer interaction site [polypeptide binding]; other site 399599004668 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 399599004669 DCoH tetramer interaction site [polypeptide binding]; other site 399599004670 substrate binding site [chemical binding]; other site 399599004671 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 399599004672 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 399599004673 putative aromatic amino acid binding site; other site 399599004674 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 399599004675 Walker A motif; other site 399599004676 ATP binding site [chemical binding]; other site 399599004677 Walker B motif; other site 399599004678 arginine finger; other site 399599004679 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 399599004680 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 399599004681 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 399599004682 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 399599004683 maleylacetoacetate isomerase; Region: maiA; TIGR01262 399599004684 C-terminal domain interface [polypeptide binding]; other site 399599004685 GSH binding site (G-site) [chemical binding]; other site 399599004686 putative dimer interface [polypeptide binding]; other site 399599004687 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 399599004688 dimer interface [polypeptide binding]; other site 399599004689 N-terminal domain interface [polypeptide binding]; other site 399599004690 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 399599004691 Bacterial protein of unknown function (DUF925); Region: DUF925; pfam06042 399599004692 outer membrane protein W; Provisional; Region: PRK10959 399599004693 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 399599004694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399599004695 NAD(P) binding site [chemical binding]; other site 399599004696 active site 399599004697 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 399599004698 homoserine O-succinyltransferase; Provisional; Region: PRK05368 399599004699 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 399599004700 proposed active site lysine [active] 399599004701 conserved cys residue [active] 399599004702 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 399599004703 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 399599004704 dimer interface [polypeptide binding]; other site 399599004705 active site 399599004706 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 399599004707 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 399599004708 tetrameric interface [polypeptide binding]; other site 399599004709 NAD binding site [chemical binding]; other site 399599004710 catalytic residues [active] 399599004711 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 399599004712 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399599004713 active site 399599004714 enoyl-CoA hydratase; Provisional; Region: PRK09076 399599004715 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 399599004716 substrate binding site [chemical binding]; other site 399599004717 oxyanion hole (OAH) forming residues; other site 399599004718 trimer interface [polypeptide binding]; other site 399599004719 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 399599004720 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 399599004721 substrate binding site [chemical binding]; other site 399599004722 oxyanion hole (OAH) forming residues; other site 399599004723 trimer interface [polypeptide binding]; other site 399599004724 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 399599004725 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 399599004726 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 399599004727 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 399599004728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399599004729 NAD(P) binding site [chemical binding]; other site 399599004730 active site 399599004731 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 399599004732 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399599004733 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 399599004734 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 399599004735 DNA binding residues [nucleotide binding] 399599004736 dimer interface [polypeptide binding]; other site 399599004737 copper binding site [ion binding]; other site 399599004738 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 399599004739 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 399599004740 metal-binding site [ion binding] 399599004741 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 399599004742 Soluble P-type ATPase [General function prediction only]; Region: COG4087 399599004743 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 399599004744 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399599004745 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399599004746 ABC transporter; Region: ABC_tran_2; pfam12848 399599004747 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399599004748 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 399599004749 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 399599004750 EamA-like transporter family; Region: EamA; pfam00892 399599004751 EamA-like transporter family; Region: EamA; pfam00892 399599004752 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 399599004753 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 399599004754 FAD binding domain; Region: FAD_binding_4; pfam01565 399599004755 Berberine and berberine like; Region: BBE; pfam08031 399599004756 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 399599004757 PAS domain; Region: PAS_9; pfam13426 399599004758 putative active site [active] 399599004759 heme pocket [chemical binding]; other site 399599004760 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599004761 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599004762 metal binding site [ion binding]; metal-binding site 399599004763 active site 399599004764 I-site; other site 399599004765 Domain of unknown function (DUF1888); Region: DUF1888; pfam08985 399599004766 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 399599004767 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 399599004768 DNA binding site [nucleotide binding] 399599004769 AAA ATPase domain; Region: AAA_16; pfam13191 399599004770 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399599004771 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399599004772 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399599004773 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 399599004774 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599004775 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 399599004776 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 399599004777 Walker A/P-loop; other site 399599004778 ATP binding site [chemical binding]; other site 399599004779 Q-loop/lid; other site 399599004780 ABC transporter signature motif; other site 399599004781 Walker B; other site 399599004782 D-loop; other site 399599004783 H-loop/switch region; other site 399599004784 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 399599004785 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 399599004786 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 399599004787 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 399599004788 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 399599004789 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 399599004790 SseB protein; Region: SseB; cl06279 399599004791 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 399599004792 Beta-lactamase; Region: Beta-lactamase; pfam00144 399599004793 Transposase; Region: HTH_Tnp_1; pfam01527 399599004794 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599004795 putative transposase OrfB; Reviewed; Region: PHA02517 399599004796 HTH-like domain; Region: HTH_21; pfam13276 399599004797 Integrase core domain; Region: rve; pfam00665 399599004798 Integrase core domain; Region: rve_2; pfam13333 399599004799 SIR2-like domain; Region: SIR2_2; pfam13289 399599004800 Domain of unknown function (DUF4404); Region: DUF4404; pfam14357 399599004801 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 399599004802 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 399599004803 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 399599004804 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 399599004805 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 399599004806 EamA-like transporter family; Region: EamA; pfam00892 399599004807 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 399599004808 EamA-like transporter family; Region: EamA; pfam00892 399599004809 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 399599004810 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 399599004811 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 399599004812 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 399599004813 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 399599004814 conserved gate region; other site 399599004815 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 399599004816 ABC-ATPase subunit interface; other site 399599004817 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 399599004818 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 399599004819 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 399599004820 dimer interface [polypeptide binding]; other site 399599004821 conserved gate region; other site 399599004822 putative PBP binding loops; other site 399599004823 ABC-ATPase subunit interface; other site 399599004824 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 399599004825 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 399599004826 Walker A/P-loop; other site 399599004827 ATP binding site [chemical binding]; other site 399599004828 Q-loop/lid; other site 399599004829 ABC transporter signature motif; other site 399599004830 Walker B; other site 399599004831 D-loop; other site 399599004832 H-loop/switch region; other site 399599004833 transcriptional regulator PhoU; Provisional; Region: PRK11115 399599004834 PhoU domain; Region: PhoU; pfam01895 399599004835 PhoU domain; Region: PhoU; pfam01895 399599004836 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 399599004837 AAA domain; Region: AAA_21; pfam13304 399599004838 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 399599004839 dimer interface [polypeptide binding]; other site 399599004840 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399599004841 metal binding site [ion binding]; metal-binding site 399599004842 Protein of unknown function (DUF502); Region: DUF502; pfam04367 399599004843 BCCT family transporter; Region: BCCT; pfam02028 399599004844 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 399599004845 active site 399599004846 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 399599004847 Methyltransferase domain; Region: Methyltransf_32; pfam13679 399599004848 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 399599004849 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 399599004850 dimer interface [polypeptide binding]; other site 399599004851 active site 399599004852 CoA binding pocket [chemical binding]; other site 399599004853 haloalkane dehalogenase; Provisional; Region: PRK03592 399599004854 peptide synthase; Provisional; Region: PRK09274 399599004855 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 399599004856 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 399599004857 acyl-activating enzyme (AAE) consensus motif; other site 399599004858 putative AMP binding site [chemical binding]; other site 399599004859 putative active site [active] 399599004860 putative CoA binding site [chemical binding]; other site 399599004861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399599004862 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 399599004863 NAD(P) binding site [chemical binding]; other site 399599004864 active site 399599004865 Protein of unknown function (DUF3624); Region: DUF3624; pfam12292 399599004866 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 399599004867 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599004868 putative substrate translocation pore; other site 399599004869 POT family; Region: PTR2; cl17359 399599004870 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 399599004871 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 399599004872 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 399599004873 Walker A/P-loop; other site 399599004874 ATP binding site [chemical binding]; other site 399599004875 Q-loop/lid; other site 399599004876 ABC transporter signature motif; other site 399599004877 Walker B; other site 399599004878 D-loop; other site 399599004879 H-loop/switch region; other site 399599004880 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 399599004881 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 399599004882 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 399599004883 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 399599004884 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 399599004885 Zn binding site [ion binding]; other site 399599004886 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 399599004887 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 399599004888 active site 399599004889 substrate binding site [chemical binding]; other site 399599004890 metal binding site [ion binding]; metal-binding site 399599004891 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 399599004892 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399599004893 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; smart00871 399599004894 Predicted transcriptional regulator [Transcription]; Region: COG2378 399599004895 HTH domain; Region: HTH_11; pfam08279 399599004896 WYL domain; Region: WYL; pfam13280 399599004897 Aerolysin toxin; Region: Aerolysin; cl03107 399599004898 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 399599004899 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 399599004900 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 399599004901 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 399599004902 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 399599004903 Predicted branched-chain amino acid permease (azaleucine resistance) [Amino acid transport and metabolism]; Region: AzlC; COG1296 399599004904 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 399599004905 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399599004906 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399599004907 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399599004908 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 399599004909 trimer interface [polypeptide binding]; other site 399599004910 active site 399599004911 substrate binding site [chemical binding]; other site 399599004912 CoA binding site [chemical binding]; other site 399599004913 putative pyridoxal-dependent aspartate 1-decarboxylase; Region: NOD_PanD_pyr; TIGR03799 399599004914 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 399599004915 catalytic residue [active] 399599004916 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 399599004917 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 399599004918 fructuronate transporter; Provisional; Region: PRK10034; cl15264 399599004919 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 399599004920 putative heme binding pocket [chemical binding]; other site 399599004921 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 399599004922 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 399599004923 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 399599004924 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 399599004925 putative uracil binding site [chemical binding]; other site 399599004926 putative active site [active] 399599004927 Translocation protein Sec62; Region: Sec62; cl02170 399599004928 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 399599004929 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 399599004930 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 399599004931 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 399599004932 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 399599004933 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 399599004934 heme-binding residues [chemical binding]; other site 399599004935 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 399599004936 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 399599004937 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 399599004938 heme-binding residues [chemical binding]; other site 399599004939 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 399599004940 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 399599004941 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 399599004942 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 399599004943 FeoA domain; Region: FeoA; pfam04023 399599004944 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 399599004945 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 399599004946 G1 box; other site 399599004947 GTP/Mg2+ binding site [chemical binding]; other site 399599004948 Switch I region; other site 399599004949 G2 box; other site 399599004950 G3 box; other site 399599004951 Switch II region; other site 399599004952 G4 box; other site 399599004953 G5 box; other site 399599004954 Nucleoside recognition; Region: Gate; pfam07670 399599004955 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 399599004956 Nucleoside recognition; Region: Gate; pfam07670 399599004957 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 399599004958 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 399599004959 active site 399599004960 HIGH motif; other site 399599004961 nucleotide binding site [chemical binding]; other site 399599004962 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 399599004963 KMSKS motif; other site 399599004964 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 399599004965 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 399599004966 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 399599004967 active site 399599004968 dinuclear metal binding site [ion binding]; other site 399599004969 dimerization interface [polypeptide binding]; other site 399599004970 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 399599004971 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 399599004972 putative active site [active] 399599004973 putative metal binding site [ion binding]; other site 399599004974 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 399599004975 substrate binding site [chemical binding]; other site 399599004976 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 399599004977 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 399599004978 active site 399599004979 HIGH motif; other site 399599004980 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 399599004981 KMSKS motif; other site 399599004982 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 399599004983 tRNA binding surface [nucleotide binding]; other site 399599004984 anticodon binding site; other site 399599004985 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 399599004986 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 399599004987 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 399599004988 homodimer interface [polypeptide binding]; other site 399599004989 NADP binding site [chemical binding]; other site 399599004990 substrate binding site [chemical binding]; other site 399599004991 trigger factor; Provisional; Region: tig; PRK01490 399599004992 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 399599004993 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 399599004994 Clp protease; Region: CLP_protease; pfam00574 399599004995 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 399599004996 oligomer interface [polypeptide binding]; other site 399599004997 active site residues [active] 399599004998 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 399599004999 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 399599005000 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 399599005001 Walker A motif; other site 399599005002 ATP binding site [chemical binding]; other site 399599005003 Walker B motif; other site 399599005004 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 399599005005 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 399599005006 Found in ATP-dependent protease La (LON); Region: LON; smart00464 399599005007 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 399599005008 Walker A motif; other site 399599005009 ATP binding site [chemical binding]; other site 399599005010 Walker B motif; other site 399599005011 arginine finger; other site 399599005012 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 399599005013 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 399599005014 IHF dimer interface [polypeptide binding]; other site 399599005015 IHF - DNA interface [nucleotide binding]; other site 399599005016 periplasmic folding chaperone; Provisional; Region: PRK10788 399599005017 SurA N-terminal domain; Region: SurA_N_3; cl07813 399599005018 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 399599005019 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 399599005020 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 399599005021 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 399599005022 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 399599005023 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 399599005024 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 399599005025 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 399599005026 Walker A/P-loop; other site 399599005027 ATP binding site [chemical binding]; other site 399599005028 Q-loop/lid; other site 399599005029 ABC transporter signature motif; other site 399599005030 Walker B; other site 399599005031 D-loop; other site 399599005032 H-loop/switch region; other site 399599005033 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 399599005034 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 399599005035 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 399599005036 Walker A/P-loop; other site 399599005037 ATP binding site [chemical binding]; other site 399599005038 Q-loop/lid; other site 399599005039 ABC transporter signature motif; other site 399599005040 Walker B; other site 399599005041 D-loop; other site 399599005042 H-loop/switch region; other site 399599005043 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 399599005044 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 399599005045 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 399599005046 dimer interface [polypeptide binding]; other site 399599005047 conserved gate region; other site 399599005048 putative PBP binding loops; other site 399599005049 ABC-ATPase subunit interface; other site 399599005050 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 399599005051 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 399599005052 dimer interface [polypeptide binding]; other site 399599005053 conserved gate region; other site 399599005054 putative PBP binding loops; other site 399599005055 ABC-ATPase subunit interface; other site 399599005056 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 399599005057 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 399599005058 peptide binding site [polypeptide binding]; other site 399599005059 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 399599005060 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 399599005061 Walker A motif; other site 399599005062 ATP binding site [chemical binding]; other site 399599005063 Walker B motif; other site 399599005064 arginine finger; other site 399599005065 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399599005066 phage shock protein A; Region: phageshock_pspA; TIGR02977 399599005067 phage shock protein B; Provisional; Region: pspB; PRK09458 399599005068 phage shock protein C; Region: phageshock_pspC; TIGR02978 399599005069 PspC domain; Region: PspC; cl00864 399599005070 YcjX-like family, DUF463; Region: DUF463; pfam04317 399599005071 hypothetical protein; Provisional; Region: PRK05415 399599005072 Domain of unknown function (DUF697); Region: DUF697; pfam05128 399599005073 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 399599005074 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 399599005075 homodimer interface [polypeptide binding]; other site 399599005076 substrate-cofactor binding pocket; other site 399599005077 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599005078 catalytic residue [active] 399599005079 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 399599005080 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 399599005081 Late competence development protein ComFB; Region: ComFB; pfam10719 399599005082 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 399599005083 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 399599005084 putative active site [active] 399599005085 Zn binding site [ion binding]; other site 399599005086 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 399599005087 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 399599005088 hypothetical protein; Provisional; Region: PRK10621 399599005089 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 399599005090 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 399599005091 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 399599005092 Protein of unknown function (DUF570); Region: DUF570; pfam04489 399599005093 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 399599005094 DNA polymerase II; Reviewed; Region: PRK05762 399599005095 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 399599005096 active site 399599005097 catalytic site [active] 399599005098 substrate binding site [chemical binding]; other site 399599005099 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 399599005100 active site 399599005101 metal-binding site 399599005102 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 399599005103 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 399599005104 trimer interface [polypeptide binding]; other site 399599005105 eyelet of channel; other site 399599005106 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 399599005107 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 399599005108 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 399599005109 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 399599005110 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 399599005111 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 399599005112 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 399599005113 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 399599005114 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 399599005115 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 399599005116 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 399599005117 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 399599005118 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 399599005119 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 399599005120 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 399599005121 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 399599005122 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 399599005123 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 399599005124 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 399599005125 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 399599005126 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 399599005127 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 399599005128 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 399599005129 TPR motif; other site 399599005130 binding surface 399599005131 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 399599005132 binding surface 399599005133 TPR motif; other site 399599005134 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 399599005135 TPR motif; other site 399599005136 binding surface 399599005137 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599005138 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599005139 metal binding site [ion binding]; metal-binding site 399599005140 active site 399599005141 I-site; other site 399599005142 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 399599005143 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 399599005144 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 399599005145 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 399599005146 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 399599005147 RNA binding surface [nucleotide binding]; other site 399599005148 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 399599005149 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 399599005150 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599005151 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 399599005152 dimerization interface [polypeptide binding]; other site 399599005153 substrate binding pocket [chemical binding]; other site 399599005154 hypothetical protein; Provisional; Region: PRK10621 399599005155 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 399599005156 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 399599005157 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 399599005158 active site 399599005159 metal binding site [ion binding]; metal-binding site 399599005160 DNA binding site [nucleotide binding] 399599005161 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 399599005162 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 399599005163 AAA domain; Region: AAA_23; pfam13476 399599005164 Walker A/P-loop; other site 399599005165 ATP binding site [chemical binding]; other site 399599005166 Q-loop/lid; other site 399599005167 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 399599005168 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 399599005169 ABC transporter signature motif; other site 399599005170 Walker B; other site 399599005171 D-loop; other site 399599005172 H-loop/switch region; other site 399599005173 putative peptidase; Provisional; Region: PRK11649 399599005174 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 399599005175 Peptidase family M23; Region: Peptidase_M23; pfam01551 399599005176 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 399599005177 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 399599005178 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 399599005179 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 399599005180 ATP binding site [chemical binding]; other site 399599005181 Mg++ binding site [ion binding]; other site 399599005182 motif III; other site 399599005183 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 399599005184 nucleotide binding region [chemical binding]; other site 399599005185 ATP-binding site [chemical binding]; other site 399599005186 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 399599005187 active site 399599005188 nucleophile elbow; other site 399599005189 Prostaglandin dehydrogenases; Region: PGDH; cd05288 399599005190 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 399599005191 NAD(P) binding site [chemical binding]; other site 399599005192 substrate binding site [chemical binding]; other site 399599005193 dimer interface [polypeptide binding]; other site 399599005194 Transcriptional regulators [Transcription]; Region: MarR; COG1846 399599005195 MarR family; Region: MarR; pfam01047 399599005196 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 399599005197 ATP cone domain; Region: ATP-cone; pfam03477 399599005198 Class III ribonucleotide reductase; Region: RNR_III; cd01675 399599005199 effector binding site; other site 399599005200 active site 399599005201 Zn binding site [ion binding]; other site 399599005202 glycine loop; other site 399599005203 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; PRK11121 399599005204 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 399599005205 hypothetical protein; Provisional; Region: PRK11020 399599005206 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 399599005207 dimerization interface [polypeptide binding]; other site 399599005208 active site 399599005209 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 399599005210 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 399599005211 Carbon starvation protein CstA; Region: CstA; pfam02554 399599005212 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 399599005213 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 399599005214 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599005215 active site 399599005216 phosphorylation site [posttranslational modification] 399599005217 intermolecular recognition site; other site 399599005218 dimerization interface [polypeptide binding]; other site 399599005219 LytTr DNA-binding domain; Region: LytTR; pfam04397 399599005220 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 399599005221 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 399599005222 GAF domain; Region: GAF; pfam01590 399599005223 Histidine kinase; Region: His_kinase; pfam06580 399599005224 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599005225 ATP binding site [chemical binding]; other site 399599005226 Mg2+ binding site [ion binding]; other site 399599005227 G-X-G motif; other site 399599005228 Protein of unknown function (DUF2492); Region: DUF2492; pfam10678 399599005229 ParA-like protein; Provisional; Region: PHA02518 399599005230 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 399599005231 P-loop; other site 399599005232 Magnesium ion binding site [ion binding]; other site 399599005233 PilZ domain; Region: PilZ; pfam07238 399599005234 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 399599005235 NnrS protein; Region: NnrS; pfam05940 399599005236 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 399599005237 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 399599005238 ComEC family competence protein; Provisional; Region: PRK11539 399599005239 Competence protein; Region: Competence; pfam03772 399599005240 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 399599005241 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 399599005242 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 399599005243 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 399599005244 Walker A/P-loop; other site 399599005245 ATP binding site [chemical binding]; other site 399599005246 Q-loop/lid; other site 399599005247 ABC transporter signature motif; other site 399599005248 Walker B; other site 399599005249 D-loop; other site 399599005250 H-loop/switch region; other site 399599005251 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 399599005252 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 399599005253 Uncharacterized conserved protein [Function unknown]; Region: COG2835 399599005254 Predicted membrane protein [Function unknown]; Region: COG3235 399599005255 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 399599005256 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 399599005257 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 399599005258 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 399599005259 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 399599005260 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 399599005261 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 399599005262 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399599005263 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 399599005264 cytidine deaminase; Provisional; Region: PRK09027 399599005265 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 399599005266 active site 399599005267 catalytic motif [active] 399599005268 Zn binding site [ion binding]; other site 399599005269 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 399599005270 exonuclease I; Provisional; Region: sbcB; PRK11779 399599005271 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 399599005272 active site 399599005273 catalytic site [active] 399599005274 substrate binding site [chemical binding]; other site 399599005275 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 399599005276 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 399599005277 integron integrase; Region: integrase_gron; TIGR02249 399599005278 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 399599005279 Int/Topo IB signature motif; other site 399599005280 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 399599005281 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 399599005282 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 399599005283 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 399599005284 active site 399599005285 DNA binding site [nucleotide binding] 399599005286 Int/Topo IB signature motif; other site 399599005287 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 399599005288 Putative transposase; Region: Y2_Tnp; pfam04986 399599005289 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 399599005290 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599005291 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599005292 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_3; cd08461 399599005293 putative substrate binding pocket [chemical binding]; other site 399599005294 putative dimerization interface [polypeptide binding]; other site 399599005295 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 399599005296 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 399599005297 putative NAD(P) binding site [chemical binding]; other site 399599005298 homodimer interface [polypeptide binding]; other site 399599005299 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 399599005300 putative transposase OrfB; Reviewed; Region: PHA02517 399599005301 HTH-like domain; Region: HTH_21; pfam13276 399599005302 Integrase core domain; Region: rve; pfam00665 399599005303 Integrase core domain; Region: rve_2; pfam13333 399599005304 Transposase; Region: HTH_Tnp_1; pfam01527 399599005305 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599005306 Protein of unknown function (DUF4019); Region: DUF4019; pfam13211 399599005307 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 399599005308 Peptidase family M23; Region: Peptidase_M23; pfam01551 399599005309 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 399599005310 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 399599005311 S-adenosylmethionine binding site [chemical binding]; other site 399599005312 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 399599005313 DNA-binding site [nucleotide binding]; DNA binding site 399599005314 RNA-binding motif; other site 399599005315 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 399599005316 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 399599005317 Sulfate transporter family; Region: Sulfate_transp; pfam00916 399599005318 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 399599005319 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 399599005320 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 399599005321 homodimer interface [polypeptide binding]; other site 399599005322 oligonucleotide binding site [chemical binding]; other site 399599005323 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 399599005324 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 399599005325 RNA binding surface [nucleotide binding]; other site 399599005326 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 399599005327 active site 399599005328 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 399599005329 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 399599005330 motif II; other site 399599005331 Maf-like protein; Region: Maf; pfam02545 399599005332 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 399599005333 active site 399599005334 dimer interface [polypeptide binding]; other site 399599005335 hypothetical protein; Provisional; Region: PRK11193 399599005336 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 399599005337 putative phosphate acyltransferase; Provisional; Region: PRK05331 399599005338 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 399599005339 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 399599005340 dimer interface [polypeptide binding]; other site 399599005341 active site 399599005342 CoA binding pocket [chemical binding]; other site 399599005343 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 399599005344 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 399599005345 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 399599005346 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 399599005347 NAD(P) binding site [chemical binding]; other site 399599005348 homotetramer interface [polypeptide binding]; other site 399599005349 homodimer interface [polypeptide binding]; other site 399599005350 active site 399599005351 acyl carrier protein; Provisional; Region: acpP; PRK00982 399599005352 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 399599005353 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 399599005354 dimer interface [polypeptide binding]; other site 399599005355 active site 399599005356 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 399599005357 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 399599005358 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 399599005359 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 399599005360 active site 399599005361 phosphate binding residues; other site 399599005362 catalytic residues [active] 399599005363 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 399599005364 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 399599005365 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399599005366 active site 399599005367 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 399599005368 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 399599005369 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 399599005370 N-terminal plug; other site 399599005371 ligand-binding site [chemical binding]; other site 399599005372 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 399599005373 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 399599005374 active site 399599005375 nucleophile elbow; other site 399599005376 asparagine synthetase B; Provisional; Region: asnB; PRK09431 399599005377 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 399599005378 active site 399599005379 dimer interface [polypeptide binding]; other site 399599005380 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 399599005381 Ligand Binding Site [chemical binding]; other site 399599005382 Molecular Tunnel; other site 399599005383 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 399599005384 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 399599005385 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 399599005386 PA/protease or protease-like domain interface [polypeptide binding]; other site 399599005387 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 399599005388 metal binding site [ion binding]; metal-binding site 399599005389 UMP phosphatase; Provisional; Region: PRK10444 399599005390 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 399599005391 active site 399599005392 motif I; other site 399599005393 motif II; other site 399599005394 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 399599005395 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 399599005396 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 399599005397 active site 399599005398 substrate binding site [chemical binding]; other site 399599005399 cosubstrate binding site; other site 399599005400 catalytic site [active] 399599005401 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 399599005402 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 399599005403 dimerization interface [polypeptide binding]; other site 399599005404 putative ATP binding site [chemical binding]; other site 399599005405 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 399599005406 active site 399599005407 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599005408 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599005409 metal binding site [ion binding]; metal-binding site 399599005410 active site 399599005411 I-site; other site 399599005412 Predicted permease [General function prediction only]; Region: COG2056 399599005413 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 399599005414 peroxidase; Provisional; Region: PRK15000 399599005415 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 399599005416 dimer interface [polypeptide binding]; other site 399599005417 decamer (pentamer of dimers) interface [polypeptide binding]; other site 399599005418 catalytic triad [active] 399599005419 peroxidatic and resolving cysteines [active] 399599005420 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 399599005421 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 399599005422 dimer interface [polypeptide binding]; other site 399599005423 catalytic site [active] 399599005424 putative active site [active] 399599005425 putative substrate binding site [chemical binding]; other site 399599005426 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 399599005427 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399599005428 ligand binding site [chemical binding]; other site 399599005429 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 399599005430 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399599005431 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 399599005432 active site 399599005433 TolQ protein; Region: tolQ; TIGR02796 399599005434 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 399599005435 TolR protein; Region: tolR; TIGR02801 399599005436 TolA protein; Region: tolA_full; TIGR02794 399599005437 TolA protein; Region: tolA_full; TIGR02794 399599005438 TolA C-terminal; Region: TolA; pfam06519 399599005439 translocation protein TolB; Provisional; Region: tolB; PRK04792 399599005440 TolB amino-terminal domain; Region: TolB_N; pfam04052 399599005441 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 399599005442 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 399599005443 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 399599005444 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 399599005445 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399599005446 ligand binding site [chemical binding]; other site 399599005447 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 399599005448 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 399599005449 binding surface 399599005450 TPR motif; other site 399599005451 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 399599005452 GSH binding site [chemical binding]; other site 399599005453 catalytic residues [active] 399599005454 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 399599005455 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 399599005456 ATP binding site [chemical binding]; other site 399599005457 putative Mg++ binding site [ion binding]; other site 399599005458 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 399599005459 nucleotide binding region [chemical binding]; other site 399599005460 ATP-binding site [chemical binding]; other site 399599005461 acetyl-CoA synthetase; Provisional; Region: PRK00174 399599005462 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 399599005463 active site 399599005464 CoA binding site [chemical binding]; other site 399599005465 acyl-activating enzyme (AAE) consensus motif; other site 399599005466 AMP binding site [chemical binding]; other site 399599005467 acetate binding site [chemical binding]; other site 399599005468 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 399599005469 Na binding site [ion binding]; other site 399599005470 PAS domain; Region: PAS; smart00091 399599005471 PAS fold; Region: PAS_7; pfam12860 399599005472 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399599005473 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 399599005474 dimer interface [polypeptide binding]; other site 399599005475 phosphorylation site [posttranslational modification] 399599005476 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599005477 ATP binding site [chemical binding]; other site 399599005478 Mg2+ binding site [ion binding]; other site 399599005479 G-X-G motif; other site 399599005480 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399599005481 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599005482 active site 399599005483 phosphorylation site [posttranslational modification] 399599005484 intermolecular recognition site; other site 399599005485 dimerization interface [polypeptide binding]; other site 399599005486 Cache domain; Region: Cache_2; pfam08269 399599005487 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 399599005488 dimerization interface [polypeptide binding]; other site 399599005489 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599005490 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599005491 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599005492 dimer interface [polypeptide binding]; other site 399599005493 putative CheW interface [polypeptide binding]; other site 399599005494 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 399599005495 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 399599005496 inhibitor-cofactor binding pocket; inhibition site 399599005497 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599005498 catalytic residue [active] 399599005499 biotin synthase; Provisional; Region: PRK15108 399599005500 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 399599005501 FeS/SAM binding site; other site 399599005502 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 399599005503 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 399599005504 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 399599005505 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 399599005506 catalytic residue [active] 399599005507 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 399599005508 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 399599005509 S-adenosylmethionine binding site [chemical binding]; other site 399599005510 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 399599005511 AAA domain; Region: AAA_26; pfam13500 399599005512 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 399599005513 IHF - DNA interface [nucleotide binding]; other site 399599005514 IHF dimer interface [polypeptide binding]; other site 399599005515 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 399599005516 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599005517 Walker A/P-loop; other site 399599005518 ATP binding site [chemical binding]; other site 399599005519 Q-loop/lid; other site 399599005520 ABC transporter signature motif; other site 399599005521 Walker B; other site 399599005522 D-loop; other site 399599005523 H-loop/switch region; other site 399599005524 hypothetical protein; Provisional; Region: PRK11239 399599005525 Protein of unknown function, DUF480; Region: DUF480; pfam04337 399599005526 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 399599005527 S1 domain; Region: S1_2; pfam13509 399599005528 arginine decarboxylase; Provisional; Region: PRK05354 399599005529 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 399599005530 dimer interface [polypeptide binding]; other site 399599005531 active site 399599005532 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 399599005533 catalytic residues [active] 399599005534 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 399599005535 Adenosylmethionine decarboxylase; Region: SAM_decarbox; cl03253 399599005536 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 399599005537 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 399599005538 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 399599005539 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 399599005540 YceI-like domain; Region: YceI; pfam04264 399599005541 Protein of unknown function (DUF3802); Region: DUF3802; pfam12290 399599005542 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 399599005543 Cache domain; Region: Cache_1; pfam02743 399599005544 PAS fold; Region: PAS_4; pfam08448 399599005545 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399599005546 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 399599005547 Mg2+ binding site [ion binding]; other site 399599005548 G-X-G motif; other site 399599005549 disulfide bond formation protein B; Provisional; Region: PRK01749 399599005550 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 399599005551 fatty acid metabolism regulator; Provisional; Region: PRK04984 399599005552 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399599005553 DNA-binding site [nucleotide binding]; DNA binding site 399599005554 FadR C-terminal domain; Region: FadR_C; pfam07840 399599005555 SpoVR family protein; Provisional; Region: PRK11767 399599005556 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 399599005557 hypothetical protein; Provisional; Region: PRK05325 399599005558 PrkA family serine protein kinase; Provisional; Region: PRK15455 399599005559 AAA ATPase domain; Region: AAA_16; pfam13191 399599005560 Walker A motif; other site 399599005561 ATP binding site [chemical binding]; other site 399599005562 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 399599005563 superoxide dismutase; Provisional; Region: PRK10543 399599005564 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 399599005565 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 399599005566 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 399599005567 putative GSH binding site [chemical binding]; other site 399599005568 catalytic residues [active] 399599005569 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 399599005570 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3249 399599005571 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 399599005572 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 399599005573 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 399599005574 Walker A motif; other site 399599005575 ATP binding site [chemical binding]; other site 399599005576 Walker B motif; other site 399599005577 arginine finger; other site 399599005578 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 399599005579 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 399599005580 ArsC family; Region: ArsC; pfam03960 399599005581 catalytic residues [active] 399599005582 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 399599005583 Peptidase family M48; Region: Peptidase_M48; cl12018 399599005584 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 399599005585 binding surface 399599005586 TPR motif; other site 399599005587 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 399599005588 CPxP motif; other site 399599005589 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 399599005590 Domain of unknown function DUF20; Region: UPF0118; pfam01594 399599005591 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 399599005592 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 399599005593 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 399599005594 DNA binding residues [nucleotide binding] 399599005595 dimerization interface [polypeptide binding]; other site 399599005596 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 399599005597 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 399599005598 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 399599005599 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 399599005600 nucleotide binding site/active site [active] 399599005601 HIT family signature motif; other site 399599005602 catalytic residue [active] 399599005603 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 399599005604 CoenzymeA binding site [chemical binding]; other site 399599005605 subunit interaction site [polypeptide binding]; other site 399599005606 PHB binding site; other site 399599005607 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 399599005608 CoenzymeA binding site [chemical binding]; other site 399599005609 subunit interaction site [polypeptide binding]; other site 399599005610 PHB binding site; other site 399599005611 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 399599005612 putative dimer interface [polypeptide binding]; other site 399599005613 purine nucleoside phosphorylase; Provisional; Region: PRK13374 399599005614 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 399599005615 putative transporter; Provisional; Region: PRK03699 399599005616 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 399599005617 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 399599005618 ligand binding site [chemical binding]; other site 399599005619 flexible hinge region; other site 399599005620 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 399599005621 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 399599005622 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 399599005623 N-terminal plug; other site 399599005624 ligand-binding site [chemical binding]; other site 399599005625 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 399599005626 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 399599005627 Phosphotransferase enzyme family; Region: APH; pfam01636 399599005628 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 399599005629 substrate binding site [chemical binding]; other site 399599005630 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 399599005631 DoxX; Region: DoxX; pfam07681 399599005632 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 399599005633 putative FMN binding site [chemical binding]; other site 399599005634 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 399599005635 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 399599005636 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 399599005637 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 399599005638 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 399599005639 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 399599005640 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 399599005641 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599005642 Coenzyme A binding pocket [chemical binding]; other site 399599005643 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 399599005644 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399599005645 substrate binding pocket [chemical binding]; other site 399599005646 membrane-bound complex binding site; other site 399599005647 hinge residues; other site 399599005648 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 399599005649 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 399599005650 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 399599005651 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 399599005652 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 399599005653 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 399599005654 generic binding surface II; other site 399599005655 generic binding surface I; other site 399599005656 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 399599005657 putative catalytic site [active] 399599005658 putative metal binding site [ion binding]; other site 399599005659 putative phosphate binding site [ion binding]; other site 399599005660 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 399599005661 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 399599005662 active site 399599005663 substrate binding sites [chemical binding]; other site 399599005664 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 399599005665 SnoaL-like domain; Region: SnoaL_2; pfam12680 399599005666 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 399599005667 HSP70 interaction site [polypeptide binding]; other site 399599005668 exopolyphosphatase; Region: exo_poly_only; TIGR03706 399599005669 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 399599005670 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 399599005671 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 399599005672 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 399599005673 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 399599005674 domain interface [polypeptide binding]; other site 399599005675 active site 399599005676 catalytic site [active] 399599005677 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 399599005678 domain interface [polypeptide binding]; other site 399599005679 active site 399599005680 catalytic site [active] 399599005681 putative chaperone; Provisional; Region: PRK11678 399599005682 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 399599005683 nucleotide binding site [chemical binding]; other site 399599005684 putative NEF/HSP70 interaction site [polypeptide binding]; other site 399599005685 SBD interface [polypeptide binding]; other site 399599005686 Uncharacterized protein conserved in bacteria [Function unknown]; Region: CreA; COG3045 399599005687 CreA protein; Region: CreA; pfam05981 399599005688 cystathionine beta-lyase; Provisional; Region: PRK09028 399599005689 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 399599005690 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 399599005691 catalytic residue [active] 399599005692 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 399599005693 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 399599005694 putative ligand binding site [chemical binding]; other site 399599005695 HAMP domain; Region: HAMP; pfam00672 399599005696 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 399599005697 dimer interface [polypeptide binding]; other site 399599005698 phosphorylation site [posttranslational modification] 399599005699 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599005700 ATP binding site [chemical binding]; other site 399599005701 Mg2+ binding site [ion binding]; other site 399599005702 G-X-G motif; other site 399599005703 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 399599005704 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599005705 active site 399599005706 phosphorylation site [posttranslational modification] 399599005707 intermolecular recognition site; other site 399599005708 dimerization interface [polypeptide binding]; other site 399599005709 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 399599005710 DNA binding site [nucleotide binding] 399599005711 proteobacterial sortase system OmpA family protein; Region: pdsO; TIGR03789 399599005712 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399599005713 ligand binding site [chemical binding]; other site 399599005714 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 399599005715 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 399599005716 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 399599005717 metal ion-dependent adhesion site (MIDAS); other site 399599005718 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 399599005719 active site 399599005720 catalytic site [active] 399599005721 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599005722 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599005723 metal binding site [ion binding]; metal-binding site 399599005724 active site 399599005725 I-site; other site 399599005726 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 399599005727 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 399599005728 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 399599005729 PA/protease or protease-like domain interface [polypeptide binding]; other site 399599005730 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 399599005731 metal binding site [ion binding]; metal-binding site 399599005732 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 399599005733 ATP-grasp domain; Region: ATP-grasp_4; cl17255 399599005734 hypothetical protein; Provisional; Region: PRK11027 399599005735 transcriptional regulator HdfR; Provisional; Region: PRK03601 399599005736 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599005737 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 399599005738 dimerization interface [polypeptide binding]; other site 399599005739 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 399599005740 DNA ligase; Provisional; Region: PRK09125 399599005741 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 399599005742 DNA binding site [nucleotide binding] 399599005743 active site 399599005744 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 399599005745 DNA binding site [nucleotide binding] 399599005746 Uncharacterized conserved protein [Function unknown]; Region: COG4748 399599005747 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 399599005748 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 399599005749 Low molecular weight phosphatase family; Region: LMWPc; cd00115 399599005750 active site 399599005751 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 399599005752 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 399599005753 GTP/Mg2+ binding site [chemical binding]; other site 399599005754 G4 box; other site 399599005755 G5 box; other site 399599005756 G1 box; other site 399599005757 Switch I region; other site 399599005758 G2 box; other site 399599005759 G3 box; other site 399599005760 Switch II region; other site 399599005761 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 399599005762 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 399599005763 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 399599005764 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 399599005765 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 399599005766 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 399599005767 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 399599005768 dimer interface [polypeptide binding]; other site 399599005769 active site 399599005770 Schiff base residues; other site 399599005771 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 399599005772 Glycoprotease family; Region: Peptidase_M22; pfam00814 399599005773 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 399599005774 Predicted methyltransferase [General function prediction only]; Region: COG4798 399599005775 Methyltransferase domain; Region: Methyltransf_23; pfam13489 399599005776 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 399599005777 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 399599005778 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 399599005779 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 399599005780 acyl-activating enzyme (AAE) consensus motif; other site 399599005781 putative AMP binding site [chemical binding]; other site 399599005782 putative active site [active] 399599005783 putative CoA binding site [chemical binding]; other site 399599005784 ribonuclease D; Provisional; Region: PRK10829 399599005785 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 399599005786 catalytic site [active] 399599005787 putative active site [active] 399599005788 putative substrate binding site [chemical binding]; other site 399599005789 HRDC domain; Region: HRDC; pfam00570 399599005790 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 399599005791 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 399599005792 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 399599005793 Switch I; other site 399599005794 Switch II; other site 399599005795 septum formation inhibitor; Reviewed; Region: minC; PRK04804 399599005796 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 399599005797 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 399599005798 YcgL domain; Region: YcgL; pfam05166 399599005799 Transglycosylase SLT domain; Region: SLT_2; pfam13406 399599005800 murein hydrolase B; Provisional; Region: PRK10760; cl17906 399599005801 hypothetical protein; Provisional; Region: PRK05170 399599005802 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599005803 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599005804 dimer interface [polypeptide binding]; other site 399599005805 putative CheW interface [polypeptide binding]; other site 399599005806 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 399599005807 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 399599005808 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 399599005809 dimer interface [polypeptide binding]; other site 399599005810 motif 1; other site 399599005811 active site 399599005812 motif 2; other site 399599005813 motif 3; other site 399599005814 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 399599005815 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 399599005816 putative tRNA-binding site [nucleotide binding]; other site 399599005817 B3/4 domain; Region: B3_4; pfam03483 399599005818 tRNA synthetase B5 domain; Region: B5; smart00874 399599005819 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 399599005820 dimer interface [polypeptide binding]; other site 399599005821 motif 1; other site 399599005822 motif 3; other site 399599005823 motif 2; other site 399599005824 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 399599005825 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 399599005826 IHF dimer interface [polypeptide binding]; other site 399599005827 IHF - DNA interface [nucleotide binding]; other site 399599005828 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 399599005829 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 399599005830 putative acyl-acceptor binding pocket; other site 399599005831 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 399599005832 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 399599005833 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 399599005834 dimerization interface [polypeptide binding]; other site 399599005835 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 399599005836 ATP binding site [chemical binding]; other site 399599005837 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 399599005838 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 399599005839 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 399599005840 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 399599005841 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 399599005842 Acylphosphatase; Region: Acylphosphatase; pfam00708 399599005843 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 399599005844 HypF finger; Region: zf-HYPF; pfam07503 399599005845 HypF finger; Region: zf-HYPF; pfam07503 399599005846 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 399599005847 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 399599005848 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 399599005849 putative substrate-binding site; other site 399599005850 nickel binding site [ion binding]; other site 399599005851 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 399599005852 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 399599005853 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 399599005854 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 399599005855 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 399599005856 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 399599005857 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 399599005858 catalytic residues [active] 399599005859 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 399599005860 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 399599005861 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 399599005862 ApbE family; Region: ApbE; pfam02424 399599005863 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 399599005864 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599005865 active site 399599005866 phosphorylation site [posttranslational modification] 399599005867 intermolecular recognition site; other site 399599005868 dimerization interface [polypeptide binding]; other site 399599005869 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 399599005870 DNA binding site [nucleotide binding] 399599005871 sensor protein QseC; Provisional; Region: PRK10337 399599005872 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 399599005873 dimer interface [polypeptide binding]; other site 399599005874 phosphorylation site [posttranslational modification] 399599005875 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599005876 ATP binding site [chemical binding]; other site 399599005877 Mg2+ binding site [ion binding]; other site 399599005878 G-X-G motif; other site 399599005879 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 399599005880 Periplasmic glucan biosynthesis protein, MdoG; Region: MdoG; cl15433 399599005881 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 399599005882 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 399599005883 Ligand binding site; other site 399599005884 DXD motif; other site 399599005885 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 399599005886 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 399599005887 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 399599005888 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 399599005889 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 399599005890 Bacterial protein of unknown function (DUF882); Region: Peptidase_M15_2; pfam05951 399599005891 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 399599005892 5S rRNA interface [nucleotide binding]; other site 399599005893 CTC domain interface [polypeptide binding]; other site 399599005894 L16 interface [polypeptide binding]; other site 399599005895 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 399599005896 Family of unknown function (DUF490); Region: DUF490; pfam04357 399599005897 Family of unknown function (DUF490); Region: DUF490; pfam04357 399599005898 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 399599005899 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 399599005900 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 399599005901 Surface antigen; Region: Bac_surface_Ag; pfam01103 399599005902 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 399599005903 catalytic nucleophile [active] 399599005904 Predicted membrane protein [Function unknown]; Region: COG4325 399599005905 Predicted membrane protein (DUF2254); Region: DUF2254; pfam10011 399599005906 FOG: CBS domain [General function prediction only]; Region: COG0517 399599005907 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 399599005908 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 399599005909 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 399599005910 ATP binding site [chemical binding]; other site 399599005911 putative Mg++ binding site [ion binding]; other site 399599005912 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 399599005913 nucleotide binding region [chemical binding]; other site 399599005914 ATP-binding site [chemical binding]; other site 399599005915 Helicase associated domain (HA2); Region: HA2; pfam04408 399599005916 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 399599005917 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 399599005918 Periplasmic nitrate reductase protein NapE; Region: NapE; cl01848 399599005919 NapD protein; Region: NapD; pfam03927 399599005920 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 399599005921 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 399599005922 [4Fe-4S] binding site [ion binding]; other site 399599005923 molybdopterin cofactor binding site; other site 399599005924 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 399599005925 molybdopterin cofactor binding site; other site 399599005926 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 399599005927 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 399599005928 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 399599005929 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 399599005930 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 399599005931 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 399599005932 putative dimer interface [polypeptide binding]; other site 399599005933 putative anticodon binding site; other site 399599005934 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 399599005935 homodimer interface [polypeptide binding]; other site 399599005936 motif 1; other site 399599005937 motif 2; other site 399599005938 active site 399599005939 motif 3; other site 399599005940 Protein of unknown function (DUF1640); Region: DUF1640; pfam07798 399599005941 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 399599005942 putative active site [active] 399599005943 putative CoA binding site [chemical binding]; other site 399599005944 nudix motif; other site 399599005945 metal binding site [ion binding]; metal-binding site 399599005946 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 399599005947 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 399599005948 chorismate binding enzyme; Region: Chorismate_bind; cl10555 399599005949 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 399599005950 Fumarase C-terminus; Region: Fumerase_C; pfam05683 399599005951 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 399599005952 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399599005953 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 399599005954 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599005955 Coenzyme A binding pocket [chemical binding]; other site 399599005956 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 399599005957 putative active site [active] 399599005958 Zn binding site [ion binding]; other site 399599005959 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 399599005960 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 399599005961 putative catalytic cysteine [active] 399599005962 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 399599005963 putative active site [active] 399599005964 metal binding site [ion binding]; metal-binding site 399599005965 hypothetical protein; Provisional; Region: PRK11111 399599005966 Nitrate and nitrite sensing; Region: NIT; pfam08376 399599005967 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 399599005968 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 399599005969 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599005970 dimer interface [polypeptide binding]; other site 399599005971 putative CheW interface [polypeptide binding]; other site 399599005972 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 399599005973 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 399599005974 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 399599005975 active site 399599005976 DNA binding site [nucleotide binding] 399599005977 Int/Topo IB signature motif; other site 399599005978 Putative excisionase (DUF1233); Region: DUF1233; pfam06806 399599005979 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 399599005980 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 399599005981 cofactor binding site; other site 399599005982 DNA binding site [nucleotide binding] 399599005983 substrate interaction site [chemical binding]; other site 399599005984 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 399599005985 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 399599005986 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 399599005987 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 399599005988 non-specific DNA binding site [nucleotide binding]; other site 399599005989 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 399599005990 salt bridge; other site 399599005991 sequence-specific DNA binding site [nucleotide binding]; other site 399599005992 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 399599005993 Catalytic site [active] 399599005994 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 399599005995 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 399599005996 non-specific DNA binding site [nucleotide binding]; other site 399599005997 salt bridge; other site 399599005998 sequence-specific DNA binding site [nucleotide binding]; other site 399599005999 Helix-turn-helix domain; Region: HTH_36; pfam13730 399599006000 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 399599006001 Replication protein P; Region: Phage_lambda_P; pfam06992 399599006002 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 399599006003 active site 399599006004 DNA binding site [nucleotide binding] 399599006005 Int/Topo IB signature motif; other site 399599006006 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 399599006007 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 399599006008 non-specific DNA binding site [nucleotide binding]; other site 399599006009 salt bridge; other site 399599006010 sequence-specific DNA binding site [nucleotide binding]; other site 399599006011 HNH endonuclease; Region: HNH_2; pfam13391 399599006012 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 399599006013 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599006014 ATP binding site [chemical binding]; other site 399599006015 Mg2+ binding site [ion binding]; other site 399599006016 G-X-G motif; other site 399599006017 AAA domain; Region: AAA_13; pfam13166 399599006018 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 399599006019 ATP binding site [chemical binding]; other site 399599006020 putative Mg++ binding site [ion binding]; other site 399599006021 helicase superfamily c-terminal domain; Region: HELICc; smart00490 399599006022 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 399599006023 Catalytic site [active] 399599006024 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 399599006025 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 399599006026 active site 399599006027 Protein of unknown function (DUF1044); Region: DUF1044; cl01955 399599006028 non-specific DNA binding site [nucleotide binding]; other site 399599006029 salt bridge; other site 399599006030 sequence-specific DNA binding site [nucleotide binding]; other site 399599006031 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 399599006032 bifunctional antitoxin/transcriptional repressor RelB; Provisional; Region: PRK11235 399599006033 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 399599006034 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 399599006035 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 399599006036 trimer interface [polypeptide binding]; other site 399599006037 active site 399599006038 substrate binding site [chemical binding]; other site 399599006039 CoA binding site [chemical binding]; other site 399599006040 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399599006041 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 399599006042 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 399599006043 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 399599006044 active site 399599006045 DNA binding site [nucleotide binding] 399599006046 Int/Topo IB signature motif; other site 399599006047 Putative excisionase (DUF1233); Region: DUF1233; pfam06806 399599006048 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 399599006049 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 399599006050 cofactor binding site; other site 399599006051 DNA binding site [nucleotide binding] 399599006052 substrate interaction site [chemical binding]; other site 399599006053 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 399599006054 Ead/Ea22-like protein; Region: Ead_Ea22; pfam13935 399599006055 Protein of unknown function (DUF1317); Region: DUF1317; pfam07026 399599006056 Pyocin activator protein PrtN; Region: PyocinActivator; pfam11112 399599006057 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 399599006058 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 399599006059 Int/Topo IB signature motif; other site 399599006060 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 399599006061 Putative transposase; Region: Y2_Tnp; pfam04986 399599006062 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 399599006063 active site 399599006064 NTP binding site [chemical binding]; other site 399599006065 metal binding triad [ion binding]; metal-binding site 399599006066 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 399599006067 non-specific DNA binding site [nucleotide binding]; other site 399599006068 salt bridge; other site 399599006069 Predicted transcriptional regulator [Transcription]; Region: COG2932 399599006070 sequence-specific DNA binding site [nucleotide binding]; other site 399599006071 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 399599006072 Catalytic site [active] 399599006073 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 399599006074 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 399599006075 Helix-turn-helix domain; Region: HTH_36; pfam13730 399599006076 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 399599006077 Replication protein P; Region: Phage_lambda_P; pfam06992 399599006078 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 399599006079 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 399599006080 active site 399599006081 DNA binding site [nucleotide binding] 399599006082 Int/Topo IB signature motif; other site 399599006083 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 399599006084 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 399599006085 non-specific DNA binding site [nucleotide binding]; other site 399599006086 salt bridge; other site 399599006087 sequence-specific DNA binding site [nucleotide binding]; other site 399599006088 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 399599006089 Family description; Region: VCBS; pfam13517 399599006090 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 399599006091 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 399599006092 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 399599006093 WYL domain; Region: WYL; pfam13280 399599006094 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 399599006095 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 399599006096 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 399599006097 Sel1-like repeats; Region: SEL1; smart00671 399599006098 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 399599006099 Catalytic site [active] 399599006100 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 399599006101 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 399599006102 active site 399599006103 DNA binding site [nucleotide binding] 399599006104 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 399599006105 ATP phosphoribosyltransferase; Region: HisG; cl15266 399599006106 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 399599006107 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 399599006108 HAD superfamily, subfamily IIIB (Acid phosphatase); Region: Acid_phosphat_B; cl17236 399599006109 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 399599006110 EamA-like transporter family; Region: EamA; pfam00892 399599006111 isoaspartyl dipeptidase; Provisional; Region: PRK10657 399599006112 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 399599006113 active site 399599006114 hypothetical protein; Provisional; Region: PRK11588 399599006115 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 399599006116 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 399599006117 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 399599006118 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 399599006119 ligand-binding site [chemical binding]; other site 399599006120 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 399599006121 proposed catalytic triad [active] 399599006122 active site nucleophile [active] 399599006123 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 399599006124 substrate binding site [chemical binding]; other site 399599006125 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 399599006126 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 399599006127 ATP binding site [chemical binding]; other site 399599006128 Mg++ binding site [ion binding]; other site 399599006129 motif III; other site 399599006130 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 399599006131 nucleotide binding region [chemical binding]; other site 399599006132 ATP-binding site [chemical binding]; other site 399599006133 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 399599006134 ribonuclease activity regulator protein RraA; Reviewed; Region: PRK12487 399599006135 AsmA family; Region: AsmA; pfam05170 399599006136 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 399599006137 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 399599006138 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 399599006139 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 399599006140 N-acetyl-D-glucosamine binding site [chemical binding]; other site 399599006141 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 399599006142 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 399599006143 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 399599006144 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 399599006145 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 399599006146 Methyltransferase domain; Region: Methyltransf_11; pfam08241 399599006147 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 399599006148 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599006149 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 399599006150 putative dimerization interface [polypeptide binding]; other site 399599006151 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 399599006152 RNA/DNA hybrid binding site [nucleotide binding]; other site 399599006153 active site 399599006154 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 399599006155 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 399599006156 active site 399599006157 catalytic site [active] 399599006158 substrate binding site [chemical binding]; other site 399599006159 TIGR03503 family protein; Region: TIGR03503 399599006160 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 399599006161 TrkA-N domain; Region: TrkA_N; pfam02254 399599006162 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 399599006163 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 399599006164 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 399599006165 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 399599006166 active site 399599006167 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 399599006168 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 399599006169 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 399599006170 putative active site [active] 399599006171 putative dimer interface [polypeptide binding]; other site 399599006172 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 399599006173 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 399599006174 active site 399599006175 DNA binding site [nucleotide binding] 399599006176 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 399599006177 active site 399599006178 catalytic residues [active] 399599006179 metal binding site [ion binding]; metal-binding site 399599006180 rhombotail lipoprotein; Region: rhombo_lipo; TIGR04179 399599006181 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 399599006182 glycine betaine transporter periplasmic subunit; Provisional; Region: proX; PRK11119 399599006183 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 399599006184 glycine betaine transporter membrane protein; Provisional; Region: PRK10952 399599006185 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 399599006186 dimer interface [polypeptide binding]; other site 399599006187 conserved gate region; other site 399599006188 ABC-ATPase subunit interface; other site 399599006189 ABC-type proline/glycine betaine transport system, ATPase component [Amino acid transport and metabolism]; Region: ProV; COG4175 399599006190 ATP-binding cassette domain of the osmoprotectant proline/glycine betaine uptake system; Region: ABC_Pro_Gly_Betaine; cd03294 399599006191 Walker A/P-loop; other site 399599006192 ATP binding site [chemical binding]; other site 399599006193 Q-loop/lid; other site 399599006194 ABC transporter signature motif; other site 399599006195 Walker B; other site 399599006196 D-loop; other site 399599006197 H-loop/switch region; other site 399599006198 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 399599006199 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 399599006200 phosphate binding site [ion binding]; other site 399599006201 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 399599006202 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_1; cd08352 399599006203 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399599006204 putative metal binding site [ion binding]; other site 399599006205 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 399599006206 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 399599006207 active site 399599006208 catalytic site [active] 399599006209 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 399599006210 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 399599006211 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 399599006212 Ca binding site [ion binding]; other site 399599006213 active site 399599006214 homodimer interface [polypeptide binding]; other site 399599006215 catalytic site [active] 399599006216 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 399599006217 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 399599006218 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 399599006219 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 399599006220 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 399599006221 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 399599006222 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 399599006223 active site 399599006224 catalytic site [active] 399599006225 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 399599006226 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599006227 putative substrate translocation pore; other site 399599006228 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 399599006229 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 399599006230 S-adenosylmethionine binding site [chemical binding]; other site 399599006231 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 399599006232 GAF domain; Region: GAF; pfam01590 399599006233 PAS domain; Region: PAS_9; pfam13426 399599006234 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599006235 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599006236 metal binding site [ion binding]; metal-binding site 399599006237 active site 399599006238 I-site; other site 399599006239 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 399599006240 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 399599006241 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 399599006242 ATP-grasp domain; Region: ATP-grasp_4; cl17255 399599006243 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599006244 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599006245 metal binding site [ion binding]; metal-binding site 399599006246 active site 399599006247 I-site; other site 399599006248 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 399599006249 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599006250 Coenzyme A binding pocket [chemical binding]; other site 399599006251 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 399599006252 AAA domain; Region: AAA_30; pfam13604 399599006253 Family description; Region: UvrD_C_2; pfam13538 399599006254 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 399599006255 Part of AAA domain; Region: AAA_19; pfam13245 399599006256 Family description; Region: UvrD_C_2; pfam13538 399599006257 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 399599006258 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 399599006259 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 399599006260 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 399599006261 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 399599006262 Domain of unknown function (DUF4129); Region: DUF4129; pfam13559 399599006263 Protein of unknown function DUF58; Region: DUF58; pfam01882 399599006264 MoxR-like ATPases [General function prediction only]; Region: COG0714 399599006265 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 399599006266 Walker A motif; other site 399599006267 ATP binding site [chemical binding]; other site 399599006268 Walker B motif; other site 399599006269 arginine finger; other site 399599006270 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 399599006271 lytic murein transglycosylase; Provisional; Region: PRK11619 399599006272 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 399599006273 N-acetyl-D-glucosamine binding site [chemical binding]; other site 399599006274 catalytic residue [active] 399599006275 Predicted nuclease of restriction endonuclease-like fold, RmuC family [General function prediction only]; Region: COG1322 399599006276 Leucine-rich repeats of kinetochore protein Cenp-F/LEK1; Region: Cenp-F_leu_zip; pfam10473 399599006277 RmuC family; Region: RmuC; pfam02646 399599006278 TMAO/DMSO reductase; Reviewed; Region: PRK05363 399599006279 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 399599006280 Moco binding site; other site 399599006281 metal coordination site [ion binding]; other site 399599006282 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 399599006283 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399599006284 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 399599006285 dimer interface [polypeptide binding]; other site 399599006286 active site 399599006287 metal binding site [ion binding]; metal-binding site 399599006288 glutathione binding site [chemical binding]; other site 399599006289 endonuclease III; Provisional; Region: PRK10702 399599006290 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 399599006291 minor groove reading motif; other site 399599006292 helix-hairpin-helix signature motif; other site 399599006293 substrate binding pocket [chemical binding]; other site 399599006294 active site 399599006295 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 399599006296 electron transport complex RsxE subunit; Provisional; Region: PRK12405 399599006297 electron transport complex protein RnfG; Validated; Region: PRK01908 399599006298 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 399599006299 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 399599006300 SLBB domain; Region: SLBB; pfam10531 399599006301 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 399599006302 ferredoxin; Provisional; Region: PRK08764 399599006303 Putative Fe-S cluster; Region: FeS; pfam04060 399599006304 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 399599006305 electron transport complex protein RsxA; Provisional; Region: PRK05151 399599006306 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599006307 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599006308 active site 399599006309 I-site; other site 399599006310 metal binding site [ion binding]; metal-binding site 399599006311 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 399599006312 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 399599006313 sequence-specific DNA binding site [nucleotide binding]; other site 399599006314 Predicted transcriptional regulator [Transcription]; Region: COG2932 399599006315 salt bridge; other site 399599006316 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 399599006317 Catalytic site [active] 399599006318 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 399599006319 Integrase core domain; Region: rve; pfam00665 399599006320 Integrase core domain; Region: rve_3; cl15866 399599006321 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 399599006322 AAA domain; Region: AAA_22; pfam13401 399599006323 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 399599006324 Walker A motif; other site 399599006325 ATP binding site [chemical binding]; other site 399599006326 Walker B motif; other site 399599006327 arginine finger; other site 399599006328 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 399599006329 Protein of unknown function (DUF3164); Region: DUF3164; pfam11363 399599006330 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 399599006331 Mor transcription activator family; Region: Mor; pfam08765 399599006332 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 399599006333 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 399599006334 catalytic residue [active] 399599006335 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 399599006336 Protein of unknown function (DUF2730); Region: DUF2730; pfam10805 399599006337 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 399599006338 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 399599006339 Terminase-like family; Region: Terminase_6; pfam03237 399599006340 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 399599006341 Protein of unknown function (DUF935); Region: DUF935; pfam06074 399599006342 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 399599006343 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 399599006344 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 399599006345 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 399599006346 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; pfam10124 399599006347 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 399599006348 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 399599006349 cell surface protein SprA; Region: surface_SprA; TIGR04189 399599006350 tape measure domain; Region: tape_meas_nterm; TIGR02675 399599006351 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 399599006352 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 399599006353 excinuclease ABC subunit B; Provisional; Region: PRK05298 399599006354 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 399599006355 ATP binding site [chemical binding]; other site 399599006356 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 399599006357 nucleotide binding region [chemical binding]; other site 399599006358 ATP-binding site [chemical binding]; other site 399599006359 Ultra-violet resistance protein B; Region: UvrB; pfam12344 399599006360 UvrB/uvrC motif; Region: UVR; pfam02151 399599006361 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 399599006362 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 399599006363 Ligand Binding Site [chemical binding]; other site 399599006364 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 399599006365 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 399599006366 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 399599006367 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 399599006368 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 399599006369 catalytic residue [active] 399599006370 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 399599006371 Protein of unknown function (DUF406); Region: DUF406; pfam04175 399599006372 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 399599006373 GAF domain; Region: GAF; pfam01590 399599006374 PAS domain; Region: PAS_9; pfam13426 399599006375 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 399599006376 putative active site [active] 399599006377 heme pocket [chemical binding]; other site 399599006378 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599006379 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599006380 metal binding site [ion binding]; metal-binding site 399599006381 active site 399599006382 I-site; other site 399599006383 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 399599006384 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 399599006385 SEC-C motif; Region: SEC-C; pfam02810 399599006386 SEC-C motif; Region: SEC-C; pfam02810 399599006387 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 399599006388 Smr domain; Region: Smr; pfam01713 399599006389 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 399599006390 active site 399599006391 Zn binding site [ion binding]; other site 399599006392 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399599006393 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399599006394 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 399599006395 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399599006396 active site 399599006397 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 399599006398 pyruvate kinase; Provisional; Region: PRK05826 399599006399 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 399599006400 domain interfaces; other site 399599006401 active site 399599006402 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 399599006403 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 399599006404 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 399599006405 putative active site [active] 399599006406 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 399599006407 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 399599006408 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 399599006409 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 399599006410 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 399599006411 putative active site [active] 399599006412 phosphogluconate dehydratase; Validated; Region: PRK09054 399599006413 6-phosphogluconate dehydratase; Region: edd; TIGR01196 399599006414 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 399599006415 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 399599006416 active site 399599006417 intersubunit interface [polypeptide binding]; other site 399599006418 catalytic residue [active] 399599006419 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 399599006420 multiple promoter invertase; Provisional; Region: mpi; PRK13413 399599006421 catalytic residues [active] 399599006422 catalytic nucleophile [active] 399599006423 Presynaptic Site I dimer interface [polypeptide binding]; other site 399599006424 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 399599006425 Synaptic Flat tetramer interface [polypeptide binding]; other site 399599006426 Synaptic Site I dimer interface [polypeptide binding]; other site 399599006427 DNA binding site [nucleotide binding] 399599006428 Homeodomain-like domain; Region: HTH_23; pfam13384 399599006429 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 399599006430 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 399599006431 active site 399599006432 Int/Topo IB signature motif; other site 399599006433 DNA binding site [nucleotide binding] 399599006434 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 399599006435 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 399599006436 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 399599006437 5'-nucleotidase; Provisional; Region: PRK03826 399599006438 aminotransferase AlaT; Validated; Region: PRK09265 399599006439 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 399599006440 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599006441 homodimer interface [polypeptide binding]; other site 399599006442 catalytic residue [active] 399599006443 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 399599006444 Short chain fatty acid transporter; Region: SCFA_trans; cl17380 399599006445 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 399599006446 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 399599006447 elongation factor P; Validated; Region: PRK00529 399599006448 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 399599006449 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 399599006450 RNA binding site [nucleotide binding]; other site 399599006451 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 399599006452 RNA binding site [nucleotide binding]; other site 399599006453 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 399599006454 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 399599006455 flavodoxin FldA; Validated; Region: PRK09267 399599006456 LexA regulated protein; Provisional; Region: PRK11675 399599006457 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 399599006458 PGAP1-like protein; Region: PGAP1; pfam07819 399599006459 acyl-CoA esterase; Provisional; Region: PRK10673 399599006460 replication initiation regulator SeqA; Provisional; Region: PRK11187 399599006461 phosphoglucomutase; Validated; Region: PRK07564 399599006462 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 399599006463 active site 399599006464 substrate binding site [chemical binding]; other site 399599006465 metal binding site [ion binding]; metal-binding site 399599006466 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 399599006467 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 399599006468 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 399599006469 putative active site [active] 399599006470 Zn binding site [ion binding]; other site 399599006471 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 399599006472 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 399599006473 tetramer interface [polypeptide binding]; other site 399599006474 TPP-binding site [chemical binding]; other site 399599006475 heterodimer interface [polypeptide binding]; other site 399599006476 phosphorylation loop region [posttranslational modification] 399599006477 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 399599006478 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 399599006479 alpha subunit interface [polypeptide binding]; other site 399599006480 TPP binding site [chemical binding]; other site 399599006481 heterodimer interface [polypeptide binding]; other site 399599006482 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 399599006483 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 399599006484 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 399599006485 E3 interaction surface; other site 399599006486 lipoyl attachment site [posttranslational modification]; other site 399599006487 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 399599006488 E3 interaction surface; other site 399599006489 lipoyl attachment site [posttranslational modification]; other site 399599006490 e3 binding domain; Region: E3_binding; pfam02817 399599006491 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 399599006492 quinolinate synthetase; Provisional; Region: PRK09375 399599006493 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 399599006494 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 399599006495 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 399599006496 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 399599006497 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 399599006498 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 399599006499 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 399599006500 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 399599006501 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 399599006502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599006503 homodimer interface [polypeptide binding]; other site 399599006504 catalytic residue [active] 399599006505 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 399599006506 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 399599006507 phosphate binding site [ion binding]; other site 399599006508 putative substrate binding pocket [chemical binding]; other site 399599006509 dimer interface [polypeptide binding]; other site 399599006510 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 399599006511 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 399599006512 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 399599006513 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 399599006514 Ligand Binding Site [chemical binding]; other site 399599006515 universal stress protein UspE; Provisional; Region: PRK11175 399599006516 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 399599006517 Ligand Binding Site [chemical binding]; other site 399599006518 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 399599006519 Ligand Binding Site [chemical binding]; other site 399599006520 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 399599006521 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 399599006522 ligand binding site [chemical binding]; other site 399599006523 flexible hinge region; other site 399599006524 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 399599006525 putative switch regulator; other site 399599006526 non-specific DNA interactions [nucleotide binding]; other site 399599006527 DNA binding site [nucleotide binding] 399599006528 sequence specific DNA binding site [nucleotide binding]; other site 399599006529 putative cAMP binding site [chemical binding]; other site 399599006530 Family description; Region: DsbD_2; pfam13386 399599006531 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 399599006532 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 399599006533 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 399599006534 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 399599006535 metal-binding site [ion binding] 399599006536 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 399599006537 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 399599006538 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 399599006539 FixH; Region: FixH; pfam05751 399599006540 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 399599006541 Cytochrome c; Region: Cytochrom_C; pfam00034 399599006542 Cytochrome c; Region: Cytochrom_C; pfam00034 399599006543 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 399599006544 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 399599006545 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 399599006546 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 399599006547 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 399599006548 Low-spin heme binding site [chemical binding]; other site 399599006549 Putative water exit pathway; other site 399599006550 Binuclear center (active site) [active] 399599006551 Putative proton exit pathway; other site 399599006552 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399599006553 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 399599006554 active site 399599006555 phosphorylation site [posttranslational modification] 399599006556 intermolecular recognition site; other site 399599006557 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 399599006558 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 399599006559 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399599006560 Zn2+ binding site [ion binding]; other site 399599006561 Mg2+ binding site [ion binding]; other site 399599006562 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 399599006563 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 399599006564 Int/Topo IB signature motif; other site 399599006565 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 399599006566 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 399599006567 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 399599006568 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 399599006569 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 399599006570 molybdopterin cofactor binding site; other site 399599006571 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 399599006572 putative molybdopterin cofactor binding site; other site 399599006573 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 399599006574 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 399599006575 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 399599006576 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 399599006577 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 399599006578 AAA domain; Region: AAA_22; pfam13401 399599006579 Walker A motif; other site 399599006580 ATP binding site [chemical binding]; other site 399599006581 Walker B motif; other site 399599006582 arginine finger; other site 399599006583 Integrase core domain; Region: rve; pfam00665 399599006584 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 399599006585 Fic family protein [Function unknown]; Region: COG3177 399599006586 Fic/DOC family; Region: Fic; pfam02661 399599006587 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 399599006588 Putative transposase; Region: Y2_Tnp; pfam04986 399599006589 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 399599006590 active site 399599006591 DNA binding site [nucleotide binding] 399599006592 Int/Topo IB signature motif; other site 399599006593 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 399599006594 FeS/SAM binding site; other site 399599006595 two component system sensor kinase SsrB; Provisional; Region: PRK15369 399599006596 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599006597 active site 399599006598 phosphorylation site [posttranslational modification] 399599006599 intermolecular recognition site; other site 399599006600 dimerization interface [polypeptide binding]; other site 399599006601 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 399599006602 DNA binding residues [nucleotide binding] 399599006603 dimerization interface [polypeptide binding]; other site 399599006604 two component system sensor kinase SsrA; Provisional; Region: PRK15347 399599006605 HAMP domain; Region: HAMP; pfam00672 399599006606 dimerization interface [polypeptide binding]; other site 399599006607 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 399599006608 dimer interface [polypeptide binding]; other site 399599006609 phosphorylation site [posttranslational modification] 399599006610 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599006611 ATP binding site [chemical binding]; other site 399599006612 Mg2+ binding site [ion binding]; other site 399599006613 G-X-G motif; other site 399599006614 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599006615 active site 399599006616 phosphorylation site [posttranslational modification] 399599006617 intermolecular recognition site; other site 399599006618 dimerization interface [polypeptide binding]; other site 399599006619 pathogenicity island chaperone protein SpiC; Provisional; Region: PRK15368 399599006620 outer membrane secretin SsaC; Provisional; Region: PRK15346 399599006621 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 399599006622 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 399599006623 type III secretion system protein SsaD; Provisional; Region: PRK15367 399599006624 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 399599006625 EspA-like secreted protein; Region: EspA; pfam03433 399599006626 EspA-like secreted protein; Region: EspA; pfam03433 399599006627 pathogenicity island 2 chaperone protein SscA; Provisional; Region: PRK15363 399599006628 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 399599006629 binding surface 399599006630 TPR motif; other site 399599006631 pathogenicity island 2 effector protein SseC; Provisional; Region: PRK15362 399599006632 pathogenicity island 2 effector protein SseD; Provisional; Region: PRK15361 399599006633 pathogenicity island 2 effector protein SseE; Provisional; Region: PRK15360 399599006634 Salmonella outer protein D; Region: SopD; cl14701 399599006635 type III secretion low calcium response chaperone LcrH/SycD; Region: LcrH_SycD; TIGR02552 399599006636 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 399599006637 binding surface 399599006638 TPR motif; other site 399599006639 pathogenicity island 2 effector protein SseF; Provisional; Region: PRK15358 399599006640 Helix-turn-helix domain; Region: HTH_18; pfam12833 399599006641 Type III secretion needle MxiH like; Region: MxiH; cl09641 399599006642 Protein of unknown function (DUF1039); Region: DUF1039; pfam06287 399599006643 Type III secretion needle MxiH like; Region: MxiH; cl09641 399599006644 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 399599006645 Type III secretion system subunit; Region: T3SS_LEE_assoc; pfam13327 399599006646 type III secretion system protein SsaK; Provisional; Region: PRK15354 399599006647 HrpJ-like domain; Region: HrpJ; pfam07201 399599006648 TyeA; Region: TyeA; cl07611 399599006649 chaperone protein SicP; Provisional; Region: PRK15329 399599006650 SicP binding; Region: SicP-binding; pfam09119 399599006651 type III secretion system protein SsaM; Provisional; Region: PRK15353 399599006652 secretion system apparatus protein SsaV; Provisional; Region: PRK12720 399599006653 FHIPEP family; Region: FHIPEP; pfam00771 399599006654 type III secretion system ATPase; Validated; Region: PRK06820 399599006655 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 399599006656 Walker A motif/ATP binding site; other site 399599006657 Walker B motif; other site 399599006658 type III secretion system protein SsaQ; Validated; Region: PRK08035 399599006659 type III secretion system protein YscR; Provisional; Region: PRK12797 399599006660 Type III secretory pathway, component EscS [Intracellular trafficking and secretion]; Region: EscS; COG4794 399599006661 Bacterial export proteins, family 1; Region: Bac_export_1; cl00734 399599006662 secretion system apparatus protein SsaU; Reviewed; Region: PRK12721 399599006663 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 399599006664 putative transposase OrfB; Reviewed; Region: PHA02517 399599006665 HTH-like domain; Region: HTH_21; pfam13276 399599006666 Integrase core domain; Region: rve; pfam00665 399599006667 Integrase core domain; Region: rve_3; pfam13683 399599006668 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599006669 Transposase; Region: HTH_Tnp_1; pfam01527 399599006670 Y-family of DNA polymerases; Region: PolY; cl12025 399599006671 DNA binding site [nucleotide binding] 399599006672 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 399599006673 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 399599006674 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 399599006675 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 399599006676 Helix-destabilising protein; Region: Phage_DNA_bind; pfam02303 399599006677 Phage replication protein CRI; Region: Phage_CRI; pfam05144 399599006678 Phage X family; Region: Phage_X; pfam05155 399599006679 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 399599006680 non-specific DNA binding site [nucleotide binding]; other site 399599006681 salt bridge; other site 399599006682 sequence-specific DNA binding site [nucleotide binding]; other site 399599006683 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 399599006684 Helix-destabilising protein; Region: Phage_DNA_bind; pfam02303 399599006685 Phage replication protein CRI; Region: Phage_CRI; pfam05144 399599006686 Phage X family; Region: Phage_X; pfam05155 399599006687 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 399599006688 non-specific DNA binding site [nucleotide binding]; other site 399599006689 salt bridge; other site 399599006690 sequence-specific DNA binding site [nucleotide binding]; other site 399599006691 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 399599006692 Helix-destabilising protein; Region: Phage_DNA_bind; pfam02303 399599006693 Phage replication protein CRI; Region: Phage_CRI; pfam05144 399599006694 Phage X family; Region: Phage_X; pfam05155 399599006695 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 399599006696 non-specific DNA binding site [nucleotide binding]; other site 399599006697 salt bridge; other site 399599006698 sequence-specific DNA binding site [nucleotide binding]; other site 399599006699 cxxc_20_cxxc protein; Region: cxxc_20_cxxc; TIGR04104 399599006700 Helix-destabilising protein; Region: Phage_DNA_bind; pfam02303 399599006701 Phage replication protein CRI; Region: Phage_CRI; pfam05144 399599006702 Phage X family; Region: Phage_X; pfam05155 399599006703 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 399599006704 non-specific DNA binding site [nucleotide binding]; other site 399599006705 salt bridge; other site 399599006706 sequence-specific DNA binding site [nucleotide binding]; other site 399599006707 putative transposase OrfB; Reviewed; Region: PHA02517 399599006708 HTH-like domain; Region: HTH_21; pfam13276 399599006709 Integrase core domain; Region: rve; pfam00665 399599006710 Integrase core domain; Region: rve_2; pfam13333 399599006711 Transposase; Region: HTH_Tnp_1; pfam01527 399599006712 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599006713 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 399599006714 Ricin-type beta-trefoil; Carbohydrate-binding domain formed from presumed gene triplication. The domain is found in a variety of molecules serving diverse functions such as enzymatic activity, inhibitory toxicity and signal transduction. Highly specific...; Region: RICIN; cl15820 399599006715 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 399599006716 putative efflux protein, MATE family; Region: matE; TIGR00797 399599006717 putative transporter; Provisional; Region: PRK11043 399599006718 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599006719 putative substrate translocation pore; other site 399599006720 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 399599006721 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599006722 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 399599006723 dimerization interface [polypeptide binding]; other site 399599006724 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 399599006725 YccA-like proteins; Region: YccA_like; cd10433 399599006726 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 399599006727 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 399599006728 sulfur relay protein TusB/DsrH; Region: sulf_tusB_dsrH; TIGR03011 399599006729 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 399599006730 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 399599006731 seryl-tRNA synthetase; Provisional; Region: PRK05431 399599006732 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 399599006733 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 399599006734 dimer interface [polypeptide binding]; other site 399599006735 active site 399599006736 motif 1; other site 399599006737 motif 2; other site 399599006738 motif 3; other site 399599006739 camphor resistance protein CrcB; Provisional; Region: PRK14197 399599006740 recombination factor protein RarA; Reviewed; Region: PRK13342 399599006741 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 399599006742 Walker A motif; other site 399599006743 ATP binding site [chemical binding]; other site 399599006744 Walker B motif; other site 399599006745 arginine finger; other site 399599006746 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 399599006747 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 399599006748 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 399599006749 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 399599006750 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 399599006751 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 399599006752 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 399599006753 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 399599006754 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 399599006755 putative DNA binding site [nucleotide binding]; other site 399599006756 putative Zn2+ binding site [ion binding]; other site 399599006757 AsnC family; Region: AsnC_trans_reg; pfam01037 399599006758 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 399599006759 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 399599006760 hexamer interface [polypeptide binding]; other site 399599006761 ligand binding site [chemical binding]; other site 399599006762 putative active site [active] 399599006763 NAD(P) binding site [chemical binding]; other site 399599006764 thioredoxin reductase; Provisional; Region: PRK10262 399599006765 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 399599006766 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 399599006767 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 399599006768 23S rRNA binding site [nucleotide binding]; other site 399599006769 L21 binding site [polypeptide binding]; other site 399599006770 L13 binding site [polypeptide binding]; other site 399599006771 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 399599006772 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 399599006773 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 399599006774 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 399599006775 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 399599006776 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 399599006777 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 399599006778 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 399599006779 active site 399599006780 dimer interface [polypeptide binding]; other site 399599006781 motif 1; other site 399599006782 motif 2; other site 399599006783 motif 3; other site 399599006784 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 399599006785 anticodon binding site; other site 399599006786 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 399599006787 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 399599006788 Lumazine binding domain; Region: Lum_binding; pfam00677 399599006789 Lumazine binding domain; Region: Lum_binding; pfam00677 399599006790 multidrug efflux protein; Reviewed; Region: PRK01766 399599006791 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 399599006792 cation binding site [ion binding]; other site 399599006793 putative transposase OrfB; Reviewed; Region: PHA02517 399599006794 HTH-like domain; Region: HTH_21; pfam13276 399599006795 Integrase core domain; Region: rve; pfam00665 399599006796 Integrase core domain; Region: rve_3; pfam13683 399599006797 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599006798 Transposase; Region: HTH_Tnp_1; pfam01527 399599006799 CsbD-like; Region: CsbD; pfam05532 399599006800 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 399599006801 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 399599006802 N-terminal plug; other site 399599006803 ligand-binding site [chemical binding]; other site 399599006804 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 399599006805 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 399599006806 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 399599006807 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 399599006808 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 399599006809 N-terminal plug; other site 399599006810 ligand-binding site [chemical binding]; other site 399599006811 PAS fold; Region: PAS_7; pfam12860 399599006812 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 399599006813 putative active site [active] 399599006814 heme pocket [chemical binding]; other site 399599006815 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599006816 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599006817 metal binding site [ion binding]; metal-binding site 399599006818 active site 399599006819 I-site; other site 399599006820 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399599006821 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 399599006822 dimer interface [polypeptide binding]; other site 399599006823 phosphorylation site [posttranslational modification] 399599006824 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599006825 ATP binding site [chemical binding]; other site 399599006826 Mg2+ binding site [ion binding]; other site 399599006827 G-X-G motif; other site 399599006828 Response regulator receiver domain; Region: Response_reg; pfam00072 399599006829 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599006830 active site 399599006831 phosphorylation site [posttranslational modification] 399599006832 intermolecular recognition site; other site 399599006833 dimerization interface [polypeptide binding]; other site 399599006834 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399599006835 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 399599006836 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 399599006837 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 399599006838 non-specific DNA binding site [nucleotide binding]; other site 399599006839 salt bridge; other site 399599006840 sequence-specific DNA binding site [nucleotide binding]; other site 399599006841 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399599006842 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399599006843 Phytase; Region: Phytase; cl17685 399599006844 Uncharacterized conserved protein [Function unknown]; Region: COG4628 399599006845 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 399599006846 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399599006847 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399599006848 ABC transporter; Region: ABC_tran_2; pfam12848 399599006849 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399599006850 Nuclease-related domain; Region: NERD; pfam08378 399599006851 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 399599006852 active site 399599006853 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 399599006854 S-adenosylmethionine binding site [chemical binding]; other site 399599006855 Hpt domain; Region: Hpt; pfam01627 399599006856 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599006857 active site 399599006858 phosphorylation site [posttranslational modification] 399599006859 intermolecular recognition site; other site 399599006860 dimerization interface [polypeptide binding]; other site 399599006861 Response regulator receiver domain; Region: Response_reg; pfam00072 399599006862 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599006863 active site 399599006864 phosphorylation site [posttranslational modification] 399599006865 intermolecular recognition site; other site 399599006866 dimerization interface [polypeptide binding]; other site 399599006867 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599006868 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599006869 metal binding site [ion binding]; metal-binding site 399599006870 active site 399599006871 I-site; other site 399599006872 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 399599006873 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599006874 active site 399599006875 phosphorylation site [posttranslational modification] 399599006876 intermolecular recognition site; other site 399599006877 dimerization interface [polypeptide binding]; other site 399599006878 CheB methylesterase; Region: CheB_methylest; pfam01339 399599006879 chemoreceptor glutamine deamidase CheD; Provisional; Region: PRK13487 399599006880 chemotaxis methyltransferase CheR; Provisional; Region: PRK10611 399599006881 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 399599006882 CheR methyltransferase, SAM binding domain; Region: CheR; pfam01739 399599006883 PAS fold; Region: PAS; pfam00989 399599006884 PAS domain; Region: PAS; smart00091 399599006885 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599006886 dimer interface [polypeptide binding]; other site 399599006887 putative CheW interface [polypeptide binding]; other site 399599006888 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 399599006889 putative CheA interaction surface; other site 399599006890 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 399599006891 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 399599006892 putative binding surface; other site 399599006893 active site 399599006894 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 399599006895 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599006896 ATP binding site [chemical binding]; other site 399599006897 Mg2+ binding site [ion binding]; other site 399599006898 G-X-G motif; other site 399599006899 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 399599006900 Response regulator receiver domain; Region: Response_reg; pfam00072 399599006901 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599006902 active site 399599006903 phosphorylation site [posttranslational modification] 399599006904 intermolecular recognition site; other site 399599006905 dimerization interface [polypeptide binding]; other site 399599006906 Response regulator receiver domain; Region: Response_reg; pfam00072 399599006907 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599006908 active site 399599006909 phosphorylation site [posttranslational modification] 399599006910 intermolecular recognition site; other site 399599006911 dimerization interface [polypeptide binding]; other site 399599006912 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 399599006913 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 399599006914 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 399599006915 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 399599006916 anti sigma factor interaction site; other site 399599006917 regulatory phosphorylation site [posttranslational modification]; other site 399599006918 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599006919 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599006920 dimer interface [polypeptide binding]; other site 399599006921 putative CheW interface [polypeptide binding]; other site 399599006922 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 399599006923 CoA binding domain; Region: CoA_binding_2; pfam13380 399599006924 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 399599006925 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 399599006926 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599006927 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599006928 metal binding site [ion binding]; metal-binding site 399599006929 active site 399599006930 I-site; other site 399599006931 putative metal dependent hydrolase; Provisional; Region: PRK11598 399599006932 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 399599006933 Sulfatase; Region: Sulfatase; pfam00884 399599006934 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 399599006935 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399599006936 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 399599006937 MarR family; Region: MarR; pfam01047 399599006938 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 399599006939 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 399599006940 ecotin; Provisional; Region: PRK03719 399599006941 secondary substrate binding site; other site 399599006942 primary substrate binding site; other site 399599006943 inhibition loop; other site 399599006944 dimerization interface [polypeptide binding]; other site 399599006945 DEAD-like helicases superfamily; Region: DEXDc; smart00487 399599006946 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 399599006947 ATP binding site [chemical binding]; other site 399599006948 putative Mg++ binding site [ion binding]; other site 399599006949 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 399599006950 nucleotide binding region [chemical binding]; other site 399599006951 ATP-binding site [chemical binding]; other site 399599006952 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 399599006953 active site 399599006954 DNA binding site [nucleotide binding] 399599006955 Int/Topo IB signature motif; other site 399599006956 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 399599006957 Uncharacterized conserved protein [Function unknown]; Region: COG3148 399599006958 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 399599006959 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 399599006960 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 399599006961 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599006962 putative substrate translocation pore; other site 399599006963 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 399599006964 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 399599006965 domain interface [polypeptide binding]; other site 399599006966 putative active site [active] 399599006967 catalytic site [active] 399599006968 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 399599006969 domain interface [polypeptide binding]; other site 399599006970 putative active site [active] 399599006971 catalytic site [active] 399599006972 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 399599006973 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 399599006974 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 399599006975 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 399599006976 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 399599006977 active site 399599006978 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 399599006979 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 399599006980 short chain dehydrogenase; Provisional; Region: PRK07576 399599006981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399599006982 NAD(P) binding site [chemical binding]; other site 399599006983 active site 399599006984 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 399599006985 active site 399599006986 dimer interface [polypeptide binding]; other site 399599006987 tetratricopeptide repeat protein; Provisional; Region: PRK11788 399599006988 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 399599006989 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 399599006990 IHF dimer interface [polypeptide binding]; other site 399599006991 IHF - DNA interface [nucleotide binding]; other site 399599006992 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 399599006993 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 399599006994 RNA binding site [nucleotide binding]; other site 399599006995 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 399599006996 RNA binding site [nucleotide binding]; other site 399599006997 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 399599006998 RNA binding site [nucleotide binding]; other site 399599006999 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 399599007000 RNA binding site [nucleotide binding]; other site 399599007001 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 399599007002 RNA binding site [nucleotide binding]; other site 399599007003 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 399599007004 RNA binding site [nucleotide binding]; other site 399599007005 cytidylate kinase; Provisional; Region: cmk; PRK00023 399599007006 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 399599007007 CMP-binding site; other site 399599007008 The sites determining sugar specificity; other site 399599007009 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 399599007010 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 399599007011 hinge; other site 399599007012 active site 399599007013 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 399599007014 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 399599007015 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599007016 homodimer interface [polypeptide binding]; other site 399599007017 catalytic residue [active] 399599007018 hypothetical protein; Provisional; Region: PRK10977 399599007019 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 399599007020 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 399599007021 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599007022 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599007023 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 399599007024 substrate binding pocket [chemical binding]; other site 399599007025 dimerization interface [polypeptide binding]; other site 399599007026 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 399599007027 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 399599007028 catalytic residue [active] 399599007029 DNA gyrase subunit A; Validated; Region: PRK05560 399599007030 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 399599007031 CAP-like domain; other site 399599007032 active site 399599007033 primary dimer interface [polypeptide binding]; other site 399599007034 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 399599007035 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 399599007036 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 399599007037 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 399599007038 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 399599007039 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 399599007040 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 399599007041 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 399599007042 S-adenosylmethionine binding site [chemical binding]; other site 399599007043 phosphoglycolate phosphatase; Provisional; Region: PRK13222 399599007044 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 399599007045 motif II; other site 399599007046 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 399599007047 ATP cone domain; Region: ATP-cone; pfam03477 399599007048 Class I ribonucleotide reductase; Region: RNR_I; cd01679 399599007049 active site 399599007050 dimer interface [polypeptide binding]; other site 399599007051 catalytic residues [active] 399599007052 effector binding site; other site 399599007053 R2 peptide binding site; other site 399599007054 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 399599007055 dimer interface [polypeptide binding]; other site 399599007056 putative radical transfer pathway; other site 399599007057 diiron center [ion binding]; other site 399599007058 tyrosyl radical; other site 399599007059 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 399599007060 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 399599007061 catalytic loop [active] 399599007062 iron binding site [ion binding]; other site 399599007063 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 399599007064 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 399599007065 active site 399599007066 FMN binding site [chemical binding]; other site 399599007067 2,4-decadienoyl-CoA binding site; other site 399599007068 catalytic residue [active] 399599007069 4Fe-4S cluster binding site [ion binding]; other site 399599007070 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 399599007071 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 399599007072 protease 4; Provisional; Region: PRK10949 399599007073 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 399599007074 tandem repeat interface [polypeptide binding]; other site 399599007075 oligomer interface [polypeptide binding]; other site 399599007076 active site residues [active] 399599007077 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 399599007078 tandem repeat interface [polypeptide binding]; other site 399599007079 oligomer interface [polypeptide binding]; other site 399599007080 active site residues [active] 399599007081 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 399599007082 active site 399599007083 homodimer interface [polypeptide binding]; other site 399599007084 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 399599007085 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 399599007086 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 399599007087 putative active site [active] 399599007088 Zn binding site [ion binding]; other site 399599007089 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 399599007090 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599007091 active site 399599007092 phosphorylation site [posttranslational modification] 399599007093 intermolecular recognition site; other site 399599007094 dimerization interface [polypeptide binding]; other site 399599007095 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 399599007096 DNA binding site [nucleotide binding] 399599007097 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 399599007098 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 399599007099 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 399599007100 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 399599007101 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 399599007102 N-terminal plug; other site 399599007103 ligand-binding site [chemical binding]; other site 399599007104 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 399599007105 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 399599007106 Walker A motif; other site 399599007107 ATP binding site [chemical binding]; other site 399599007108 Walker B motif; other site 399599007109 arginine finger; other site 399599007110 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 399599007111 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 399599007112 RuvA N terminal domain; Region: RuvA_N; pfam01330 399599007113 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 399599007114 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 399599007115 active site 399599007116 putative DNA-binding cleft [nucleotide binding]; other site 399599007117 dimer interface [polypeptide binding]; other site 399599007118 hypothetical protein; Validated; Region: PRK00110 399599007119 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 399599007120 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 399599007121 dimer interface [polypeptide binding]; other site 399599007122 anticodon binding site; other site 399599007123 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 399599007124 homodimer interface [polypeptide binding]; other site 399599007125 motif 1; other site 399599007126 active site 399599007127 motif 2; other site 399599007128 GAD domain; Region: GAD; pfam02938 399599007129 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 399599007130 active site 399599007131 motif 3; other site 399599007132 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399599007133 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 399599007134 substrate binding pocket [chemical binding]; other site 399599007135 membrane-bound complex binding site; other site 399599007136 hinge residues; other site 399599007137 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399599007138 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 399599007139 substrate binding pocket [chemical binding]; other site 399599007140 membrane-bound complex binding site; other site 399599007141 hinge residues; other site 399599007142 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 399599007143 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399599007144 substrate binding pocket [chemical binding]; other site 399599007145 membrane-bound complex binding site; other site 399599007146 hinge residues; other site 399599007147 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599007148 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599007149 metal binding site [ion binding]; metal-binding site 399599007150 active site 399599007151 I-site; other site 399599007152 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 399599007153 S-adenosylmethionine binding site [chemical binding]; other site 399599007154 Methyltransferase domain; Region: Methyltransf_23; pfam13489 399599007155 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 399599007156 S-adenosylmethionine binding site [chemical binding]; other site 399599007157 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 399599007158 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 399599007159 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 399599007160 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 399599007161 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 399599007162 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599007163 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599007164 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 399599007165 dimerization interface [polypeptide binding]; other site 399599007166 SprA-related family; Region: SprA-related; pfam12118 399599007167 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 399599007168 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 399599007169 FeS/SAM binding site; other site 399599007170 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 399599007171 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 399599007172 ThiS interaction site; other site 399599007173 putative active site [active] 399599007174 tetramer interface [polypeptide binding]; other site 399599007175 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 399599007176 thiS-thiF/thiG interaction site; other site 399599007177 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 399599007178 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 399599007179 ATP binding site [chemical binding]; other site 399599007180 substrate interface [chemical binding]; other site 399599007181 Phosphomethylpyrimidine kinase; Region: Phos_pyr_kin; pfam08543 399599007182 ATP binding site [chemical binding]; other site 399599007183 substrate binding site [chemical binding]; other site 399599007184 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 399599007185 thiamine phosphate binding site [chemical binding]; other site 399599007186 active site 399599007187 pyrophosphate binding site [ion binding]; other site 399599007188 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 399599007189 ThiC-associated domain; Region: ThiC-associated; pfam13667 399599007190 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 399599007191 Haemolysin-III related; Region: HlyIII; cl03831 399599007192 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 399599007193 DTW domain; Region: DTW; cl01221 399599007194 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 399599007195 nudix motif; other site 399599007196 Predicted SAM-dependent methyltransferase [General function prediction only]; Region: COG2384 399599007197 Family of unknown function (DUF633); Region: DUF633; pfam04816 399599007198 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 399599007199 Helix-turn-helix domain; Region: HTH_18; pfam12833 399599007200 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 399599007201 Uncharacterized conserved protein [Function unknown]; Region: COG2128 399599007202 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 399599007203 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 399599007204 putative RNA binding site [nucleotide binding]; other site 399599007205 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399599007206 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 399599007207 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 399599007208 catalytic site [active] 399599007209 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2350 399599007210 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599007211 Major Facilitator Superfamily; Region: MFS_1; pfam07690 399599007212 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599007213 Major Facilitator Superfamily; Region: MFS_1; pfam07690 399599007214 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 399599007215 Domain interface; other site 399599007216 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 399599007217 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 399599007218 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 399599007219 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399599007220 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399599007221 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399599007222 Citrate transporter; Region: CitMHS; pfam03600 399599007223 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; cd00625 399599007224 transmembrane helices; other site 399599007225 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 399599007226 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 399599007227 Catalytic site [active] 399599007228 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 399599007229 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 399599007230 active site 399599007231 DNA binding site [nucleotide binding] 399599007232 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 399599007233 Uncharacterized conserved protein [Function unknown]; Region: COG2850 399599007234 Cupin-like domain; Region: Cupin_8; pfam13621 399599007235 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 399599007236 active site 399599007237 catalytic site [active] 399599007238 substrate binding site [chemical binding]; other site 399599007239 Transcriptional regulators [Transcription]; Region: PurR; COG1609 399599007240 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 399599007241 DNA binding site [nucleotide binding] 399599007242 domain linker motif; other site 399599007243 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 399599007244 putative dimerization interface [polypeptide binding]; other site 399599007245 putative ligand binding site [chemical binding]; other site 399599007246 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 399599007247 Cache domain; Region: Cache_2; pfam08269 399599007248 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 399599007249 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 399599007250 dimerization interface [polypeptide binding]; other site 399599007251 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599007252 dimer interface [polypeptide binding]; other site 399599007253 putative CheW interface [polypeptide binding]; other site 399599007254 Uncharacterized conserved protein [Function unknown]; Region: COG3603 399599007255 Family description; Region: ACT_7; pfam13840 399599007256 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 399599007257 dimerization domain swap beta strand [polypeptide binding]; other site 399599007258 regulatory protein interface [polypeptide binding]; other site 399599007259 active site 399599007260 regulatory phosphorylation site [posttranslational modification]; other site 399599007261 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 399599007262 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 399599007263 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 399599007264 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 399599007265 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 399599007266 HPr interaction site; other site 399599007267 glycerol kinase (GK) interaction site [polypeptide binding]; other site 399599007268 active site 399599007269 phosphorylation site [posttranslational modification] 399599007270 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599007271 Major Facilitator Superfamily; Region: MFS_1; pfam07690 399599007272 putative substrate translocation pore; other site 399599007273 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599007274 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 399599007275 ArsC family; Region: ArsC; pfam03960 399599007276 putative catalytic residues [active] 399599007277 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 399599007278 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 399599007279 metal binding site [ion binding]; metal-binding site 399599007280 dimer interface [polypeptide binding]; other site 399599007281 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 399599007282 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 399599007283 PBP superfamily domain; Region: PBP_like_2; cl17296 399599007284 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 399599007285 active site clefts [active] 399599007286 zinc binding site [ion binding]; other site 399599007287 dimer interface [polypeptide binding]; other site 399599007288 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 399599007289 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 399599007290 inhibitor-cofactor binding pocket; inhibition site 399599007291 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599007292 catalytic residue [active] 399599007293 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 399599007294 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 399599007295 active site 399599007296 NAD binding site [chemical binding]; other site 399599007297 metal binding site [ion binding]; metal-binding site 399599007298 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 399599007299 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 399599007300 Ligand binding site; other site 399599007301 oligomer interface; other site 399599007302 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 399599007303 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 399599007304 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 399599007305 active site residue [active] 399599007306 GST_N family, Omega-like subfamily; composed of uncharacterized proteins with similarity to class Omega GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_Omega_like; cd03060 399599007307 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 399599007308 putative GSH binding site (G-site) [chemical binding]; other site 399599007309 active site cysteine [active] 399599007310 putative C-terminal domain interface [polypeptide binding]; other site 399599007311 putative dimer interface [polypeptide binding]; other site 399599007312 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 399599007313 putative N-terminal domain interface [polypeptide binding]; other site 399599007314 putative dimer interface [polypeptide binding]; other site 399599007315 putative substrate binding pocket (H-site) [chemical binding]; other site 399599007316 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 399599007317 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 399599007318 Sulfate transporter family; Region: Sulfate_transp; pfam00916 399599007319 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 399599007320 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 399599007321 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 399599007322 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399599007323 DNA-binding site [nucleotide binding]; DNA binding site 399599007324 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 399599007325 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599007326 homodimer interface [polypeptide binding]; other site 399599007327 catalytic residue [active] 399599007328 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599007329 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 399599007330 putative substrate translocation pore; other site 399599007331 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08979 399599007332 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 399599007333 PYR/PP interface [polypeptide binding]; other site 399599007334 dimer interface [polypeptide binding]; other site 399599007335 TPP binding site [chemical binding]; other site 399599007336 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 399599007337 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 399599007338 TPP-binding site [chemical binding]; other site 399599007339 dimer interface [polypeptide binding]; other site 399599007340 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 399599007341 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 399599007342 putative valine binding site [chemical binding]; other site 399599007343 dimer interface [polypeptide binding]; other site 399599007344 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 399599007345 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 399599007346 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 399599007347 putative dimer interface [polypeptide binding]; other site 399599007348 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 399599007349 active site 399599007350 multimer interface [polypeptide binding]; other site 399599007351 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 399599007352 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 399599007353 ATP-grasp domain; Region: ATP-grasp_4; cl17255 399599007354 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 399599007355 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 399599007356 catalytic loop [active] 399599007357 iron binding site [ion binding]; other site 399599007358 chaperone protein HscA; Provisional; Region: hscA; PRK05183 399599007359 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 399599007360 nucleotide binding site [chemical binding]; other site 399599007361 putative NEF/HSP70 interaction site [polypeptide binding]; other site 399599007362 SBD interface [polypeptide binding]; other site 399599007363 co-chaperone HscB; Provisional; Region: hscB; PRK05014 399599007364 DnaJ domain; Region: DnaJ; pfam00226 399599007365 HSP70 interaction site [polypeptide binding]; other site 399599007366 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 399599007367 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 399599007368 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 399599007369 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 399599007370 trimerization site [polypeptide binding]; other site 399599007371 active site 399599007372 cysteine desulfurase; Provisional; Region: PRK14012 399599007373 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 399599007374 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 399599007375 catalytic residue [active] 399599007376 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 399599007377 Rrf2 family protein; Region: rrf2_super; TIGR00738 399599007378 serine O-acetyltransferase; Region: cysE; TIGR01172 399599007379 Serine acetyltransferase, N-terminal; Region: SATase_N; cl05762 399599007380 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 399599007381 trimer interface [polypeptide binding]; other site 399599007382 active site 399599007383 substrate binding site [chemical binding]; other site 399599007384 CoA binding site [chemical binding]; other site 399599007385 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 399599007386 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 399599007387 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 399599007388 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 399599007389 active site 399599007390 dimerization interface [polypeptide binding]; other site 399599007391 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 399599007392 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 399599007393 FtsX-like permease family; Region: FtsX; pfam02687 399599007394 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 399599007395 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 399599007396 Walker A/P-loop; other site 399599007397 ATP binding site [chemical binding]; other site 399599007398 Q-loop/lid; other site 399599007399 ABC transporter signature motif; other site 399599007400 Walker B; other site 399599007401 D-loop; other site 399599007402 H-loop/switch region; other site 399599007403 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 399599007404 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 399599007405 transcription-repair coupling factor; Provisional; Region: PRK10689 399599007406 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 399599007407 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 399599007408 ATP binding site [chemical binding]; other site 399599007409 putative Mg++ binding site [ion binding]; other site 399599007410 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 399599007411 nucleotide binding region [chemical binding]; other site 399599007412 ATP-binding site [chemical binding]; other site 399599007413 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 399599007414 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 399599007415 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 399599007416 acylphosphatase; Provisional; Region: PRK14429 399599007417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 399599007418 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 399599007419 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 399599007420 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 399599007421 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 399599007422 putative active site [active] 399599007423 putative NTP binding site [chemical binding]; other site 399599007424 putative nucleic acid binding site [nucleotide binding]; other site 399599007425 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 399599007426 AAA ATPase domain; Region: AAA_15; pfam13175 399599007427 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 399599007428 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599007429 Walker B; other site 399599007430 D-loop; other site 399599007431 H-loop/switch region; other site 399599007432 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 399599007433 active site 399599007434 metal binding site [ion binding]; metal-binding site 399599007435 Nuclease-related domain; Region: NERD; pfam08378 399599007436 hypothetical protein; Provisional; Region: PRK04940 399599007437 beta-hexosaminidase; Provisional; Region: PRK05337 399599007438 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 399599007439 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 399599007440 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 399599007441 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 399599007442 S-formylglutathione hydrolase; Region: PLN02442 399599007443 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 399599007444 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 399599007445 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 399599007446 substrate binding site [chemical binding]; other site 399599007447 catalytic Zn binding site [ion binding]; other site 399599007448 NAD binding site [chemical binding]; other site 399599007449 structural Zn binding site [ion binding]; other site 399599007450 dimer interface [polypeptide binding]; other site 399599007451 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599007452 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599007453 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 399599007454 putative effector binding pocket; other site 399599007455 putative dimerization interface [polypeptide binding]; other site 399599007456 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 399599007457 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 399599007458 Protein of unknown function (DUF938); Region: DUF938; pfam06080 399599007459 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 399599007460 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 399599007461 N-terminal plug; other site 399599007462 ligand-binding site [chemical binding]; other site 399599007463 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 399599007464 DEAD/DEAH box helicase; Region: DEAD; pfam00270 399599007465 DEAD_2; Region: DEAD_2; pfam06733 399599007466 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 399599007467 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 399599007468 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 399599007469 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 399599007470 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 399599007471 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 399599007472 NAD binding site [chemical binding]; other site 399599007473 dimerization interface [polypeptide binding]; other site 399599007474 product binding site; other site 399599007475 substrate binding site [chemical binding]; other site 399599007476 zinc binding site [ion binding]; other site 399599007477 catalytic residues [active] 399599007478 histidinol-phosphate aminotransferase; Provisional; Region: PRK04635 399599007479 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 399599007480 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599007481 homodimer interface [polypeptide binding]; other site 399599007482 catalytic residue [active] 399599007483 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 399599007484 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 399599007485 active site 399599007486 motif I; other site 399599007487 motif II; other site 399599007488 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 399599007489 putative active site pocket [active] 399599007490 4-fold oligomerization interface [polypeptide binding]; other site 399599007491 metal binding residues [ion binding]; metal-binding site 399599007492 3-fold/trimer interface [polypeptide binding]; other site 399599007493 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 399599007494 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 399599007495 putative active site [active] 399599007496 oxyanion strand; other site 399599007497 catalytic triad [active] 399599007498 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 399599007499 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 399599007500 catalytic residues [active] 399599007501 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 399599007502 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 399599007503 substrate binding site [chemical binding]; other site 399599007504 glutamase interaction surface [polypeptide binding]; other site 399599007505 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 399599007506 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 399599007507 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 399599007508 metal binding site [ion binding]; metal-binding site 399599007509 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 399599007510 aromatic amino acid transport protein; Region: araaP; TIGR00837 399599007511 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 399599007512 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 399599007513 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 399599007514 putative transposase OrfB; Reviewed; Region: PHA02517 399599007515 HTH-like domain; Region: HTH_21; pfam13276 399599007516 Integrase core domain; Region: rve; pfam00665 399599007517 Integrase core domain; Region: rve_2; pfam13333 399599007518 Transposase; Region: HTH_Tnp_1; pfam01527 399599007519 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599007520 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599007521 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 399599007522 Coenzyme A binding pocket [chemical binding]; other site 399599007523 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 399599007524 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 399599007525 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 399599007526 quinone interaction residues [chemical binding]; other site 399599007527 active site 399599007528 catalytic residues [active] 399599007529 FMN binding site [chemical binding]; other site 399599007530 substrate binding site [chemical binding]; other site 399599007531 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 399599007532 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 399599007533 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 399599007534 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 399599007535 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 399599007536 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 399599007537 aminopeptidase N; Provisional; Region: pepN; PRK14015 399599007538 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 399599007539 active site 399599007540 Zn binding site [ion binding]; other site 399599007541 carboxy-terminal protease; Provisional; Region: PRK11186 399599007542 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 399599007543 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 399599007544 protein binding site [polypeptide binding]; other site 399599007545 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 399599007546 Catalytic dyad [active] 399599007547 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 399599007548 ProP expression regulator; Provisional; Region: PRK04950 399599007549 ProQ/FINO family; Region: ProQ; smart00945 399599007550 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 399599007551 GAF domain; Region: GAF_2; pfam13185 399599007552 YebG protein; Region: YebG; pfam07130 399599007553 Paraquat-inducible protein A; Region: PqiA; pfam04403 399599007554 Paraquat-inducible protein A; Region: PqiA; pfam04403 399599007555 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 399599007556 mce related protein; Region: MCE; pfam02470 399599007557 mce related protein; Region: MCE; pfam02470 399599007558 mce related protein; Region: MCE; pfam02470 399599007559 mce related protein; Region: MCE; pfam02470 399599007560 mce related protein; Region: MCE; pfam02470 399599007561 mce related protein; Region: MCE; pfam02470 399599007562 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 399599007563 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 399599007564 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 399599007565 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 399599007566 S-adenosylmethionine binding site [chemical binding]; other site 399599007567 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 399599007568 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 399599007569 active site 399599007570 PilZ domain; Region: PilZ; cl01260 399599007571 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 399599007572 DNA polymerase III subunit delta'; Validated; Region: PRK08485 399599007573 thymidylate kinase; Validated; Region: tmk; PRK00698 399599007574 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 399599007575 TMP-binding site; other site 399599007576 ATP-binding site [chemical binding]; other site 399599007577 YceG-like family; Region: YceG; pfam02618 399599007578 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 399599007579 dimerization interface [polypeptide binding]; other site 399599007580 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 399599007581 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 399599007582 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599007583 catalytic residue [active] 399599007584 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 399599007585 trimer interface [polypeptide binding]; other site 399599007586 active site 399599007587 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 399599007588 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 399599007589 Sugar specificity; other site 399599007590 Pyrimidine base specificity; other site 399599007591 ATP-binding site [chemical binding]; other site 399599007592 antiporter inner membrane protein; Provisional; Region: PRK11670 399599007593 Domain of unknown function DUF59; Region: DUF59; cl00941 399599007594 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 399599007595 Walker A motif; other site 399599007596 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 399599007597 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 399599007598 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 399599007599 active site 399599007600 HIGH motif; other site 399599007601 KMSKS motif; other site 399599007602 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 399599007603 tRNA binding surface [nucleotide binding]; other site 399599007604 anticodon binding site; other site 399599007605 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 399599007606 dimer interface [polypeptide binding]; other site 399599007607 putative tRNA-binding site [nucleotide binding]; other site 399599007608 Predicted permeases [General function prediction only]; Region: COG0679 399599007609 Uncharacterized conserved protein [Function unknown]; Region: COG0327 399599007610 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 399599007611 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 399599007612 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 399599007613 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 399599007614 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 399599007615 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 399599007616 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 399599007617 rRNA binding site [nucleotide binding]; other site 399599007618 predicted 30S ribosome binding site; other site 399599007619 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 399599007620 Clp amino terminal domain; Region: Clp_N; pfam02861 399599007621 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 399599007622 Walker A motif; other site 399599007623 ATP binding site [chemical binding]; other site 399599007624 Walker B motif; other site 399599007625 arginine finger; other site 399599007626 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 399599007627 Walker A motif; other site 399599007628 ATP binding site [chemical binding]; other site 399599007629 Walker B motif; other site 399599007630 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 399599007631 Uncharacterized conserved protein [Function unknown]; Region: COG2127 399599007632 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 399599007633 DNA-binding site [nucleotide binding]; DNA binding site 399599007634 RNA-binding motif; other site 399599007635 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 399599007636 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 399599007637 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 399599007638 pseudouridine synthase; Region: TIGR00093 399599007639 probable active site [active] 399599007640 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 399599007641 nudix motif; other site 399599007642 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 399599007643 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 399599007644 putative lysogenization regulator; Reviewed; Region: PRK00218 399599007645 adenylosuccinate lyase; Provisional; Region: PRK09285 399599007646 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 399599007647 tetramer interface [polypeptide binding]; other site 399599007648 active site 399599007649 Cupin superfamily protein; Region: Cupin_4; pfam08007 399599007650 Cupin-like domain; Region: Cupin_8; pfam13621 399599007651 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 399599007652 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 399599007653 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 399599007654 NAD binding site [chemical binding]; other site 399599007655 Phe binding site; other site 399599007656 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 399599007657 MarR family; Region: MarR; pfam01047 399599007658 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 399599007659 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 399599007660 FAD binding domain; Region: FAD_binding_4; pfam01565 399599007661 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 399599007662 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 399599007663 phosphoenolpyruvate synthase; Validated; Region: PRK06464 399599007664 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 399599007665 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 399599007666 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 399599007667 PEP synthetase regulatory protein; Provisional; Region: PRK05339 399599007668 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 399599007669 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 399599007670 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 399599007671 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 399599007672 aromatic chitin/cellulose binding site residues [chemical binding]; other site 399599007673 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 399599007674 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 399599007675 active site 399599007676 The GH18 (glycosyl hydrolase, family 18) type II chitinases hydrolyze chitin, an abundant polymer of beta-1,4-linked N-acetylglucosamine (GlcNAc) which is a major component of the cell wall of fungi and the exoskeleton of arthropods. Chitinases have...; Region: GH18_chitinase-like; cl10447 399599007677 Chitinase C; Region: ChiC; pfam06483 399599007678 Cellulose-binding domain, chitinase and related proteins; Region: CBD_like; cd12204 399599007679 aromatic chitin/cellulose binding site residues [chemical binding]; other site 399599007680 ligand binding site [chemical binding]; other site 399599007681 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 399599007682 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 399599007683 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599007684 active site 399599007685 phosphorylation site [posttranslational modification] 399599007686 intermolecular recognition site; other site 399599007687 dimerization interface [polypeptide binding]; other site 399599007688 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 399599007689 DNA binding residues [nucleotide binding] 399599007690 dimerization interface [polypeptide binding]; other site 399599007691 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 399599007692 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599007693 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 399599007694 substrate binding site [chemical binding]; other site 399599007695 dimerization interface [polypeptide binding]; other site 399599007696 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 399599007697 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 399599007698 active site 399599007699 interdomain interaction site; other site 399599007700 putative metal-binding site [ion binding]; other site 399599007701 nucleotide binding site [chemical binding]; other site 399599007702 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 399599007703 domain I; other site 399599007704 DNA binding groove [nucleotide binding] 399599007705 phosphate binding site [ion binding]; other site 399599007706 domain II; other site 399599007707 domain III; other site 399599007708 nucleotide binding site [chemical binding]; other site 399599007709 catalytic site [active] 399599007710 domain IV; other site 399599007711 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 399599007712 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 399599007713 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 399599007714 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 399599007715 succinylarginine dihydrolase; Provisional; Region: PRK13281 399599007716 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 399599007717 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 399599007718 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 399599007719 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 399599007720 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 399599007721 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 399599007722 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599007723 active site 399599007724 phosphorylation site [posttranslational modification] 399599007725 intermolecular recognition site; other site 399599007726 dimerization interface [polypeptide binding]; other site 399599007727 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 399599007728 DNA binding site [nucleotide binding] 399599007729 sensor protein PhoQ; Provisional; Region: PRK10815 399599007730 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599007731 ATP binding site [chemical binding]; other site 399599007732 Mg2+ binding site [ion binding]; other site 399599007733 G-X-G motif; other site 399599007734 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 399599007735 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 399599007736 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399599007737 Zn2+ binding site [ion binding]; other site 399599007738 Mg2+ binding site [ion binding]; other site 399599007739 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 399599007740 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 399599007741 Cl binding site [ion binding]; other site 399599007742 oligomer interface [polypeptide binding]; other site 399599007743 AAA domain; Region: AAA_33; pfam13671 399599007744 NAD-dependent deacetylase; Provisional; Region: PRK00481 399599007745 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 399599007746 NAD+ binding site [chemical binding]; other site 399599007747 substrate binding site [chemical binding]; other site 399599007748 Zn binding site [ion binding]; other site 399599007749 ferric uptake regulator; Provisional; Region: fur; PRK09462 399599007750 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 399599007751 metal binding site 2 [ion binding]; metal-binding site 399599007752 putative DNA binding helix; other site 399599007753 metal binding site 1 [ion binding]; metal-binding site 399599007754 dimer interface [polypeptide binding]; other site 399599007755 structural Zn2+ binding site [ion binding]; other site 399599007756 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 399599007757 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 399599007758 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 399599007759 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 399599007760 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 399599007761 CoA binding domain; Region: CoA_binding; pfam02629 399599007762 CoA-ligase; Region: Ligase_CoA; pfam00549 399599007763 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 399599007764 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 399599007765 CoA-ligase; Region: Ligase_CoA; pfam00549 399599007766 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 399599007767 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 399599007768 E3 interaction surface; other site 399599007769 lipoyl attachment site [posttranslational modification]; other site 399599007770 e3 binding domain; Region: E3_binding; pfam02817 399599007771 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 399599007772 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 399599007773 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 399599007774 TPP-binding site [chemical binding]; other site 399599007775 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 399599007776 PYR/PP interface [polypeptide binding]; other site 399599007777 dimer interface [polypeptide binding]; other site 399599007778 TPP binding site [chemical binding]; other site 399599007779 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 399599007780 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 399599007781 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 399599007782 L-aspartate oxidase; Provisional; Region: PRK06175 399599007783 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 399599007784 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 399599007785 SdhC subunit interface [polypeptide binding]; other site 399599007786 proximal heme binding site [chemical binding]; other site 399599007787 cardiolipin binding site; other site 399599007788 Iron-sulfur protein interface; other site 399599007789 proximal quinone binding site [chemical binding]; other site 399599007790 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 399599007791 Iron-sulfur protein interface; other site 399599007792 proximal quinone binding site [chemical binding]; other site 399599007793 SdhD (CybS) interface [polypeptide binding]; other site 399599007794 proximal heme binding site [chemical binding]; other site 399599007795 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 399599007796 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 399599007797 dimer interface [polypeptide binding]; other site 399599007798 active site 399599007799 citrylCoA binding site [chemical binding]; other site 399599007800 NADH binding [chemical binding]; other site 399599007801 cationic pore residues; other site 399599007802 oxalacetate/citrate binding site [chemical binding]; other site 399599007803 coenzyme A binding site [chemical binding]; other site 399599007804 catalytic triad [active] 399599007805 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399599007806 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399599007807 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599007808 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 399599007809 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 399599007810 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 399599007811 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 399599007812 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 399599007813 putative efflux protein, MATE family; Region: matE; TIGR00797 399599007814 Ion transport protein; Region: Ion_trans; pfam00520 399599007815 Ion channel; Region: Ion_trans_2; pfam07885 399599007816 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 399599007817 putative transposase OrfB; Reviewed; Region: PHA02517 399599007818 Integrase core domain; Region: rve; pfam00665 399599007819 Integrase core domain; Region: rve_3; pfam13683 399599007820 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 399599007821 putative metal binding site [ion binding]; other site 399599007822 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 399599007823 Peptidase family M23; Region: Peptidase_M23; pfam01551 399599007824 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 399599007825 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 399599007826 Nucleoid-associated protein [General function prediction only]; Region: COG3081 399599007827 nucleoid-associated protein NdpA; Validated; Region: PRK00378 399599007828 hypothetical protein; Provisional; Region: PRK13689 399599007829 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 399599007830 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 399599007831 Sulfatase; Region: Sulfatase; cl17466 399599007832 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 399599007833 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 399599007834 active site 399599007835 FMN binding site [chemical binding]; other site 399599007836 substrate binding site [chemical binding]; other site 399599007837 homotetramer interface [polypeptide binding]; other site 399599007838 catalytic residue [active] 399599007839 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599007840 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599007841 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 399599007842 dimerization interface [polypeptide binding]; other site 399599007843 hypothetical protein; Provisional; Region: PRK02135 399599007844 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 399599007845 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599007846 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599007847 metal binding site [ion binding]; metal-binding site 399599007848 active site 399599007849 I-site; other site 399599007850 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399599007851 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 399599007852 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 399599007853 homodimer interface [polypeptide binding]; other site 399599007854 NAD binding pocket [chemical binding]; other site 399599007855 ATP binding pocket [chemical binding]; other site 399599007856 Mg binding site [ion binding]; other site 399599007857 active-site loop [active] 399599007858 inosine/guanosine kinase; Provisional; Region: PRK15074 399599007859 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 399599007860 substrate binding site [chemical binding]; other site 399599007861 ATP binding site [chemical binding]; other site 399599007862 ferrochelatase; Reviewed; Region: hemH; PRK00035 399599007863 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 399599007864 C-terminal domain interface [polypeptide binding]; other site 399599007865 active site 399599007866 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 399599007867 active site 399599007868 N-terminal domain interface [polypeptide binding]; other site 399599007869 adenylate kinase; Reviewed; Region: adk; PRK00279 399599007870 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 399599007871 AMP-binding site [chemical binding]; other site 399599007872 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 399599007873 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 399599007874 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 399599007875 heat shock protein 90; Provisional; Region: PRK05218 399599007876 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599007877 ATP binding site [chemical binding]; other site 399599007878 Mg2+ binding site [ion binding]; other site 399599007879 G-X-G motif; other site 399599007880 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 399599007881 Protein export membrane protein; Region: SecD_SecF; cl14618 399599007882 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399599007883 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399599007884 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599007885 lipoprotein; Provisional; Region: PRK11679 399599007886 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 399599007887 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 399599007888 dihydrodipicolinate synthase; Region: dapA; TIGR00674 399599007889 dimer interface [polypeptide binding]; other site 399599007890 active site 399599007891 catalytic residue [active] 399599007892 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 399599007893 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 399599007894 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 399599007895 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 399599007896 catalytic triad [active] 399599007897 Lysine efflux permease [General function prediction only]; Region: COG1279 399599007898 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 399599007899 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599007900 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 399599007901 putative dimerization interface [polypeptide binding]; other site 399599007902 heat shock protein HtpX; Provisional; Region: PRK05457 399599007903 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 399599007904 active site pocket [active] 399599007905 oxyanion hole [active] 399599007906 catalytic triad [active] 399599007907 active site nucleophile [active] 399599007908 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 399599007909 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 399599007910 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 399599007911 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 399599007912 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 399599007913 GIY-YIG motif/motif A; other site 399599007914 active site 399599007915 catalytic site [active] 399599007916 putative DNA binding site [nucleotide binding]; other site 399599007917 metal binding site [ion binding]; metal-binding site 399599007918 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 399599007919 response regulator; Provisional; Region: PRK09483 399599007920 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599007921 active site 399599007922 phosphorylation site [posttranslational modification] 399599007923 intermolecular recognition site; other site 399599007924 dimerization interface [polypeptide binding]; other site 399599007925 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 399599007926 DNA binding residues [nucleotide binding] 399599007927 dimerization interface [polypeptide binding]; other site 399599007928 Cache domain; Region: Cache_1; pfam02743 399599007929 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 399599007930 dimerization interface [polypeptide binding]; other site 399599007931 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599007932 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599007933 dimer interface [polypeptide binding]; other site 399599007934 putative CheW interface [polypeptide binding]; other site 399599007935 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 399599007936 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 399599007937 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 399599007938 active site 1 [active] 399599007939 dimer interface [polypeptide binding]; other site 399599007940 active site 2 [active] 399599007941 ribosome modulation factor; Provisional; Region: PRK14563 399599007942 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 399599007943 ABC transporter ATPase component; Reviewed; Region: PRK11147 399599007944 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399599007945 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399599007946 ABC transporter; Region: ABC_tran_2; pfam12848 399599007947 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399599007948 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 399599007949 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 399599007950 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 399599007951 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 399599007952 S-adenosylmethionine binding site [chemical binding]; other site 399599007953 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 399599007954 S-adenosylmethionine binding site [chemical binding]; other site 399599007955 putative acetyltransferase YhhY; Provisional; Region: PRK10140 399599007956 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599007957 Coenzyme A binding pocket [chemical binding]; other site 399599007958 recombination protein RecR; Reviewed; Region: recR; PRK00076 399599007959 RecR protein; Region: RecR; pfam02132 399599007960 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 399599007961 putative active site [active] 399599007962 putative metal-binding site [ion binding]; other site 399599007963 tetramer interface [polypeptide binding]; other site 399599007964 hypothetical protein; Validated; Region: PRK00153 399599007965 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 399599007966 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 399599007967 Walker A motif; other site 399599007968 ATP binding site [chemical binding]; other site 399599007969 Walker B motif; other site 399599007970 DNA polymerase III subunit delta'; Validated; Region: PRK08485 399599007971 arginine finger; other site 399599007972 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 399599007973 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 399599007974 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 399599007975 active site 399599007976 hypothetical protein; Provisional; Region: PRK10527 399599007977 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 399599007978 hypothetical protein; Provisional; Region: PRK05409 399599007979 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 399599007980 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 399599007981 FMN binding site [chemical binding]; other site 399599007982 active site 399599007983 catalytic residues [active] 399599007984 substrate binding site [chemical binding]; other site 399599007985 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 399599007986 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 399599007987 N-terminal plug; other site 399599007988 ligand-binding site [chemical binding]; other site 399599007989 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 399599007990 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 399599007991 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 399599007992 active site 399599007993 metal binding site [ion binding]; metal-binding site 399599007994 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 399599007995 putative hydrolase; Provisional; Region: PRK11460 399599007996 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 399599007997 Protein of unknown function (DUF3389); Region: DUF3389; pfam11869 399599007998 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 399599007999 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 399599008000 active site 399599008001 Zn binding site [ion binding]; other site 399599008002 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 399599008003 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 399599008004 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 399599008005 Transglycosylase SLT domain; Region: SLT_2; pfam13406 399599008006 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 399599008007 N-acetyl-D-glucosamine binding site [chemical binding]; other site 399599008008 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 399599008009 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 399599008010 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 399599008011 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399599008012 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599008013 active site 399599008014 phosphorylation site [posttranslational modification] 399599008015 intermolecular recognition site; other site 399599008016 dimerization interface [polypeptide binding]; other site 399599008017 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 399599008018 S-adenosylmethionine binding site [chemical binding]; other site 399599008019 Uncharacterized protein, similar to the N-terminal domain of Lon protease [General function prediction only]; Region: COG2802 399599008020 RNA polymerase sigma factor; Provisional; Region: PRK11924 399599008021 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399599008022 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 399599008023 DNA binding residues [nucleotide binding] 399599008024 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 399599008025 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 399599008026 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 399599008027 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 399599008028 hypothetical protein; Provisional; Region: PRK11770 399599008029 Domain of unknown function (DUF307); Region: DUF307; pfam03733 399599008030 Domain of unknown function (DUF307); Region: DUF307; pfam03733 399599008031 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 399599008032 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 399599008033 putative active site [active] 399599008034 Zn binding site [ion binding]; other site 399599008035 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 399599008036 membrane-bound complex binding site; other site 399599008037 hinge residues; other site 399599008038 AMP-binding domain protein; Validated; Region: PRK08315 399599008039 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 399599008040 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 399599008041 acyl-activating enzyme (AAE) consensus motif; other site 399599008042 putative AMP binding site [chemical binding]; other site 399599008043 putative active site [active] 399599008044 putative CoA binding site [chemical binding]; other site 399599008045 Uncharacterized conserved protein [Function unknown]; Region: COG2947 399599008046 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 399599008047 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 399599008048 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 399599008049 Mitochondrial biogenesis AIM24; Region: AIM24; pfam01987 399599008050 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599008051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599008052 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 399599008053 dimerization interface [polypeptide binding]; other site 399599008054 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 399599008055 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 399599008056 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 399599008057 dimer interface [polypeptide binding]; other site 399599008058 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 399599008059 active site 399599008060 Fe binding site [ion binding]; other site 399599008061 maltose O-acetyltransferase; Provisional; Region: PRK10092 399599008062 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 399599008063 active site 399599008064 substrate binding site [chemical binding]; other site 399599008065 trimer interface [polypeptide binding]; other site 399599008066 CoA binding site [chemical binding]; other site 399599008067 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 399599008068 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 399599008069 Protein of unknown function, DUF482; Region: DUF482; pfam04339 399599008070 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 399599008071 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 399599008072 Protein of unknown function (DUF998); Region: DUF998; pfam06197 399599008073 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 399599008074 Putative transposase; Region: Y2_Tnp; pfam04986 399599008075 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 399599008076 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 399599008077 Int/Topo IB signature motif; other site 399599008078 hypothetical protein; Provisional; Region: PRK06156 399599008079 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 399599008080 active site 399599008081 metal binding site [ion binding]; metal-binding site 399599008082 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 399599008083 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 399599008084 active site 399599008085 Zn binding site [ion binding]; other site 399599008086 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 399599008087 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599008088 Coenzyme A binding pocket [chemical binding]; other site 399599008089 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 399599008090 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 399599008091 active site 399599008092 Zn binding site [ion binding]; other site 399599008093 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 399599008094 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 399599008095 active site 399599008096 metal binding site [ion binding]; metal-binding site 399599008097 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 399599008098 hypothetical protein; Provisional; Region: PRK03641 399599008099 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 399599008100 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 399599008101 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 399599008102 active site 399599008103 motif I; other site 399599008104 motif II; other site 399599008105 Transcriptional regulators [Transcription]; Region: GntR; COG1802 399599008106 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399599008107 DNA-binding site [nucleotide binding]; DNA binding site 399599008108 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 399599008109 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 399599008110 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 399599008111 dimer interface [polypeptide binding]; other site 399599008112 active site 399599008113 CoA binding pocket [chemical binding]; other site 399599008114 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 399599008115 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 399599008116 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 399599008117 active site 399599008118 catalytic site [active] 399599008119 substrate binding site [chemical binding]; other site 399599008120 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 399599008121 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 399599008122 ligand binding site [chemical binding]; other site 399599008123 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 399599008124 flexible hinge region; other site 399599008125 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 399599008126 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 399599008127 metal binding triad; other site 399599008128 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 399599008129 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 399599008130 Na binding site [ion binding]; other site 399599008131 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 399599008132 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 399599008133 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 399599008134 catalytic residues [active] 399599008135 hinge region; other site 399599008136 alpha helical domain; other site 399599008137 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 399599008138 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 399599008139 putative NAD(P) binding site [chemical binding]; other site 399599008140 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 399599008141 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 399599008142 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399599008143 Zn2+ binding site [ion binding]; other site 399599008144 Mg2+ binding site [ion binding]; other site 399599008145 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 399599008146 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 399599008147 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 399599008148 nucleotide binding pocket [chemical binding]; other site 399599008149 K-X-D-G motif; other site 399599008150 catalytic site [active] 399599008151 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 399599008152 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 399599008153 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 399599008154 Dimer interface [polypeptide binding]; other site 399599008155 cell division protein ZipA; Provisional; Region: PRK03427 399599008156 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 399599008157 FtsZ protein binding site [polypeptide binding]; other site 399599008158 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 399599008159 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 399599008160 Walker A/P-loop; other site 399599008161 ATP binding site [chemical binding]; other site 399599008162 Q-loop/lid; other site 399599008163 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 399599008164 ABC transporter signature motif; other site 399599008165 Walker B; other site 399599008166 D-loop; other site 399599008167 H-loop/switch region; other site 399599008168 putative sulfate transport protein CysZ; Validated; Region: PRK04949 399599008169 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 399599008170 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 399599008171 active site 399599008172 RDD family; Region: RDD; pfam06271 399599008173 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 399599008174 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 399599008175 dimer interface [polypeptide binding]; other site 399599008176 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599008177 catalytic residue [active] 399599008178 Methyltransferase domain; Region: Methyltransf_18; pfam12847 399599008179 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 399599008180 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 399599008181 gating phenylalanine in ion channel; other site 399599008182 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 399599008183 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 399599008184 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 399599008185 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 399599008186 formate transporter FocA; Region: formate_focA; TIGR04060 399599008187 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 399599008188 Pyruvate formate lyase 1; Region: PFL1; cd01678 399599008189 coenzyme A binding site [chemical binding]; other site 399599008190 active site 399599008191 catalytic residues [active] 399599008192 glycine loop; other site 399599008193 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 399599008194 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 399599008195 FeS/SAM binding site; other site 399599008196 Protein of unknown function, DUF412; Region: DUF412; pfam04217 399599008197 propionate/acetate kinase; Provisional; Region: PRK12379 399599008198 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 399599008199 nucleotide binding site [chemical binding]; other site 399599008200 butyrate kinase; Provisional; Region: PRK03011 399599008201 phosphate acetyltransferase; Reviewed; Region: PRK05632 399599008202 DRTGG domain; Region: DRTGG; pfam07085 399599008203 phosphate acetyltransferase; Region: pta; TIGR00651 399599008204 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 399599008205 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 399599008206 S-adenosylmethionine binding site [chemical binding]; other site 399599008207 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 399599008208 Domain of unknown function DUF20; Region: UPF0118; pfam01594 399599008209 D-erythro-7,8-dihydroneopterin triphosphate 2'-epimerase; Provisional; Region: folX; PRK11245 399599008210 active site 399599008211 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 399599008212 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 399599008213 putative NAD(P) binding site [chemical binding]; other site 399599008214 putative active site [active] 399599008215 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 399599008216 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 399599008217 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 399599008218 Catalytic site [active] 399599008219 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 399599008220 FtsX-like permease family; Region: FtsX; pfam02687 399599008221 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 399599008222 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 399599008223 Walker A/P-loop; other site 399599008224 ATP binding site [chemical binding]; other site 399599008225 Q-loop/lid; other site 399599008226 ABC transporter signature motif; other site 399599008227 Walker B; other site 399599008228 D-loop; other site 399599008229 H-loop/switch region; other site 399599008230 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 399599008231 active site 399599008232 catalytic triad [active] 399599008233 oxyanion hole [active] 399599008234 switch loop; other site 399599008235 Protein of unknown function (DUF3083); Region: DUF3083; pfam11281 399599008236 Bacterial virulence protein (VirJ); Region: VirJ; pfam06057 399599008237 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399599008238 Predicted integral membrane protein [Function unknown]; Region: COG0392 399599008239 Uncharacterized conserved protein [Function unknown]; Region: COG2898 399599008240 Uncharacterized conserved protein (DUF2156); Region: DUF2156; pfam09924 399599008241 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 399599008242 putative inner membrane peptidase; Provisional; Region: PRK11778 399599008243 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 399599008244 tandem repeat interface [polypeptide binding]; other site 399599008245 oligomer interface [polypeptide binding]; other site 399599008246 active site residues [active] 399599008247 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 399599008248 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 399599008249 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 399599008250 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399599008251 NAD(P) binding site [chemical binding]; other site 399599008252 active site 399599008253 Integrase core domain; Region: rve; pfam00665 399599008254 Integrase core domain; Region: rve_3; pfam13683 399599008255 BNR repeat-like domain; Region: BNR_2; pfam13088 399599008256 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 399599008257 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 399599008258 RNA binding surface [nucleotide binding]; other site 399599008259 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 399599008260 probable active site [active] 399599008261 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 399599008262 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 399599008263 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 399599008264 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 399599008265 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 399599008266 active site 399599008267 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 399599008268 anthranilate synthase component I; Provisional; Region: PRK13564 399599008269 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 399599008270 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 399599008271 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 399599008272 glutamine binding [chemical binding]; other site 399599008273 catalytic triad [active] 399599008274 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 399599008275 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 399599008276 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 399599008277 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 399599008278 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 399599008279 active site 399599008280 ribulose/triose binding site [chemical binding]; other site 399599008281 phosphate binding site [ion binding]; other site 399599008282 substrate (anthranilate) binding pocket [chemical binding]; other site 399599008283 product (indole) binding pocket [chemical binding]; other site 399599008284 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 399599008285 active site 399599008286 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 399599008287 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 399599008288 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599008289 catalytic residue [active] 399599008290 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 399599008291 substrate binding site [chemical binding]; other site 399599008292 active site 399599008293 catalytic residues [active] 399599008294 heterodimer interface [polypeptide binding]; other site 399599008295 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 399599008296 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 399599008297 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 399599008298 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 399599008299 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 399599008300 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 399599008301 IucA / IucC family; Region: IucA_IucC; pfam04183 399599008302 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 399599008303 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 399599008304 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 399599008305 N-terminal plug; other site 399599008306 ligand-binding site [chemical binding]; other site 399599008307 siderophore-iron reductase FhuF; Region: Fe_III_red_FhuF; TIGR03951 399599008308 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 399599008309 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 399599008310 intracellular septation protein A; Reviewed; Region: PRK00259 399599008311 YciI-like protein; Reviewed; Region: PRK11370 399599008312 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 399599008313 putative catalytic site [active] 399599008314 putative phosphate binding site [ion binding]; other site 399599008315 active site 399599008316 metal binding site A [ion binding]; metal-binding site 399599008317 DNA binding site [nucleotide binding] 399599008318 putative AP binding site [nucleotide binding]; other site 399599008319 putative metal binding site B [ion binding]; other site 399599008320 putative transposase OrfB; Reviewed; Region: PHA02517 399599008321 HTH-like domain; Region: HTH_21; pfam13276 399599008322 Integrase core domain; Region: rve; pfam00665 399599008323 Integrase core domain; Region: rve_2; pfam13333 399599008324 Transposase; Region: HTH_Tnp_1; pfam01527 399599008325 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599008326 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 399599008327 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599008328 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599008329 dimer interface [polypeptide binding]; other site 399599008330 putative CheW interface [polypeptide binding]; other site 399599008331 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 399599008332 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 399599008333 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 399599008334 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 399599008335 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 399599008336 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 399599008337 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 399599008338 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 399599008339 catalytic loop [active] 399599008340 iron binding site [ion binding]; other site 399599008341 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 399599008342 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 399599008343 Ligand binding site; other site 399599008344 metal-binding site 399599008345 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 399599008346 XdhC Rossmann domain; Region: XdhC_C; pfam13478 399599008347 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 399599008348 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 399599008349 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599008350 dimer interface [polypeptide binding]; other site 399599008351 putative CheW interface [polypeptide binding]; other site 399599008352 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 399599008353 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 399599008354 DNA topoisomerase III; Provisional; Region: PRK07726 399599008355 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 399599008356 active site 399599008357 putative interdomain interaction site [polypeptide binding]; other site 399599008358 putative metal-binding site [ion binding]; other site 399599008359 putative nucleotide binding site [chemical binding]; other site 399599008360 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 399599008361 domain I; other site 399599008362 DNA binding groove [nucleotide binding] 399599008363 phosphate binding site [ion binding]; other site 399599008364 domain II; other site 399599008365 domain III; other site 399599008366 nucleotide binding site [chemical binding]; other site 399599008367 catalytic site [active] 399599008368 domain IV; other site 399599008369 amidophosphoribosyltransferase; Provisional; Region: PRK09246 399599008370 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 399599008371 active site 399599008372 tetramer interface [polypeptide binding]; other site 399599008373 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 399599008374 active site 399599008375 Colicin V production protein; Region: Colicin_V; cl00567 399599008376 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 399599008377 Sporulation related domain; Region: SPOR; pfam05036 399599008378 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 399599008379 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 399599008380 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 399599008381 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 399599008382 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 399599008383 dimerization interface 3.5A [polypeptide binding]; other site 399599008384 active site 399599008385 FimV N-terminal domain; Region: FimV_core; TIGR03505 399599008386 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 399599008387 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 399599008388 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 399599008389 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 399599008390 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 399599008391 ligand binding site [chemical binding]; other site 399599008392 NAD binding site [chemical binding]; other site 399599008393 catalytic site [active] 399599008394 homodimer interface [polypeptide binding]; other site 399599008395 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 399599008396 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 399599008397 dimer interface [polypeptide binding]; other site 399599008398 active site 399599008399 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 399599008400 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 399599008401 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 399599008402 YfcL protein; Region: YfcL; pfam08891 399599008403 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 399599008404 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599008405 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 399599008406 putative substrate translocation pore; other site 399599008407 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 399599008408 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 399599008409 Tetramer interface [polypeptide binding]; other site 399599008410 active site 399599008411 FMN-binding site [chemical binding]; other site 399599008412 HemK family putative methylases; Region: hemK_fam; TIGR00536 399599008413 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 399599008414 S-adenosylmethionine binding site [chemical binding]; other site 399599008415 hypothetical protein; Provisional; Region: PRK04946 399599008416 Smr domain; Region: Smr; pfam01713 399599008417 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 399599008418 catalytic core [active] 399599008419 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 399599008420 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 399599008421 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 399599008422 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 399599008423 Two component regulator propeller; Region: Reg_prop; pfam07494 399599008424 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 399599008425 PAS fold; Region: PAS_3; pfam08447 399599008426 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 399599008427 PAS domain; Region: PAS_9; pfam13426 399599008428 putative active site [active] 399599008429 heme pocket [chemical binding]; other site 399599008430 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599008431 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599008432 metal binding site [ion binding]; metal-binding site 399599008433 active site 399599008434 I-site; other site 399599008435 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 399599008436 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 399599008437 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 399599008438 substrate binding site [chemical binding]; other site 399599008439 oxyanion hole (OAH) forming residues; other site 399599008440 trimer interface [polypeptide binding]; other site 399599008441 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 399599008442 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 399599008443 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 399599008444 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 399599008445 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 399599008446 dimer interface [polypeptide binding]; other site 399599008447 active site 399599008448 MoxR-like ATPases [General function prediction only]; Region: COG0714 399599008449 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 399599008450 Walker A motif; other site 399599008451 ATP binding site [chemical binding]; other site 399599008452 Walker B motif; other site 399599008453 arginine finger; other site 399599008454 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 399599008455 Protein of unknown function DUF58; Region: DUF58; pfam01882 399599008456 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 399599008457 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2304 399599008458 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 399599008459 metal ion-dependent adhesion site (MIDAS); other site 399599008460 von Willebrand factor type A domain; Region: VWA_2; pfam13519 399599008461 metal ion-dependent adhesion site (MIDAS); other site 399599008462 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 399599008463 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 399599008464 binding surface 399599008465 TPR motif; other site 399599008466 Oxygen tolerance; Region: BatD; pfam13584 399599008467 RNA polymerase sigma factor; Provisional; Region: PRK12517 399599008468 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399599008469 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 399599008470 DNA binding residues [nucleotide binding] 399599008471 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 399599008472 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 399599008473 Na binding site [ion binding]; other site 399599008474 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 399599008475 Glyoxalase-like domain; Region: Glyoxalase_2; pfam12681 399599008476 active site 399599008477 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 399599008478 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399599008479 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399599008480 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599008481 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 399599008482 Protein export membrane protein; Region: SecD_SecF; cl14618 399599008483 Protein export membrane protein; Region: SecD_SecF; cl14618 399599008484 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 399599008485 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 399599008486 active site residue [active] 399599008487 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 399599008488 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599008489 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 399599008490 Coenzyme A binding pocket [chemical binding]; other site 399599008491 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 399599008492 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 399599008493 active site 399599008494 catalytic residues [active] 399599008495 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 399599008496 PA/subtilisin-like domain interface [polypeptide binding]; other site 399599008497 Subtilase family; Region: Peptidase_S8; pfam00082 399599008498 catalytic residues [active] 399599008499 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 399599008500 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 399599008501 YaeQ protein; Region: YaeQ; pfam07152 399599008502 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 399599008503 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 399599008504 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 399599008505 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 399599008506 active site residue [active] 399599008507 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 399599008508 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 399599008509 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 399599008510 Protein export membrane protein; Region: SecD_SecF; pfam02355 399599008511 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 399599008512 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 399599008513 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 399599008514 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 399599008515 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 399599008516 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 399599008517 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 399599008518 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 399599008519 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 399599008520 Protein of unknown function, DUF479; Region: DUF479; pfam04336 399599008521 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 399599008522 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 399599008523 active site 399599008524 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 399599008525 tail protein; Provisional; Region: D; PHA02561 399599008526 Phage P2 GpU; Region: Phage_P2_GpU; pfam06995 399599008527 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 399599008528 glucans biosynthesis protein; Provisional; Region: opgC; PRK03854 399599008529 MgtE intracellular N domain; Region: MgtE_N; cl15244 399599008530 MgtE intracellular N domain; Region: MgtE_N; cl15244 399599008531 Phage P2 GpE; Region: Phage_P2_GpE; pfam06528 399599008532 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 399599008533 Phage tail tube protein FII; Region: Phage_tube; cl01390 399599008534 major tail sheath protein; Provisional; Region: FI; PHA02560 399599008535 Uncharacterized conserved protein [Function unknown]; Region: COG1262 399599008536 Phage-related tail fibre protein [General function prediction only]; Region: COG5301 399599008537 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; pfam09684 399599008538 Baseplate J-like protein; Region: Baseplate_J; cl01294 399599008539 Gene 25-like lysozyme; Region: GPW_gp25; cl01403 399599008540 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 399599008541 Phage-related baseplate assembly protein; Region: Phage_base_V; cl17812 399599008542 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599008543 Walker A/P-loop; other site 399599008544 ATP binding site [chemical binding]; other site 399599008545 TIGR02646 family protein; Region: TIGR02646 399599008546 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 399599008547 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 399599008548 phage lysis regulatory protein, LysB family; Region: phage_LysB; TIGR03495 399599008549 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 399599008550 Protein of unknown function (DUF3380); Region: DUF3380; pfam11860 399599008551 Protein of unknown function (DUF754); Region: DUF754; pfam05449 399599008552 Phage Tail Protein X; Region: Phage_tail_X; cl02088 399599008553 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 399599008554 terminase endonuclease subunit; Provisional; Region: M; PHA02537 399599008555 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 399599008556 capsid protein; Provisional; Region: N; PHA02538 399599008557 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 399599008558 terminase ATPase subunit; Provisional; Region: P; PHA02535 399599008559 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 399599008560 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 399599008561 Phage-related protein [Function unknown]; Region: COG4695; cl01923 399599008562 Phage portal protein; Region: Phage_portal; pfam04860 399599008563 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; pfam09954 399599008564 Adhesin biosynthesis transcription regulatory protein; Region: PapB; cl04012 399599008565 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 399599008566 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 399599008567 non-specific DNA binding site [nucleotide binding]; other site 399599008568 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 399599008569 salt bridge; other site 399599008570 sequence-specific DNA binding site [nucleotide binding]; other site 399599008571 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 399599008572 Catalytic site [active] 399599008573 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 399599008574 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 399599008575 integrase; Provisional; Region: int; PHA02601 399599008576 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 399599008577 active site 399599008578 DNA binding site [nucleotide binding] 399599008579 Int/Topo IB signature motif; other site 399599008580 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 399599008581 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 399599008582 serine/threonine transporter SstT; Provisional; Region: PRK13628 399599008583 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 399599008584 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 399599008585 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399599008586 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599008587 active site 399599008588 phosphorylation site [posttranslational modification] 399599008589 intermolecular recognition site; other site 399599008590 dimerization interface [polypeptide binding]; other site 399599008591 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 399599008592 active site 399599008593 catalytic residues [active] 399599008594 helicase 45; Provisional; Region: PTZ00424 399599008595 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 399599008596 ATP binding site [chemical binding]; other site 399599008597 Mg++ binding site [ion binding]; other site 399599008598 motif III; other site 399599008599 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 399599008600 nucleotide binding region [chemical binding]; other site 399599008601 ATP-binding site [chemical binding]; other site 399599008602 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 399599008603 DNA binding site [nucleotide binding] 399599008604 active site 399599008605 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 399599008606 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 399599008607 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399599008608 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399599008609 AlkA N-terminal domain; Region: AlkA_N; pfam06029 399599008610 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 399599008611 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 399599008612 minor groove reading motif; other site 399599008613 helix-hairpin-helix signature motif; other site 399599008614 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 399599008615 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 399599008616 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 399599008617 Walker A/P-loop; other site 399599008618 ATP binding site [chemical binding]; other site 399599008619 Q-loop/lid; other site 399599008620 ABC transporter signature motif; other site 399599008621 Walker B; other site 399599008622 D-loop; other site 399599008623 H-loop/switch region; other site 399599008624 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 399599008625 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 399599008626 active site 399599008627 Int/Topo IB signature motif; other site 399599008628 DNA binding site [nucleotide binding] 399599008629 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 399599008630 multiple promoter invertase; Provisional; Region: mpi; PRK13413 399599008631 catalytic residues [active] 399599008632 catalytic nucleophile [active] 399599008633 Presynaptic Site I dimer interface [polypeptide binding]; other site 399599008634 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 399599008635 Synaptic Flat tetramer interface [polypeptide binding]; other site 399599008636 Synaptic Site I dimer interface [polypeptide binding]; other site 399599008637 DNA binding site [nucleotide binding] 399599008638 Homeodomain-like domain; Region: HTH_23; pfam13384 399599008639 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 399599008640 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 399599008641 active site 399599008642 HIGH motif; other site 399599008643 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 399599008644 active site 399599008645 KMSKS motif; other site 399599008646 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 399599008647 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 399599008648 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 399599008649 DctM-like transporters; Region: DctM; pfam06808 399599008650 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 399599008651 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 399599008652 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 399599008653 dimer interface [polypeptide binding]; other site 399599008654 phosphorylation site [posttranslational modification] 399599008655 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599008656 ATP binding site [chemical binding]; other site 399599008657 Mg2+ binding site [ion binding]; other site 399599008658 G-X-G motif; other site 399599008659 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 399599008660 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599008661 active site 399599008662 phosphorylation site [posttranslational modification] 399599008663 intermolecular recognition site; other site 399599008664 dimerization interface [polypeptide binding]; other site 399599008665 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 399599008666 Walker A motif; other site 399599008667 ATP binding site [chemical binding]; other site 399599008668 Walker B motif; other site 399599008669 arginine finger; other site 399599008670 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399599008671 Protein of unknown function, DUF606; Region: DUF606; pfam04657 399599008672 Protein of unknown function, DUF606; Region: DUF606; pfam04657 399599008673 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599008674 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599008675 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 399599008676 putative effector binding pocket; other site 399599008677 dimerization interface [polypeptide binding]; other site 399599008678 Major Facilitator Superfamily; Region: MFS_1; pfam07690 399599008679 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599008680 putative substrate translocation pore; other site 399599008681 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599008682 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599008683 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 399599008684 dimerization interface [polypeptide binding]; other site 399599008685 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 399599008686 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 399599008687 active site 399599008688 catalytic triad [active] 399599008689 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 399599008690 PA/protease or protease-like domain interface [polypeptide binding]; other site 399599008691 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 399599008692 catalytic residues [active] 399599008693 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 399599008694 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 399599008695 acyl-CoA thioesterase II; Provisional; Region: PRK10526 399599008696 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 399599008697 active site 399599008698 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 399599008699 catalytic triad [active] 399599008700 dimer interface [polypeptide binding]; other site 399599008701 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 399599008702 classical (c) SDRs; Region: SDR_c; cd05233 399599008703 NAD(P) binding site [chemical binding]; other site 399599008704 active site 399599008705 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 399599008706 UbiA prenyltransferase family; Region: UbiA; pfam01040 399599008707 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 399599008708 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 399599008709 putative active site [active] 399599008710 metal binding site [ion binding]; metal-binding site 399599008711 DoxX-like family; Region: DoxX_2; pfam13564 399599008712 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599008713 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599008714 LysR substrate binding domain; Region: LysR_substrate; pfam03466 399599008715 dimerization interface [polypeptide binding]; other site 399599008716 Peptidase S8 family domain in Protein convertases; Region: Peptidases_S8_Protein_convertases_Kexins_Furin-lik; cd04059 399599008717 calcium binding site 1 [ion binding]; other site 399599008718 active site 399599008719 catalytic triad [active] 399599008720 calcium binding site 2 [ion binding]; other site 399599008721 calcium binding site 3 [ion binding]; other site 399599008722 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 399599008723 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 399599008724 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 399599008725 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 399599008726 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 399599008727 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 399599008728 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 399599008729 acyl-activating enzyme (AAE) consensus motif; other site 399599008730 AMP binding site [chemical binding]; other site 399599008731 active site 399599008732 CoA binding site [chemical binding]; other site 399599008733 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 399599008734 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 399599008735 DNA binding residues [nucleotide binding] 399599008736 putative dimer interface [polypeptide binding]; other site 399599008737 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 399599008738 isovaleryl-CoA dehydrogenase; Region: PLN02519 399599008739 substrate binding site [chemical binding]; other site 399599008740 FAD binding site [chemical binding]; other site 399599008741 catalytic base [active] 399599008742 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 399599008743 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 399599008744 enoyl-CoA hydratase; Provisional; Region: PRK05995 399599008745 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 399599008746 substrate binding site [chemical binding]; other site 399599008747 oxyanion hole (OAH) forming residues; other site 399599008748 trimer interface [polypeptide binding]; other site 399599008749 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 399599008750 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 399599008751 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 399599008752 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 399599008753 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 399599008754 carboxyltransferase (CT) interaction site; other site 399599008755 biotinylation site [posttranslational modification]; other site 399599008756 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 399599008757 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 399599008758 active site 399599008759 catalytic residues [active] 399599008760 metal binding site [ion binding]; metal-binding site 399599008761 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 399599008762 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 399599008763 Putative amidotransferase; Region: DUF4066; pfam13278 399599008764 conserved cys residue [active] 399599008765 Arginine repressor [Transcription]; Region: ArgR; COG1438 399599008766 hypothetical protein; Provisional; Region: PRK10621 399599008767 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 399599008768 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 399599008769 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 399599008770 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 399599008771 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 399599008772 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 399599008773 putative active site [active] 399599008774 putative NTP binding site [chemical binding]; other site 399599008775 putative nucleic acid binding site [nucleotide binding]; other site 399599008776 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 399599008777 Transposase; Region: HTH_Tnp_1; pfam01527 399599008778 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599008779 putative transposase OrfB; Reviewed; Region: PHA02517 399599008780 HTH-like domain; Region: HTH_21; pfam13276 399599008781 Integrase core domain; Region: rve; pfam00665 399599008782 Integrase core domain; Region: rve_2; pfam13333 399599008783 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 399599008784 Transglycosylase; Region: Transgly; cl17702 399599008785 thymidine kinase; Provisional; Region: PRK04296 399599008786 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 399599008787 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 399599008788 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 399599008789 active site 399599008790 Zn binding site [ion binding]; other site 399599008791 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 399599008792 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 399599008793 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 399599008794 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 399599008795 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 399599008796 Ligand binding site [chemical binding]; other site 399599008797 Electron transfer flavoprotein domain; Region: ETF; pfam01012 399599008798 H-NS histone family; Region: Histone_HNS; pfam00816 399599008799 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 399599008800 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 399599008801 active site 399599008802 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 399599008803 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 399599008804 active site 399599008805 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 399599008806 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 399599008807 active site 399599008808 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 399599008809 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 399599008810 homodimer interaction site [polypeptide binding]; other site 399599008811 cofactor binding site; other site 399599008812 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 399599008813 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 399599008814 trimer interface [polypeptide binding]; other site 399599008815 active site 399599008816 substrate binding site [chemical binding]; other site 399599008817 CoA binding site [chemical binding]; other site 399599008818 prolyl-tRNA synthetase; Provisional; Region: PRK09194 399599008819 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 399599008820 dimer interface [polypeptide binding]; other site 399599008821 motif 1; other site 399599008822 active site 399599008823 motif 2; other site 399599008824 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 399599008825 putative deacylase active site [active] 399599008826 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 399599008827 active site 399599008828 motif 3; other site 399599008829 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 399599008830 anticodon binding site; other site 399599008831 Cupin domain; Region: Cupin_2; cl17218 399599008832 Helix-turn-helix domain; Region: HTH_18; pfam12833 399599008833 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399599008834 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 399599008835 active site 399599008836 oligomerization interface [polypeptide binding]; other site 399599008837 metal binding site [ion binding]; metal-binding site 399599008838 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 399599008839 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 399599008840 nucleophile elbow; other site 399599008841 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 399599008842 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 399599008843 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 399599008844 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 399599008845 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 399599008846 active site 399599008847 FMN binding site [chemical binding]; other site 399599008848 substrate binding site [chemical binding]; other site 399599008849 homotetramer interface [polypeptide binding]; other site 399599008850 catalytic residue [active] 399599008851 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 399599008852 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 399599008853 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 399599008854 substrate binding site; other site 399599008855 tetramer interface; other site 399599008856 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 399599008857 GAF domain; Region: GAF; pfam01590 399599008858 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399599008859 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599008860 ATP binding site [chemical binding]; other site 399599008861 Mg2+ binding site [ion binding]; other site 399599008862 G-X-G motif; other site 399599008863 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399599008864 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 399599008865 active site 399599008866 phosphorylation site [posttranslational modification] 399599008867 intermolecular recognition site; other site 399599008868 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 399599008869 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 399599008870 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399599008871 Zn2+ binding site [ion binding]; other site 399599008872 Mg2+ binding site [ion binding]; other site 399599008873 NlpE N-terminal domain; Region: NlpE; pfam04170 399599008874 HutD; Region: HutD; pfam05962 399599008875 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 399599008876 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 399599008877 NAD binding site [chemical binding]; other site 399599008878 substrate binding site [chemical binding]; other site 399599008879 homodimer interface [polypeptide binding]; other site 399599008880 active site 399599008881 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 399599008882 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 399599008883 active site 399599008884 substrate binding site [chemical binding]; other site 399599008885 metal binding site [ion binding]; metal-binding site 399599008886 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 399599008887 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 399599008888 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 399599008889 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 399599008890 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 399599008891 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 399599008892 active site 399599008893 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 399599008894 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 399599008895 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 399599008896 active site 399599008897 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 399599008898 putative trimer interface [polypeptide binding]; other site 399599008899 putative CoA binding site [chemical binding]; other site 399599008900 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 399599008901 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 399599008902 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 399599008903 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 399599008904 inhibitor-cofactor binding pocket; inhibition site 399599008905 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599008906 catalytic residue [active] 399599008907 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 399599008908 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 399599008909 putative trimer interface [polypeptide binding]; other site 399599008910 putative active site [active] 399599008911 putative substrate binding site [chemical binding]; other site 399599008912 putative CoA binding site [chemical binding]; other site 399599008913 WxcM-like, C-terminal; Region: FdtA; pfam05523 399599008914 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 399599008915 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 399599008916 substrate binding site; other site 399599008917 tetramer interface; other site 399599008918 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 399599008919 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 399599008920 NAD binding site [chemical binding]; other site 399599008921 substrate binding site [chemical binding]; other site 399599008922 homodimer interface [polypeptide binding]; other site 399599008923 active site 399599008924 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 399599008925 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 399599008926 active site 399599008927 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 399599008928 Bacterial sugar transferase; Region: Bac_transf; pfam02397 399599008929 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 399599008930 Chain length determinant protein; Region: Wzz; pfam02706 399599008931 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 399599008932 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 399599008933 four helix bundle protein; Region: TIGR02436 399599008934 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 399599008935 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 399599008936 SLBB domain; Region: SLBB; pfam10531 399599008937 SLBB domain; Region: SLBB; pfam10531 399599008938 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 399599008939 SLBB domain; Region: SLBB; pfam10531 399599008940 SLBB domain; Region: SLBB; pfam10531 399599008941 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 399599008942 transcriptional activator RfaH; Region: RfaH; TIGR01955 399599008943 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 399599008944 heterodimer interface [polypeptide binding]; other site 399599008945 homodimer interface [polypeptide binding]; other site 399599008946 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 399599008947 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599008948 putative substrate translocation pore; other site 399599008949 Response regulator receiver domain; Region: Response_reg; pfam00072 399599008950 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599008951 active site 399599008952 phosphorylation site [posttranslational modification] 399599008953 intermolecular recognition site; other site 399599008954 dimerization interface [polypeptide binding]; other site 399599008955 VacJ like lipoprotein; Region: VacJ; cl01073 399599008956 Flagellar hook-length control protein FliK; Region: Flg_hook; cl17777 399599008957 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 399599008958 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 399599008959 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 399599008960 putative CheA interaction surface; other site 399599008961 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 399599008962 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 399599008963 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 399599008964 P-loop; other site 399599008965 Magnesium ion binding site [ion binding]; other site 399599008966 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 399599008967 Magnesium ion binding site [ion binding]; other site 399599008968 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 399599008969 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599008970 active site 399599008971 phosphorylation site [posttranslational modification] 399599008972 intermolecular recognition site; other site 399599008973 CheB methylesterase; Region: CheB_methylest; pfam01339 399599008974 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 399599008975 putative binding surface; other site 399599008976 active site 399599008977 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 399599008978 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 399599008979 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599008980 ATP binding site [chemical binding]; other site 399599008981 Mg2+ binding site [ion binding]; other site 399599008982 G-X-G motif; other site 399599008983 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 399599008984 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 399599008985 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 399599008986 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599008987 active site 399599008988 phosphorylation site [posttranslational modification] 399599008989 intermolecular recognition site; other site 399599008990 dimerization interface [polypeptide binding]; other site 399599008991 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 399599008992 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399599008993 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 399599008994 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 399599008995 DNA binding residues [nucleotide binding] 399599008996 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 399599008997 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 399599008998 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 399599008999 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 399599009000 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 399599009001 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 399599009002 FHIPEP family; Region: FHIPEP; pfam00771 399599009003 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 399599009004 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 399599009005 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 399599009006 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 399599009007 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 399599009008 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 399599009009 flagellar motor switch protein; Validated; Region: fliN; PRK08983 399599009010 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 399599009011 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 399599009012 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 399599009013 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 399599009014 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 399599009015 flagellar export protein FliJ; Region: flagell_FliJ; TIGR02473 399599009016 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 399599009017 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 399599009018 Walker A motif/ATP binding site; other site 399599009019 Walker B motif; other site 399599009020 flagellar assembly protein H; Validated; Region: fliH; PRK05687 399599009021 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 399599009022 Flagellar assembly protein FliH; Region: FliH; pfam02108 399599009023 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 399599009024 MgtE intracellular N domain; Region: MgtE_N; smart00924 399599009025 FliG C-terminal domain; Region: FliG_C; pfam01706 399599009026 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 399599009027 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 399599009028 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 399599009029 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 399599009030 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 399599009031 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599009032 active site 399599009033 phosphorylation site [posttranslational modification] 399599009034 intermolecular recognition site; other site 399599009035 dimerization interface [polypeptide binding]; other site 399599009036 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 399599009037 Walker A motif; other site 399599009038 ATP binding site [chemical binding]; other site 399599009039 Walker B motif; other site 399599009040 arginine finger; other site 399599009041 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399599009042 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 399599009043 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 399599009044 putative active site [active] 399599009045 heme pocket [chemical binding]; other site 399599009046 His Kinase A (phospho-acceptor) domain; Region: HisKA; pfam00512 399599009047 dimer interface [polypeptide binding]; other site 399599009048 phosphorylation site [posttranslational modification] 399599009049 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599009050 ATP binding site [chemical binding]; other site 399599009051 Mg2+ binding site [ion binding]; other site 399599009052 G-X-G motif; other site 399599009053 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 399599009054 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 399599009055 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 399599009056 Walker A motif; other site 399599009057 ATP binding site [chemical binding]; other site 399599009058 Walker B motif; other site 399599009059 arginine finger; other site 399599009060 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399599009061 flagellar protein FliS; Validated; Region: fliS; PRK05685 399599009062 flagellar capping protein; Reviewed; Region: fliD; PRK08032 399599009063 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 399599009064 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 399599009065 FlaG protein; Region: FlaG; pfam03646 399599009066 flagellin; Provisional; Region: PRK12802 399599009067 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 399599009068 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 399599009069 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 399599009070 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; cl17880 399599009071 DDE_Tnp_1-associated; Region: DDE_Tnp_1_assoc; pfam13808 399599009072 putative transposase OrfB; Reviewed; Region: PHA02517 399599009073 HTH-like domain; Region: HTH_21; pfam13276 399599009074 Integrase core domain; Region: rve; pfam00665 399599009075 Integrase core domain; Region: rve_3; pfam13683 399599009076 flagellin; Provisional; Region: PRK12802 399599009077 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 399599009078 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 399599009079 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 399599009080 flagellin; Provisional; Region: PRK12802 399599009081 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 399599009082 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 399599009083 flagellin; Provisional; Region: PRK12802 399599009084 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 399599009085 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 399599009086 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 399599009087 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 399599009088 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08871 399599009089 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 399599009090 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 399599009091 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 399599009092 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 399599009093 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 399599009094 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 399599009095 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 399599009096 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 399599009097 Flagellar L-ring protein; Region: FlgH; pfam02107 399599009098 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 399599009099 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 399599009100 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 399599009101 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 399599009102 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 399599009103 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 399599009104 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 399599009105 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 399599009106 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 399599009107 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 399599009108 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 399599009109 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 399599009110 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 399599009111 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 399599009112 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12625 399599009113 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 399599009114 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 399599009115 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 399599009116 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 399599009117 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 399599009118 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399599009119 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599009120 active site 399599009121 phosphorylation site [posttranslational modification] 399599009122 intermolecular recognition site; other site 399599009123 dimerization interface [polypeptide binding]; other site 399599009124 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 399599009125 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 399599009126 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 399599009127 FlgN protein; Region: FlgN; pfam05130 399599009128 LPP20 lipoprotein; Region: LPP20; pfam02169 399599009129 Transcriptional regulator; Region: Transcrip_reg; cl00361 399599009130 Helix-turn-helix domain; Region: HTH_17; pfam12728 399599009131 Transposase; Region: HTH_Tnp_1; pfam01527 399599009132 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599009133 putative transposase OrfB; Reviewed; Region: PHA02517 399599009134 HTH-like domain; Region: HTH_21; pfam13276 399599009135 Integrase core domain; Region: rve; pfam00665 399599009136 Integrase core domain; Region: rve_2; pfam13333 399599009137 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 399599009138 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 399599009139 Arna decarboxylase_like, extended (e) SDRs; Region: Arna_like_SDR_e; cd05257 399599009140 NAD dependent epimerase/dehydratase, LLPSF_EDH_00030 family; Region: EDH_00030; TIGR04180 399599009141 NAD binding site [chemical binding]; other site 399599009142 substrate binding site [chemical binding]; other site 399599009143 active site 399599009144 Methyltransferase domain; Region: Methyltransf_31; pfam13847 399599009145 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 399599009146 S-adenosylmethionine binding site [chemical binding]; other site 399599009147 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 399599009148 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 399599009149 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 399599009150 catalytic residue [active] 399599009151 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 399599009152 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 399599009153 NeuB family; Region: NeuB; pfam03102 399599009154 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 399599009155 NeuB binding interface [polypeptide binding]; other site 399599009156 putative substrate binding site [chemical binding]; other site 399599009157 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 399599009158 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 399599009159 active site 399599009160 homodimer interface [polypeptide binding]; other site 399599009161 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 399599009162 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 399599009163 binding surface 399599009164 TPR motif; other site 399599009165 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 399599009166 ligand binding site; other site 399599009167 tetramer interface; other site 399599009168 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 399599009169 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 399599009170 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 399599009171 Substrate binding site; other site 399599009172 metal-binding site 399599009173 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 399599009174 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Validated; Region: PRK06567 399599009175 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399599009176 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399599009177 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399599009178 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599009179 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 399599009180 Protein of unknown function (DUF465); Region: DUF465; pfam04325 399599009181 Cache domain; Region: Cache_1; pfam02743 399599009182 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 399599009183 dimerization interface [polypeptide binding]; other site 399599009184 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599009185 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599009186 dimer interface [polypeptide binding]; other site 399599009187 putative CheW interface [polypeptide binding]; other site 399599009188 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 399599009189 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 399599009190 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 399599009191 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 399599009192 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 399599009193 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 399599009194 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 399599009195 dimerization interface [polypeptide binding]; other site 399599009196 ATP binding site [chemical binding]; other site 399599009197 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 399599009198 dimerization interface [polypeptide binding]; other site 399599009199 ATP binding site [chemical binding]; other site 399599009200 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 399599009201 putative active site [active] 399599009202 catalytic triad [active] 399599009203 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 399599009204 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 399599009205 substrate binding pocket [chemical binding]; other site 399599009206 membrane-bound complex binding site; other site 399599009207 hinge residues; other site 399599009208 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 399599009209 N-acetyl-D-glucosamine binding site [chemical binding]; other site 399599009210 catalytic residue [active] 399599009211 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 399599009212 nucleoside/Zn binding site; other site 399599009213 dimer interface [polypeptide binding]; other site 399599009214 catalytic motif [active] 399599009215 GMP synthase; Reviewed; Region: guaA; PRK00074 399599009216 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 399599009217 AMP/PPi binding site [chemical binding]; other site 399599009218 candidate oxyanion hole; other site 399599009219 catalytic triad [active] 399599009220 potential glutamine specificity residues [chemical binding]; other site 399599009221 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 399599009222 ATP Binding subdomain [chemical binding]; other site 399599009223 Ligand Binding sites [chemical binding]; other site 399599009224 Dimerization subdomain; other site 399599009225 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 399599009226 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 399599009227 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 399599009228 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 399599009229 active site 399599009230 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 399599009231 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 399599009232 generic binding surface II; other site 399599009233 generic binding surface I; other site 399599009234 GTP-binding protein Der; Reviewed; Region: PRK00093 399599009235 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 399599009236 G1 box; other site 399599009237 GTP/Mg2+ binding site [chemical binding]; other site 399599009238 Switch I region; other site 399599009239 G2 box; other site 399599009240 Switch II region; other site 399599009241 G3 box; other site 399599009242 G4 box; other site 399599009243 G5 box; other site 399599009244 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 399599009245 G1 box; other site 399599009246 GTP/Mg2+ binding site [chemical binding]; other site 399599009247 Switch I region; other site 399599009248 G2 box; other site 399599009249 G3 box; other site 399599009250 Switch II region; other site 399599009251 G4 box; other site 399599009252 G5 box; other site 399599009253 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 399599009254 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 399599009255 Trp docking motif [polypeptide binding]; other site 399599009256 active site 399599009257 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 399599009258 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 399599009259 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 399599009260 TPR motif; other site 399599009261 binding surface 399599009262 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 399599009263 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 399599009264 dimer interface [polypeptide binding]; other site 399599009265 motif 1; other site 399599009266 active site 399599009267 motif 2; other site 399599009268 motif 3; other site 399599009269 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 399599009270 anticodon binding site; other site 399599009271 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 399599009272 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 399599009273 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 399599009274 cytoskeletal protein RodZ; Provisional; Region: PRK10856 399599009275 Helix-turn-helix domain; Region: HTH_25; pfam13413 399599009276 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 399599009277 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 399599009278 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 399599009279 TPR motif; other site 399599009280 binding surface 399599009281 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 399599009282 binding surface 399599009283 TPR motif; other site 399599009284 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 399599009285 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 399599009286 FeS/SAM binding site; other site 399599009287 Domain of unknown function DUF21; Region: DUF21; pfam01595 399599009288 FOG: CBS domain [General function prediction only]; Region: COG0517 399599009289 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 399599009290 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 399599009291 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 399599009292 active site 399599009293 metal binding site [ion binding]; metal-binding site 399599009294 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 399599009295 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599009296 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 399599009297 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 399599009298 putative dimerization interface [polypeptide binding]; other site 399599009299 Predicted membrane protein [Function unknown]; Region: COG2259 399599009300 Pirin-related protein [General function prediction only]; Region: COG1741 399599009301 Pirin; Region: Pirin; pfam02678 399599009302 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 399599009303 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599009304 Coenzyme A binding pocket [chemical binding]; other site 399599009305 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 399599009306 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599009307 Coenzyme A binding pocket [chemical binding]; other site 399599009308 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 399599009309 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 399599009310 Coenzyme A binding pocket [chemical binding]; other site 399599009311 ParA-like protein; Provisional; Region: PHA02518 399599009312 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 399599009313 P-loop; other site 399599009314 Magnesium ion binding site [ion binding]; other site 399599009315 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 399599009316 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 399599009317 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599009318 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599009319 metal binding site [ion binding]; metal-binding site 399599009320 active site 399599009321 I-site; other site 399599009322 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 399599009323 SnoaL-like domain; Region: SnoaL_3; pfam13474 399599009324 HDOD domain; Region: HDOD; pfam08668 399599009325 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 399599009326 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 399599009327 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 399599009328 tetramer interface [polypeptide binding]; other site 399599009329 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599009330 catalytic residue [active] 399599009331 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 399599009332 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399599009333 ligand binding site [chemical binding]; other site 399599009334 Conserved TM helix; Region: TM_helix; pfam05552 399599009335 mechanosensitive channel MscS; Provisional; Region: PRK10334 399599009336 Mechanosensitive ion channel; Region: MS_channel; pfam00924 399599009337 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 399599009338 dimer interface [polypeptide binding]; other site 399599009339 catalytic triad [active] 399599009340 peroxidatic and resolving cysteines [active] 399599009341 Predicted membrane protein [Function unknown]; Region: COG2860 399599009342 UPF0126 domain; Region: UPF0126; pfam03458 399599009343 UPF0126 domain; Region: UPF0126; pfam03458 399599009344 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 399599009345 translation initiation factor Sui1; Validated; Region: PRK06824 399599009346 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 399599009347 putative rRNA binding site [nucleotide binding]; other site 399599009348 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 399599009349 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 399599009350 ferrochelatase; Reviewed; Region: hemH; PRK00035 399599009351 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 399599009352 C-terminal domain interface [polypeptide binding]; other site 399599009353 active site 399599009354 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 399599009355 active site 399599009356 N-terminal domain interface [polypeptide binding]; other site 399599009357 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 399599009358 catalytic residues [active] 399599009359 dimer interface [polypeptide binding]; other site 399599009360 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 399599009361 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 399599009362 Walker A motif; other site 399599009363 ATP binding site [chemical binding]; other site 399599009364 Walker B motif; other site 399599009365 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 399599009366 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 399599009367 Walker A motif; other site 399599009368 ATP binding site [chemical binding]; other site 399599009369 Walker B motif; other site 399599009370 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 399599009371 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 399599009372 catalytic residue [active] 399599009373 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 399599009374 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 399599009375 YGGT family; Region: YGGT; pfam02325 399599009376 YGGT family; Region: YGGT; pfam02325 399599009377 hypothetical protein; Validated; Region: PRK05090 399599009378 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 399599009379 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 399599009380 active site 399599009381 dimerization interface [polypeptide binding]; other site 399599009382 HemN family oxidoreductase; Provisional; Region: PRK05660 399599009383 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 399599009384 FeS/SAM binding site; other site 399599009385 HemN C-terminal domain; Region: HemN_C; pfam06969 399599009386 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 399599009387 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599009388 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599009389 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 399599009390 putative effector binding pocket; other site 399599009391 dimerization interface [polypeptide binding]; other site 399599009392 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 399599009393 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 399599009394 glutaminase; Provisional; Region: PRK00971 399599009395 hypothetical protein; Provisional; Region: PRK11702 399599009396 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 399599009397 S-adenosylmethionine binding site [chemical binding]; other site 399599009398 adenine DNA glycosylase; Provisional; Region: PRK10880 399599009399 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 399599009400 minor groove reading motif; other site 399599009401 helix-hairpin-helix signature motif; other site 399599009402 substrate binding pocket [chemical binding]; other site 399599009403 active site 399599009404 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 399599009405 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 399599009406 DNA binding and oxoG recognition site [nucleotide binding] 399599009407 oxidative damage protection protein; Provisional; Region: PRK05408 399599009408 hypothetical protein; Provisional; Region: PRK03757 399599009409 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 399599009410 Protein of unknown function (DUF3634); Region: DUF3634; pfam12321 399599009411 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 399599009412 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 399599009413 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 399599009414 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 399599009415 S-adenosylmethionine binding site [chemical binding]; other site 399599009416 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 399599009417 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 399599009418 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 399599009419 hydroxyglutarate oxidase; Provisional; Region: PRK11728 399599009420 short chain dehydrogenase; Provisional; Region: PRK06101 399599009421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399599009422 NAD(P) binding site [chemical binding]; other site 399599009423 active site 399599009424 SnoaL-like domain; Region: SnoaL_2; pfam12680 399599009425 DNA photolyase; Region: DNA_photolyase; pfam00875 399599009426 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 399599009427 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 399599009428 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 399599009429 DNA binding residues [nucleotide binding] 399599009430 Protein of unknown function (DUF523); Region: DUF523; pfam04463 399599009431 Uncharacterized conserved protein [Function unknown]; Region: COG3272 399599009432 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 399599009433 Adenylosuccinate lyase C-terminus; Region: ADSL_C; cl17237 399599009434 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 399599009435 metal-binding site [ion binding] 399599009436 MerT mercuric transport protein; Region: MerT; cl03578 399599009437 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 399599009438 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 399599009439 PBP superfamily domain; Region: PBP_like_2; cl17296 399599009440 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 399599009441 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 399599009442 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599009443 dimer interface [polypeptide binding]; other site 399599009444 putative CheW interface [polypeptide binding]; other site 399599009445 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 399599009446 threonine/serine transporter TdcC; Provisional; Region: PRK13629; cl17672 399599009447 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 399599009448 homotrimer interaction site [polypeptide binding]; other site 399599009449 putative active site [active] 399599009450 L-cysteine desulfidase [Amino acid transport and metabolism]; Region: COG3681 399599009451 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 399599009452 YheO-like PAS domain; Region: PAS_6; pfam08348 399599009453 HTH domain; Region: HTH_22; pfam13309 399599009454 Domain of unknown function (DUF368); Region: DUF368; pfam04018 399599009455 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 399599009456 CoenzymeA binding site [chemical binding]; other site 399599009457 subunit interaction site [polypeptide binding]; other site 399599009458 PHB binding site; other site 399599009459 purine nucleoside phosphorylase; Provisional; Region: PRK08202 399599009460 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 399599009461 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599009462 The C-terminal substrate binding domain of LysR-type transcriptional regulator XapR involved in xanthosine catabolism, contains the type 2 periplasmic binding fold; Region: PBP2_XapR; cd08449 399599009463 putative dimerization interface [polypeptide binding]; other site 399599009464 putative substrate binding pocket [chemical binding]; other site 399599009465 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 399599009466 nucleoside/Zn binding site; other site 399599009467 dimer interface [polypeptide binding]; other site 399599009468 catalytic motif [active] 399599009469 Predicted membrane protein [Function unknown]; Region: COG2311 399599009470 Protein of unknown function (DUF418); Region: DUF418; cl12135 399599009471 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 399599009472 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399599009473 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399599009474 HPP family; Region: HPP; pfam04982 399599009475 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 399599009476 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 399599009477 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 399599009478 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 399599009479 N-terminal Early set domain associated with the catalytic domain of chitinase; Region: E_set_Chitinase_N; cd02848 399599009480 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 399599009481 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 399599009482 active site 399599009483 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 399599009484 aromatic chitin/cellulose binding site residues [chemical binding]; other site 399599009485 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 399599009486 aromatic chitin/cellulose binding site residues [chemical binding]; other site 399599009487 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 399599009488 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 399599009489 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 399599009490 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 399599009491 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 399599009492 active site 399599009493 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 399599009494 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399599009495 Zn2+ binding site [ion binding]; other site 399599009496 Mg2+ binding site [ion binding]; other site 399599009497 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 399599009498 PAS fold; Region: PAS_3; pfam08447 399599009499 putative active site [active] 399599009500 heme pocket [chemical binding]; other site 399599009501 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 399599009502 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599009503 dimer interface [polypeptide binding]; other site 399599009504 putative CheW interface [polypeptide binding]; other site 399599009505 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 399599009506 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 399599009507 ATP binding site [chemical binding]; other site 399599009508 Mg++ binding site [ion binding]; other site 399599009509 motif III; other site 399599009510 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 399599009511 nucleotide binding region [chemical binding]; other site 399599009512 ATP-binding site [chemical binding]; other site 399599009513 putrescine transporter; Provisional; Region: potE; PRK10655 399599009514 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 399599009515 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 399599009516 Tryptophan-rich protein (DUF2389); Region: DUF2389; pfam09493 399599009517 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 399599009518 putative catalytic residues [active] 399599009519 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 399599009520 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399599009521 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 399599009522 membrane-bound complex binding site; other site 399599009523 hinge residues; other site 399599009524 hypothetical protein; Provisional; Region: PRK09947 399599009525 putative oxidoreductase; Provisional; Region: PRK09849 399599009526 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 399599009527 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 399599009528 hypothetical protein; Provisional; Region: PRK09898 399599009529 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 399599009530 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 399599009531 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 399599009532 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 399599009533 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 399599009534 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 399599009535 DsrE/DsrF-like family; Region: DrsE; pfam02635 399599009536 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 399599009537 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 399599009538 active site 399599009539 Zn binding site [ion binding]; other site 399599009540 Protein of unknown function, DUF486; Region: DUF486; pfam04342 399599009541 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 399599009542 RDD family; Region: RDD; pfam06271 399599009543 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 399599009544 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 399599009545 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 399599009546 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 399599009547 multifunctional aminopeptidase A; Provisional; Region: PRK00913 399599009548 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 399599009549 interface (dimer of trimers) [polypeptide binding]; other site 399599009550 Substrate-binding/catalytic site; other site 399599009551 Zn-binding sites [ion binding]; other site 399599009552 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 399599009553 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 399599009554 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 399599009555 HIGH motif; other site 399599009556 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 399599009557 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 399599009558 active site 399599009559 KMSKS motif; other site 399599009560 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 399599009561 tRNA binding surface [nucleotide binding]; other site 399599009562 anticodon binding site; other site 399599009563 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 399599009564 carbon storage regulator; Provisional; Region: PRK01712 399599009565 aspartate kinase; Reviewed; Region: PRK06635 399599009566 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 399599009567 putative nucleotide binding site [chemical binding]; other site 399599009568 putative catalytic residues [active] 399599009569 putative Mg ion binding site [ion binding]; other site 399599009570 putative aspartate binding site [chemical binding]; other site 399599009571 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 399599009572 putative allosteric regulatory residue; other site 399599009573 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 399599009574 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 399599009575 motif 1; other site 399599009576 active site 399599009577 motif 2; other site 399599009578 motif 3; other site 399599009579 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 399599009580 DHHA1 domain; Region: DHHA1; pfam02272 399599009581 RecX family; Region: RecX; pfam02631 399599009582 recombinase A; Provisional; Region: recA; PRK09354 399599009583 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 399599009584 hexamer interface [polypeptide binding]; other site 399599009585 Walker A motif; other site 399599009586 ATP binding site [chemical binding]; other site 399599009587 Walker B motif; other site 399599009588 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 399599009589 MutS domain I; Region: MutS_I; pfam01624 399599009590 MutS domain II; Region: MutS_II; pfam05188 399599009591 MutS domain III; Region: MutS_III; pfam05192 399599009592 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 399599009593 Walker A/P-loop; other site 399599009594 ATP binding site [chemical binding]; other site 399599009595 Q-loop/lid; other site 399599009596 ABC transporter signature motif; other site 399599009597 Walker B; other site 399599009598 D-loop; other site 399599009599 H-loop/switch region; other site 399599009600 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 399599009601 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 399599009602 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399599009603 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 399599009604 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 399599009605 DNA binding residues [nucleotide binding] 399599009606 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 399599009607 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 399599009608 Peptidase family M23; Region: Peptidase_M23; pfam01551 399599009609 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 399599009610 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 399599009611 S-adenosylmethionine binding site [chemical binding]; other site 399599009612 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 399599009613 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 399599009614 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 399599009615 Permutation of conserved domain; other site 399599009616 active site 399599009617 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 399599009618 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 399599009619 homotrimer interaction site [polypeptide binding]; other site 399599009620 zinc binding site [ion binding]; other site 399599009621 CDP-binding sites; other site 399599009622 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 399599009623 substrate binding site; other site 399599009624 dimer interface; other site 399599009625 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 399599009626 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 399599009627 enolase; Provisional; Region: eno; PRK00077 399599009628 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 399599009629 dimer interface [polypeptide binding]; other site 399599009630 metal binding site [ion binding]; metal-binding site 399599009631 substrate binding pocket [chemical binding]; other site 399599009632 CTP synthetase; Validated; Region: pyrG; PRK05380 399599009633 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 399599009634 Catalytic site [active] 399599009635 active site 399599009636 UTP binding site [chemical binding]; other site 399599009637 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 399599009638 active site 399599009639 putative oxyanion hole; other site 399599009640 catalytic triad [active] 399599009641 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 399599009642 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 399599009643 homodimer interface [polypeptide binding]; other site 399599009644 metal binding site [ion binding]; metal-binding site 399599009645 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 399599009646 homodimer interface [polypeptide binding]; other site 399599009647 active site 399599009648 putative chemical substrate binding site [chemical binding]; other site 399599009649 metal binding site [ion binding]; metal-binding site 399599009650 agmatine deiminase; Provisional; Region: PRK13551 399599009651 agmatine deiminase; Region: agmatine_aguA; TIGR03380 399599009652 amidase; Validated; Region: PRK06565 399599009653 Amidase; Region: Amidase; cl11426 399599009654 Amidase; Region: Amidase; cl11426 399599009655 methionine synthase; Provisional; Region: PRK01207 399599009656 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 399599009657 substrate binding site [chemical binding]; other site 399599009658 THF binding site; other site 399599009659 zinc-binding site [ion binding]; other site 399599009660 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 399599009661 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 399599009662 AAA domain; Region: AAA_11; pfam13086 399599009663 Part of AAA domain; Region: AAA_19; pfam13245 399599009664 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 399599009665 AAA domain; Region: AAA_12; pfam13087 399599009666 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 399599009667 putative active site [active] 399599009668 Protein of unknown function (DUF3320); Region: DUF3320; pfam11784 399599009669 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 399599009670 HD domain; Region: HD_4; pfam13328 399599009671 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 399599009672 synthetase active site [active] 399599009673 NTP binding site [chemical binding]; other site 399599009674 metal binding site [ion binding]; metal-binding site 399599009675 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 399599009676 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 399599009677 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 399599009678 TRAM domain; Region: TRAM; pfam01938 399599009679 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 399599009680 S-adenosylmethionine binding site [chemical binding]; other site 399599009681 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 399599009682 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 399599009683 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 399599009684 dimerization interface [polypeptide binding]; other site 399599009685 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 399599009686 dimer interface [polypeptide binding]; other site 399599009687 phosphorylation site [posttranslational modification] 399599009688 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599009689 ATP binding site [chemical binding]; other site 399599009690 Mg2+ binding site [ion binding]; other site 399599009691 G-X-G motif; other site 399599009692 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599009693 active site 399599009694 phosphorylation site [posttranslational modification] 399599009695 intermolecular recognition site; other site 399599009696 dimerization interface [polypeptide binding]; other site 399599009697 Hpt domain; Region: Hpt; pfam01627 399599009698 Protein of unknown function (DUF416); Region: DUF416; pfam04222 399599009699 Protein of unknown function (DUF3319); Region: DUF3319; pfam11782 399599009700 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599009701 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599009702 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 399599009703 putative effector binding pocket; other site 399599009704 dimerization interface [polypeptide binding]; other site 399599009705 Membrane transport protein; Region: Mem_trans; cl09117 399599009706 recombination and repair protein; Provisional; Region: PRK10869 399599009707 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 399599009708 Walker A/P-loop; other site 399599009709 ATP binding site [chemical binding]; other site 399599009710 Q-loop/lid; other site 399599009711 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 399599009712 ABC transporter signature motif; other site 399599009713 Walker B; other site 399599009714 D-loop; other site 399599009715 H-loop/switch region; other site 399599009716 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 399599009717 tetramer interfaces [polypeptide binding]; other site 399599009718 binuclear metal-binding site [ion binding]; other site 399599009719 thiamine monophosphate kinase; Provisional; Region: PRK05731 399599009720 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 399599009721 ATP binding site [chemical binding]; other site 399599009722 dimerization interface [polypeptide binding]; other site 399599009723 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 399599009724 putative RNA binding site [nucleotide binding]; other site 399599009725 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 399599009726 homopentamer interface [polypeptide binding]; other site 399599009727 active site 399599009728 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 399599009729 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 399599009730 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 399599009731 dimerization interface [polypeptide binding]; other site 399599009732 active site 399599009733 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 399599009734 Lumazine binding domain; Region: Lum_binding; pfam00677 399599009735 Lumazine binding domain; Region: Lum_binding; pfam00677 399599009736 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 399599009737 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 399599009738 catalytic motif [active] 399599009739 Zn binding site [ion binding]; other site 399599009740 RibD C-terminal domain; Region: RibD_C; cl17279 399599009741 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 399599009742 ATP cone domain; Region: ATP-cone; pfam03477 399599009743 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 399599009744 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 399599009745 dimer interface [polypeptide binding]; other site 399599009746 active site 399599009747 glycine-pyridoxal phosphate binding site [chemical binding]; other site 399599009748 folate binding site [chemical binding]; other site 399599009749 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 399599009750 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399599009751 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399599009752 ABC transporter; Region: ABC_tran_2; pfam12848 399599009753 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399599009754 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599009755 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599009756 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 399599009757 putative effector binding pocket; other site 399599009758 dimerization interface [polypeptide binding]; other site 399599009759 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 399599009760 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 399599009761 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 399599009762 catalytic residues [active] 399599009763 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 399599009764 Shewanella-like phosphatases, metallophosphatase domain; Region: MPP_Shelphs; cd07425 399599009765 active site 399599009766 metal binding site [ion binding]; metal-binding site 399599009767 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 399599009768 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399599009769 substrate binding pocket [chemical binding]; other site 399599009770 membrane-bound complex binding site; other site 399599009771 hinge residues; other site 399599009772 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399599009773 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399599009774 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599009775 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 399599009776 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599009777 putative substrate translocation pore; other site 399599009778 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 399599009779 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399599009780 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399599009781 EamA-like transporter family; Region: EamA; pfam00892 399599009782 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 399599009783 EamA-like transporter family; Region: EamA; pfam00892 399599009784 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399599009785 Uncharacterized conserved protein [Function unknown]; Region: COG1432 399599009786 LabA_like proteins; Region: LabA_like/DUF88; cl10034 399599009787 putative metal binding site [ion binding]; other site 399599009788 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 399599009789 apolar tunnel; other site 399599009790 heme binding site [chemical binding]; other site 399599009791 dimerization interface [polypeptide binding]; other site 399599009792 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 399599009793 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599009794 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599009795 metal binding site [ion binding]; metal-binding site 399599009796 active site 399599009797 I-site; other site 399599009798 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 399599009799 Cna protein B-type domain; Region: Cna_B; pfam05738 399599009800 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 399599009801 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399599009802 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399599009803 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599009804 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399599009805 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399599009806 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599009807 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599009808 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 399599009809 dimerization interface [polypeptide binding]; other site 399599009810 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 399599009811 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 399599009812 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399599009813 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 399599009814 substrate binding pocket [chemical binding]; other site 399599009815 membrane-bound complex binding site; other site 399599009816 hinge residues; other site 399599009817 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599009818 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599009819 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 399599009820 dimerization interface [polypeptide binding]; other site 399599009821 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 399599009822 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 399599009823 GDP-binding site [chemical binding]; other site 399599009824 ACT binding site; other site 399599009825 IMP binding site; other site 399599009826 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 399599009827 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399599009828 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599009829 active site 399599009830 phosphorylation site [posttranslational modification] 399599009831 intermolecular recognition site; other site 399599009832 dimerization interface [polypeptide binding]; other site 399599009833 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 399599009834 active site 399599009835 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599009836 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599009837 metal binding site [ion binding]; metal-binding site 399599009838 active site 399599009839 I-site; other site 399599009840 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 399599009841 HDOD domain; Region: HDOD; pfam08668 399599009842 putative protease; Provisional; Region: PRK15452 399599009843 Peptidase family U32; Region: Peptidase_U32; pfam01136 399599009844 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 399599009845 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 399599009846 Peptidase S8 family domain in ProteinaseK-like proteins; Region: Peptidases_S8_PCSK9_ProteinaseK_like; cd04077 399599009847 calcium binding site 2 [ion binding]; other site 399599009848 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 399599009849 active site 399599009850 catalytic triad [active] 399599009851 calcium binding site 1 [ion binding]; other site 399599009852 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 399599009853 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 399599009854 SCP-2 sterol transfer family; Region: SCP2; cl01225 399599009855 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 399599009856 Peptidase family U32; Region: Peptidase_U32; pfam01136 399599009857 putative protease; Provisional; Region: PRK15447 399599009858 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 399599009859 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 399599009860 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 399599009861 Nucleoside recognition; Region: Gate; pfam07670 399599009862 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 399599009863 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 399599009864 putative active site [active] 399599009865 putative metal binding site [ion binding]; other site 399599009866 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 399599009867 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 399599009868 putative acyl-acceptor binding pocket; other site 399599009869 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 399599009870 FOG: CBS domain [General function prediction only]; Region: COG0517 399599009871 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 399599009872 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 399599009873 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 399599009874 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 399599009875 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 399599009876 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 399599009877 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_DMSOR-BSOR-TMAOR; cd02769 399599009878 molybdopterin cofactor binding site [chemical binding]; other site 399599009879 substrate binding site [chemical binding]; other site 399599009880 The MopB_DMSOR-BSOR-TMAOR CD contains dimethylsulfoxide reductase (DMSOR), biotin sulfoxide reductase (BSOR), trimethylamine N-oxide reductase (TMAOR) and other related proteins. DMSOR always catalyzes the reduction of DMSO to dimethylsulfide, but its...; Region: MopB_CT_DMSOR-BSOR-TMAOR; cd02793 399599009881 molybdopterin cofactor binding site; other site 399599009882 chaperone protein TorD; Validated; Region: torD; PRK04976 399599009883 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 399599009884 HAMP domain; Region: HAMP; pfam00672 399599009885 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 399599009886 dimer interface [polypeptide binding]; other site 399599009887 phosphorylation site [posttranslational modification] 399599009888 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599009889 ATP binding site [chemical binding]; other site 399599009890 Mg2+ binding site [ion binding]; other site 399599009891 G-X-G motif; other site 399599009892 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599009893 active site 399599009894 phosphorylation site [posttranslational modification] 399599009895 intermolecular recognition site; other site 399599009896 dimerization interface [polypeptide binding]; other site 399599009897 TMAO reductase system periplasmic protein TorT; Provisional; Region: PRK10936 399599009898 TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria; Region: PBP1_TorT-like; cd06306 399599009899 putative ligand binding site [chemical binding]; other site 399599009900 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 399599009901 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599009902 active site 399599009903 phosphorylation site [posttranslational modification] 399599009904 intermolecular recognition site; other site 399599009905 dimerization interface [polypeptide binding]; other site 399599009906 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 399599009907 DNA binding site [nucleotide binding] 399599009908 PilZ domain; Region: PilZ; pfam07238 399599009909 DNA repair protein RadA; Provisional; Region: PRK11823 399599009910 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 399599009911 Walker A motif/ATP binding site; other site 399599009912 ATP binding site [chemical binding]; other site 399599009913 Walker B motif; other site 399599009914 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 399599009915 PilZ domain; Region: PilZ; pfam07238 399599009916 PilZ domain; Region: PilZ; pfam07238 399599009917 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 399599009918 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 399599009919 phosphoserine phosphatase SerB; Region: serB; TIGR00338 399599009920 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 399599009921 motif II; other site 399599009922 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 399599009923 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 399599009924 phosphopentomutase; Provisional; Region: PRK05362 399599009925 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 399599009926 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 399599009927 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 399599009928 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 399599009929 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 399599009930 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 399599009931 intersubunit interface [polypeptide binding]; other site 399599009932 active site 399599009933 catalytic residue [active] 399599009934 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; pfam03502 399599009935 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 399599009936 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 399599009937 Nucleoside recognition; Region: Gate; pfam07670 399599009938 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 399599009939 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 399599009940 active site 399599009941 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 399599009942 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 399599009943 G1 box; other site 399599009944 putative GEF interaction site [polypeptide binding]; other site 399599009945 GTP/Mg2+ binding site [chemical binding]; other site 399599009946 Switch I region; other site 399599009947 G2 box; other site 399599009948 G3 box; other site 399599009949 Switch II region; other site 399599009950 G4 box; other site 399599009951 G5 box; other site 399599009952 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 399599009953 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cd09739 399599009954 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cd09737 399599009955 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cd09736 399599009956 CRISPR/Cas system-associated protein Csy1; Region: Csy1_I-F; cd09735 399599009957 CRISPR/Cas system-associated protein Cas3/Cas2; Region: Cas3_Cas2_I-F; cd09673 399599009958 CRISPR-associated helicase Cas3, subtype I-F/YPEST; Region: cas3_yersinia; TIGR02562 399599009959 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 399599009960 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 399599009961 non-specific DNA binding site [nucleotide binding]; other site 399599009962 salt bridge; other site 399599009963 sequence-specific DNA binding site [nucleotide binding]; other site 399599009964 HipA N-terminal domain; Region: Couple_hipA; pfam13657 399599009965 HipA-like N-terminal domain; Region: HipA_N; pfam07805 399599009966 HipA-like C-terminal domain; Region: HipA_C; pfam07804 399599009967 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 399599009968 Family description; Region: UvrD_C_2; pfam13538 399599009969 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 399599009970 AAA ATPase domain; Region: AAA_15; pfam13175 399599009971 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 399599009972 active site 399599009973 metal binding site [ion binding]; metal-binding site 399599009974 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 399599009975 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 399599009976 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 399599009977 Walker A motif; other site 399599009978 ATP binding site [chemical binding]; other site 399599009979 Walker B motif; other site 399599009980 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 399599009981 Protein of unknown function (DUF3233); Region: DUF3233; pfam11557 399599009982 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 399599009983 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 399599009984 non-specific DNA binding site [nucleotide binding]; other site 399599009985 salt bridge; other site 399599009986 sequence-specific DNA binding site [nucleotide binding]; other site 399599009987 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 399599009988 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 399599009989 active site 399599009990 DNA binding site [nucleotide binding] 399599009991 Int/Topo IB signature motif; other site 399599009992 Replication protein P; Region: Phage_lambda_P; pfam06992 399599009993 Helix-turn-helix domain; Region: HTH_36; pfam13730 399599009994 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 399599009995 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 399599009996 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 399599009997 non-specific DNA binding site [nucleotide binding]; other site 399599009998 salt bridge; other site 399599009999 sequence-specific DNA binding site [nucleotide binding]; other site 399599010000 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 399599010001 non-specific DNA binding site [nucleotide binding]; other site 399599010002 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 399599010003 salt bridge; other site 399599010004 sequence-specific DNA binding site [nucleotide binding]; other site 399599010005 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 399599010006 Catalytic site [active] 399599010007 DNA-sulfur modification-associated; Region: DndB; pfam14072 399599010008 DGQHR domain; Region: DGQHR; TIGR03187 399599010009 methionine gamma-lyase; Provisional; Region: PRK07503 399599010010 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 399599010011 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 399599010012 active site 399599010013 Int/Topo IB signature motif; other site 399599010014 lipoprotein NlpI; Provisional; Region: PRK11189 399599010015 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 399599010016 binding surface 399599010017 TPR motif; other site 399599010018 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 399599010019 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 399599010020 RNase E interface [polypeptide binding]; other site 399599010021 trimer interface [polypeptide binding]; other site 399599010022 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 399599010023 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 399599010024 RNase E interface [polypeptide binding]; other site 399599010025 trimer interface [polypeptide binding]; other site 399599010026 active site 399599010027 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 399599010028 putative nucleic acid binding region [nucleotide binding]; other site 399599010029 G-X-X-G motif; other site 399599010030 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 399599010031 RNA binding site [nucleotide binding]; other site 399599010032 domain interface; other site 399599010033 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599010034 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599010035 metal binding site [ion binding]; metal-binding site 399599010036 active site 399599010037 I-site; other site 399599010038 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 399599010039 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 399599010040 16S/18S rRNA binding site [nucleotide binding]; other site 399599010041 S13e-L30e interaction site [polypeptide binding]; other site 399599010042 25S rRNA binding site [nucleotide binding]; other site 399599010043 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 399599010044 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 399599010045 RNA binding site [nucleotide binding]; other site 399599010046 active site 399599010047 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 399599010048 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 399599010049 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 399599010050 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 399599010051 translation initiation factor IF-2; Region: IF-2; TIGR00487 399599010052 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 399599010053 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 399599010054 G1 box; other site 399599010055 putative GEF interaction site [polypeptide binding]; other site 399599010056 GTP/Mg2+ binding site [chemical binding]; other site 399599010057 Switch I region; other site 399599010058 G2 box; other site 399599010059 G3 box; other site 399599010060 Switch II region; other site 399599010061 G4 box; other site 399599010062 G5 box; other site 399599010063 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 399599010064 Translation-initiation factor 2; Region: IF-2; pfam11987 399599010065 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 399599010066 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 399599010067 NusA N-terminal domain; Region: NusA_N; pfam08529 399599010068 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 399599010069 RNA binding site [nucleotide binding]; other site 399599010070 homodimer interface [polypeptide binding]; other site 399599010071 NusA-like KH domain; Region: KH_5; pfam13184 399599010072 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 399599010073 G-X-X-G motif; other site 399599010074 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 399599010075 ribosome maturation protein RimP; Reviewed; Region: PRK00092 399599010076 Sm and related proteins; Region: Sm_like; cl00259 399599010077 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 399599010078 putative oligomer interface [polypeptide binding]; other site 399599010079 putative RNA binding site [nucleotide binding]; other site 399599010080 Preprotein translocase SecG subunit; Region: SecG; pfam03840 399599010081 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 399599010082 triosephosphate isomerase; Provisional; Region: PRK14567 399599010083 substrate binding site [chemical binding]; other site 399599010084 dimer interface [polypeptide binding]; other site 399599010085 catalytic triad [active] 399599010086 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 399599010087 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 399599010088 active site 399599010089 substrate binding site [chemical binding]; other site 399599010090 metal binding site [ion binding]; metal-binding site 399599010091 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 399599010092 dihydropteroate synthase; Region: DHPS; TIGR01496 399599010093 substrate binding pocket [chemical binding]; other site 399599010094 dimer interface [polypeptide binding]; other site 399599010095 inhibitor binding site; inhibition site 399599010096 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 399599010097 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 399599010098 Walker A motif; other site 399599010099 ATP binding site [chemical binding]; other site 399599010100 Walker B motif; other site 399599010101 arginine finger; other site 399599010102 Peptidase family M41; Region: Peptidase_M41; pfam01434 399599010103 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 399599010104 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 399599010105 S-adenosylmethionine binding site [chemical binding]; other site 399599010106 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 399599010107 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13021 399599010108 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 399599010109 Protein export membrane protein; Region: SecD_SecF; pfam02355 399599010110 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK12933 399599010111 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 399599010112 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 399599010113 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 399599010114 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 399599010115 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 399599010116 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 399599010117 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 399599010118 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 399599010119 GTP-binding protein YchF; Reviewed; Region: PRK09601 399599010120 YchF GTPase; Region: YchF; cd01900 399599010121 G1 box; other site 399599010122 GTP/Mg2+ binding site [chemical binding]; other site 399599010123 Switch I region; other site 399599010124 G2 box; other site 399599010125 Switch II region; other site 399599010126 G3 box; other site 399599010127 G4 box; other site 399599010128 G5 box; other site 399599010129 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 399599010130 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 399599010131 putative active site [active] 399599010132 catalytic residue [active] 399599010133 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK08849 399599010134 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 399599010135 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 399599010136 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 399599010137 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 399599010138 FeS/SAM binding site; other site 399599010139 TRAM domain; Region: TRAM; pfam01938 399599010140 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 399599010141 PhoH-like protein; Region: PhoH; pfam02562 399599010142 metal-binding heat shock protein; Provisional; Region: PRK00016 399599010143 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 399599010144 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 399599010145 Transporter associated domain; Region: CorC_HlyC; smart01091 399599010146 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 399599010147 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 399599010148 putative active site [active] 399599010149 catalytic triad [active] 399599010150 putative dimer interface [polypeptide binding]; other site 399599010151 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 399599010152 S-adenosylmethionine binding site [chemical binding]; other site 399599010153 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 399599010154 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 399599010155 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 399599010156 HIGH motif; other site 399599010157 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 399599010158 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 399599010159 active site 399599010160 KMSKS motif; other site 399599010161 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 399599010162 tRNA binding surface [nucleotide binding]; other site 399599010163 Lipopolysaccharide-assembly; Region: LptE; cl01125 399599010164 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 399599010165 DNA polymerase III, delta subunit; Region: holA; TIGR01128 399599010166 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 399599010167 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 399599010168 active site 399599010169 (T/H)XGH motif; other site 399599010170 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 399599010171 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 399599010172 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 399599010173 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 399599010174 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 399599010175 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 399599010176 Transglycosylase SLT domain; Region: SLT_2; pfam13406 399599010177 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 399599010178 N-acetyl-D-glucosamine binding site [chemical binding]; other site 399599010179 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 399599010180 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 399599010181 Sporulation related domain; Region: SPOR; pfam05036 399599010182 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 399599010183 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 399599010184 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 399599010185 hypothetical protein; Provisional; Region: PRK04998 399599010186 lipoate-protein ligase B; Provisional; Region: PRK14342 399599010187 lipoyl synthase; Provisional; Region: PRK05481 399599010188 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 399599010189 FeS/SAM binding site; other site 399599010190 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 399599010191 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 399599010192 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 399599010193 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 399599010194 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 399599010195 dimerization interface [polypeptide binding]; other site 399599010196 DPS ferroxidase diiron center [ion binding]; other site 399599010197 ion pore; other site 399599010198 Predicted membrane protein [Function unknown]; Region: COG3503 399599010199 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 399599010200 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 399599010201 N-terminal plug; other site 399599010202 ligand-binding site [chemical binding]; other site 399599010203 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 399599010204 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 399599010205 putative ligand binding residues [chemical binding]; other site 399599010206 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 399599010207 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 399599010208 Walker A/P-loop; other site 399599010209 ATP binding site [chemical binding]; other site 399599010210 Q-loop/lid; other site 399599010211 ABC transporter signature motif; other site 399599010212 Walker B; other site 399599010213 D-loop; other site 399599010214 H-loop/switch region; other site 399599010215 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 399599010216 ABC-ATPase subunit interface; other site 399599010217 dimer interface [polypeptide binding]; other site 399599010218 putative PBP binding regions; other site 399599010219 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 399599010220 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 399599010221 ABC-ATPase subunit interface; other site 399599010222 dimer interface [polypeptide binding]; other site 399599010223 putative PBP binding regions; other site 399599010224 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 399599010225 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 399599010226 N-terminal plug; other site 399599010227 ligand-binding site [chemical binding]; other site 399599010228 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 399599010229 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 399599010230 Walker A/P-loop; other site 399599010231 ATP binding site [chemical binding]; other site 399599010232 Q-loop/lid; other site 399599010233 ABC transporter signature motif; other site 399599010234 Walker B; other site 399599010235 D-loop; other site 399599010236 H-loop/switch region; other site 399599010237 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 399599010238 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 399599010239 Walker A/P-loop; other site 399599010240 ATP binding site [chemical binding]; other site 399599010241 Q-loop/lid; other site 399599010242 ABC transporter signature motif; other site 399599010243 Walker B; other site 399599010244 D-loop; other site 399599010245 H-loop/switch region; other site 399599010246 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 399599010247 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 399599010248 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599010249 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599010250 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 399599010251 dimerization interface [polypeptide binding]; other site 399599010252 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399599010253 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 399599010254 active site 399599010255 metal binding site [ion binding]; metal-binding site 399599010256 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 399599010257 non-specific DNA binding site [nucleotide binding]; other site 399599010258 salt bridge; other site 399599010259 sequence-specific DNA binding site [nucleotide binding]; other site 399599010260 HipA N-terminal domain; Region: Couple_hipA; pfam13657 399599010261 HipA-like N-terminal domain; Region: HipA_N; pfam07805 399599010262 HipA-like C-terminal domain; Region: HipA_C; pfam07804 399599010263 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; cl00447 399599010264 nudix motif; other site 399599010265 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599010266 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 399599010267 Coenzyme A binding pocket [chemical binding]; other site 399599010268 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 399599010269 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 399599010270 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 399599010271 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 399599010272 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 399599010273 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 399599010274 N-terminal plug; other site 399599010275 ligand-binding site [chemical binding]; other site 399599010276 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 399599010277 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 399599010278 non-specific DNA binding site [nucleotide binding]; other site 399599010279 salt bridge; other site 399599010280 sequence-specific DNA binding site [nucleotide binding]; other site 399599010281 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 399599010282 active site 399599010283 DNA binding site [nucleotide binding] 399599010284 Int/Topo IB signature motif; other site 399599010285 Replication protein P; Region: Phage_lambda_P; pfam06992 399599010286 Helix-turn-helix domain; Region: HTH_36; pfam13730 399599010287 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 399599010288 DNA-binding transcriptional regulator DicC; Provisional; Region: PRK09744 399599010289 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 399599010290 non-specific DNA binding site [nucleotide binding]; other site 399599010291 Predicted transcriptional regulator [Transcription]; Region: COG2932 399599010292 salt bridge; other site 399599010293 sequence-specific DNA binding site [nucleotide binding]; other site 399599010294 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 399599010295 Catalytic site [active] 399599010296 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 399599010297 RT_Bac_retron_I: 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_I; cd01646 399599010298 putative active site [active] 399599010299 putative NTP binding site [chemical binding]; other site 399599010300 putative nucleic acid binding site [nucleotide binding]; other site 399599010301 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 399599010302 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 399599010303 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 399599010304 cofactor binding site; other site 399599010305 DNA binding site [nucleotide binding] 399599010306 substrate interaction site [chemical binding]; other site 399599010307 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 399599010308 Domain of unknown function (DUF4224); Region: DUF4224; pfam13986 399599010309 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 399599010310 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 399599010311 active site 399599010312 DNA binding site [nucleotide binding] 399599010313 Int/Topo IB signature motif; other site 399599010314 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 399599010315 SEC-C motif; Region: SEC-C; pfam02810 399599010316 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 399599010317 catalytic site [active] 399599010318 putative active site [active] 399599010319 putative substrate binding site [chemical binding]; other site 399599010320 Protein of unknown function (DUF808); Region: DUF808; pfam05661 399599010321 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 399599010322 tetramer (dimer of dimers) interface [polypeptide binding]; other site 399599010323 active site 399599010324 dimer interface [polypeptide binding]; other site 399599010325 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 399599010326 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 399599010327 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 399599010328 putative RNA binding site [nucleotide binding]; other site 399599010329 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 399599010330 S-adenosylmethionine binding site [chemical binding]; other site 399599010331 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 399599010332 Predicted integral membrane protein (DUF2282); Region: DUF2282; cl02366 399599010333 hypothetical protein; Provisional; Region: PRK05409 399599010334 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 399599010335 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 399599010336 putative metal binding site [ion binding]; other site 399599010337 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 399599010338 putative catalytic site [active] 399599010339 putative phosphate binding site [ion binding]; other site 399599010340 putative metal binding site [ion binding]; other site 399599010341 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 399599010342 MgtE intracellular N domain; Region: MgtE_N; pfam03448 399599010343 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 399599010344 Divalent cation transporter; Region: MgtE; pfam01769 399599010345 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599010346 dimer interface [polypeptide binding]; other site 399599010347 putative CheW interface [polypeptide binding]; other site 399599010348 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 399599010349 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399599010350 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 399599010351 substrate binding pocket [chemical binding]; other site 399599010352 membrane-bound complex binding site; other site 399599010353 hinge residues; other site 399599010354 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 399599010355 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 399599010356 active site 399599010357 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 399599010358 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 399599010359 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 399599010360 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 399599010361 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 399599010362 ATP-grasp domain; Region: ATP-grasp_4; cl17255 399599010363 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 399599010364 IMP binding site; other site 399599010365 dimer interface [polypeptide binding]; other site 399599010366 interdomain contacts; other site 399599010367 partial ornithine binding site; other site 399599010368 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 399599010369 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 399599010370 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 399599010371 catalytic site [active] 399599010372 subunit interface [polypeptide binding]; other site 399599010373 dihydrodipicolinate reductase; Provisional; Region: PRK00048 399599010374 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 399599010375 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 399599010376 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 399599010377 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 399599010378 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 399599010379 Peptidase family M48; Region: Peptidase_M48; pfam01435 399599010380 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 399599010381 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 399599010382 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 399599010383 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 399599010384 ATP binding site [chemical binding]; other site 399599010385 putative Mg++ binding site [ion binding]; other site 399599010386 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 399599010387 nucleotide binding region [chemical binding]; other site 399599010388 ATP-binding site [chemical binding]; other site 399599010389 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 399599010390 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 399599010391 ligand binding site [chemical binding]; other site 399599010392 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 399599010393 chaperone protein DnaJ; Provisional; Region: PRK10767 399599010394 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 399599010395 HSP70 interaction site [polypeptide binding]; other site 399599010396 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 399599010397 substrate binding site [polypeptide binding]; other site 399599010398 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 399599010399 Zn binding sites [ion binding]; other site 399599010400 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 399599010401 dimer interface [polypeptide binding]; other site 399599010402 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 399599010403 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 399599010404 nucleotide binding site [chemical binding]; other site 399599010405 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 399599010406 EamA-like transporter family; Region: EamA; pfam00892 399599010407 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 399599010408 putative deacylase active site [active] 399599010409 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 399599010410 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 399599010411 putative catalytic cysteine [active] 399599010412 gamma-glutamyl kinase; Provisional; Region: PRK05429 399599010413 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 399599010414 nucleotide binding site [chemical binding]; other site 399599010415 homotetrameric interface [polypeptide binding]; other site 399599010416 putative phosphate binding site [ion binding]; other site 399599010417 putative allosteric binding site; other site 399599010418 PUA domain; Region: PUA; pfam01472 399599010419 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 399599010420 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 399599010421 interface (dimer of trimers) [polypeptide binding]; other site 399599010422 Substrate-binding/catalytic site; other site 399599010423 Zn-binding sites [ion binding]; other site 399599010424 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 399599010425 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 399599010426 metal binding site [ion binding]; metal-binding site 399599010427 dimer interface [polypeptide binding]; other site 399599010428 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 399599010429 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 399599010430 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 399599010431 dimerization interface [polypeptide binding]; other site 399599010432 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599010433 dimer interface [polypeptide binding]; other site 399599010434 putative CheW interface [polypeptide binding]; other site 399599010435 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 399599010436 EamA-like transporter family; Region: EamA; pfam00892 399599010437 EamA-like transporter family; Region: EamA; pfam00892 399599010438 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599010439 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599010440 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 399599010441 putative effector binding pocket; other site 399599010442 dimerization interface [polypeptide binding]; other site 399599010443 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 399599010444 active site 399599010445 DNA polymerase IV; Validated; Region: PRK02406 399599010446 DNA binding site [nucleotide binding] 399599010447 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 399599010448 dimerization interface [polypeptide binding]; other site 399599010449 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599010450 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599010451 dimer interface [polypeptide binding]; other site 399599010452 putative CheW interface [polypeptide binding]; other site 399599010453 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 399599010454 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 399599010455 heme binding site [chemical binding]; other site 399599010456 ferroxidase pore; other site 399599010457 ferroxidase diiron center [ion binding]; other site 399599010458 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 399599010459 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 399599010460 heme binding site [chemical binding]; other site 399599010461 ferroxidase pore; other site 399599010462 ferroxidase diiron center [ion binding]; other site 399599010463 Protein of unknown function (DUF539); Region: DUF539; cl01129 399599010464 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 399599010465 ApbE family; Region: ApbE; pfam02424 399599010466 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 399599010467 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 399599010468 FAD binding pocket [chemical binding]; other site 399599010469 FAD binding motif [chemical binding]; other site 399599010470 phosphate binding motif [ion binding]; other site 399599010471 beta-alpha-beta structure motif; other site 399599010472 NAD binding pocket [chemical binding]; other site 399599010473 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 399599010474 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 399599010475 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 399599010476 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 399599010477 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 399599010478 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 399599010479 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 399599010480 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 399599010481 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 399599010482 S-ribosylhomocysteinase; Provisional; Region: PRK02260 399599010483 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 399599010484 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 399599010485 BolA-like protein; Region: BolA; cl00386 399599010486 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 399599010487 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 399599010488 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 399599010489 S-adenosylmethionine binding site [chemical binding]; other site 399599010490 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 399599010491 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 399599010492 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 399599010493 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 399599010494 homodimer interface [polypeptide binding]; other site 399599010495 substrate-cofactor binding pocket; other site 399599010496 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599010497 catalytic residue [active] 399599010498 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 399599010499 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399599010500 DNA-binding site [nucleotide binding]; DNA binding site 399599010501 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 399599010502 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599010503 homodimer interface [polypeptide binding]; other site 399599010504 catalytic residue [active] 399599010505 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 399599010506 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 399599010507 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 399599010508 Protein of unknown function (DUF2474); Region: DUF2474; pfam10617 399599010509 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 399599010510 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 399599010511 Helix-turn-helix domain; Region: HTH_18; pfam12833 399599010512 EamA-like transporter family; Region: EamA; pfam00892 399599010513 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 399599010514 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 399599010515 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 399599010516 dimerization interface [polypeptide binding]; other site 399599010517 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599010518 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599010519 dimer interface [polypeptide binding]; other site 399599010520 putative CheW interface [polypeptide binding]; other site 399599010521 ApbE family; Region: ApbE; pfam02424 399599010522 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 399599010523 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 399599010524 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 399599010525 RNA binding surface [nucleotide binding]; other site 399599010526 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 399599010527 probable active site [active] 399599010528 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399599010529 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 399599010530 ligand binding site [chemical binding]; other site 399599010531 putative transposase OrfB; Reviewed; Region: PHA02517 399599010532 HTH-like domain; Region: HTH_21; pfam13276 399599010533 Integrase core domain; Region: rve; pfam00665 399599010534 Integrase core domain; Region: rve_2; pfam13333 399599010535 Transposase; Region: HTH_Tnp_1; pfam01527 399599010536 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599010537 Peptidase S46; Region: Peptidase_S46; pfam10459 399599010538 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 399599010539 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 399599010540 aromatic amino acid transport protein; Region: araaP; TIGR00837 399599010541 N-acetylglucosamine-binding protein A; Reviewed; Region: PRK13211 399599010542 Chitin binding domain; Region: Chitin_bind_3; pfam03067 399599010543 Predicted membrane protein [Function unknown]; Region: COG2119 399599010544 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 399599010545 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 399599010546 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 399599010547 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 399599010548 tetramer interface [polypeptide binding]; other site 399599010549 heme binding pocket [chemical binding]; other site 399599010550 NADPH binding site [chemical binding]; other site 399599010551 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 399599010552 CoenzymeA binding site [chemical binding]; other site 399599010553 subunit interaction site [polypeptide binding]; other site 399599010554 PHB binding site; other site 399599010555 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 399599010556 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 399599010557 generic binding surface II; other site 399599010558 generic binding surface I; other site 399599010559 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 399599010560 putative catalytic site [active] 399599010561 putative metal binding site [ion binding]; other site 399599010562 putative phosphate binding site [ion binding]; other site 399599010563 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 399599010564 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 399599010565 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 399599010566 FOG: WD40 repeat [General function prediction only]; Region: COG2319 399599010567 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 399599010568 structural tetrad; other site 399599010569 SlyX; Region: SlyX; pfam04102 399599010570 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 399599010571 active site 399599010572 catalytic residues [active] 399599010573 metal binding site [ion binding]; metal-binding site 399599010574 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 399599010575 uncharacterized proteobacterial lipoprotein; Region: lp_; TIGR02722 399599010576 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 399599010577 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 399599010578 Zn binding site [ion binding]; other site 399599010579 Cache domain; Region: Cache_1; pfam02743 399599010580 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 399599010581 dimerization interface [polypeptide binding]; other site 399599010582 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599010583 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599010584 dimer interface [polypeptide binding]; other site 399599010585 putative CheW interface [polypeptide binding]; other site 399599010586 PAS domain S-box; Region: sensory_box; TIGR00229 399599010587 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 399599010588 putative active site [active] 399599010589 heme pocket [chemical binding]; other site 399599010590 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 399599010591 GAF domain; Region: GAF; pfam01590 399599010592 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599010593 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599010594 metal binding site [ion binding]; metal-binding site 399599010595 active site 399599010596 I-site; other site 399599010597 Protein of unknown function DUF72; Region: DUF72; cl00777 399599010598 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 399599010599 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 399599010600 tetramer interface [polypeptide binding]; other site 399599010601 active site 399599010602 Mg2+/Mn2+ binding site [ion binding]; other site 399599010603 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 399599010604 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 399599010605 Cupin domain; Region: Cupin_2; cl17218 399599010606 Helix-turn-helix domain; Region: HTH_18; pfam12833 399599010607 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399599010608 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 399599010609 catalytic triad [active] 399599010610 Periplasmic glucans biosynthesis protein [Inorganic ion transport and metabolism]; Region: MdoG; COG3131 399599010611 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 399599010612 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 399599010613 CoenzymeA binding site [chemical binding]; other site 399599010614 subunit interaction site [polypeptide binding]; other site 399599010615 PHB binding site; other site 399599010616 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 399599010617 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 399599010618 dimer interface [polypeptide binding]; other site 399599010619 active site 399599010620 heme binding site [chemical binding]; other site 399599010621 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 399599010622 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 399599010623 Carbon starvation protein CstA; Region: CstA; pfam02554 399599010624 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 399599010625 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 399599010626 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 399599010627 dimer interface [polypeptide binding]; other site 399599010628 putative anticodon binding site; other site 399599010629 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 399599010630 motif 1; other site 399599010631 active site 399599010632 motif 2; other site 399599010633 motif 3; other site 399599010634 peptide chain release factor 2; Validated; Region: prfB; PRK00578 399599010635 This domain is found in peptide chain release factors; Region: PCRF; smart00937 399599010636 RF-1 domain; Region: RF-1; pfam00472 399599010637 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 399599010638 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 399599010639 catalytic loop [active] 399599010640 iron binding site [ion binding]; other site 399599010641 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 399599010642 4Fe-4S binding domain; Region: Fer4_6; pfam12837 399599010643 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 399599010644 4Fe-4S binding domain; Region: Fer4; pfam00037 399599010645 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 399599010646 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 399599010647 [4Fe-4S] binding site [ion binding]; other site 399599010648 molybdopterin cofactor binding site; other site 399599010649 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 399599010650 molybdopterin cofactor binding site; other site 399599010651 Cache domain; Region: Cache_2; pfam08269 399599010652 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 399599010653 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 399599010654 dimerization interface [polypeptide binding]; other site 399599010655 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599010656 dimer interface [polypeptide binding]; other site 399599010657 putative CheW interface [polypeptide binding]; other site 399599010658 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 399599010659 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 399599010660 Chromate transporter; Region: Chromate_transp; pfam02417 399599010661 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 399599010662 FAD dependent oxidoreductase; Region: DAO; pfam01266 399599010663 Transcriptional regulators [Transcription]; Region: MarR; COG1846 399599010664 MarR family; Region: MarR; pfam01047 399599010665 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 399599010666 Thiol-disulfide isomerase and thioredoxins [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: TrxA; COG0526 399599010667 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 399599010668 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 399599010669 S-adenosylmethionine binding site [chemical binding]; other site 399599010670 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 399599010671 heme-binding residues [chemical binding]; other site 399599010672 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 399599010673 L-aspartate oxidase; Provisional; Region: PRK06175 399599010674 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 399599010675 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 399599010676 putative ligand binding site [chemical binding]; other site 399599010677 putative NAD binding site [chemical binding]; other site 399599010678 catalytic site [active] 399599010679 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 399599010680 Domain of unknown function (DU1801); Region: DUF1801; cl17490 399599010681 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 399599010682 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 399599010683 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 399599010684 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 399599010685 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 399599010686 Mechanosensitive ion channel; Region: MS_channel; pfam00924 399599010687 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 399599010688 multifunctional aminopeptidase A; Provisional; Region: PRK00913 399599010689 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 399599010690 interface (dimer of trimers) [polypeptide binding]; other site 399599010691 Substrate-binding/catalytic site; other site 399599010692 Zn-binding sites [ion binding]; other site 399599010693 peroxiredoxin; Region: AhpC; TIGR03137 399599010694 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 399599010695 dimer interface [polypeptide binding]; other site 399599010696 decamer (pentamer of dimers) interface [polypeptide binding]; other site 399599010697 catalytic triad [active] 399599010698 peroxidatic and resolving cysteines [active] 399599010699 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 399599010700 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 399599010701 catalytic residue [active] 399599010702 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 399599010703 catalytic residues [active] 399599010704 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 399599010705 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 399599010706 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599010707 Coenzyme A binding pocket [chemical binding]; other site 399599010708 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 399599010709 DHH family; Region: DHH; pfam01368 399599010710 DHHA1 domain; Region: DHHA1; pfam02272 399599010711 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 399599010712 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 399599010713 dimerization domain [polypeptide binding]; other site 399599010714 dimer interface [polypeptide binding]; other site 399599010715 catalytic residues [active] 399599010716 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 399599010717 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 399599010718 active site 399599010719 Int/Topo IB signature motif; other site 399599010720 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 399599010721 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 399599010722 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 399599010723 S-adenosylmethionine binding site [chemical binding]; other site 399599010724 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 399599010725 DEAD-like helicases superfamily; Region: DEXDc; smart00487 399599010726 ATP binding site [chemical binding]; other site 399599010727 Mg++ binding site [ion binding]; other site 399599010728 motif III; other site 399599010729 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 399599010730 nucleotide binding region [chemical binding]; other site 399599010731 ATP-binding site [chemical binding]; other site 399599010732 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399599010733 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599010734 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 399599010735 Protein export membrane protein; Region: SecD_SecF; cl14618 399599010736 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 399599010737 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 399599010738 FeS/SAM binding site; other site 399599010739 PAS domain; Region: PAS_9; pfam13426 399599010740 PAS domain; Region: PAS_9; pfam13426 399599010741 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599010742 I-site; other site 399599010743 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 399599010744 DNA binding site [nucleotide binding] 399599010745 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 399599010746 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 399599010747 Protein of unknown function, DUF481; Region: DUF481; pfam04338 399599010748 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 399599010749 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 399599010750 intersubunit interface [polypeptide binding]; other site 399599010751 active site 399599010752 zinc binding site [ion binding]; other site 399599010753 Na+ binding site [ion binding]; other site 399599010754 Phosphoglycerate kinase; Region: PGK; pfam00162 399599010755 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 399599010756 substrate binding site [chemical binding]; other site 399599010757 hinge regions; other site 399599010758 ADP binding site [chemical binding]; other site 399599010759 catalytic site [active] 399599010760 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 399599010761 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 399599010762 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 399599010763 transketolase; Reviewed; Region: PRK12753 399599010764 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 399599010765 TPP-binding site [chemical binding]; other site 399599010766 dimer interface [polypeptide binding]; other site 399599010767 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 399599010768 PYR/PP interface [polypeptide binding]; other site 399599010769 dimer interface [polypeptide binding]; other site 399599010770 TPP binding site [chemical binding]; other site 399599010771 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 399599010772 S-adenosylmethionine synthetase; Validated; Region: PRK05250 399599010773 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 399599010774 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 399599010775 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 399599010776 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 399599010777 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 399599010778 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 399599010779 putative active site [active] 399599010780 putative NTP binding site [chemical binding]; other site 399599010781 putative nucleic acid binding site [nucleotide binding]; other site 399599010782 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 399599010783 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599010784 Coenzyme A binding pocket [chemical binding]; other site 399599010785 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 399599010786 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599010787 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599010788 metal binding site [ion binding]; metal-binding site 399599010789 active site 399599010790 I-site; other site 399599010791 META domain; Region: META; pfam03724 399599010792 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 399599010793 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 399599010794 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 399599010795 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599010796 Coenzyme A binding pocket [chemical binding]; other site 399599010797 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 399599010798 serine transporter; Region: stp; TIGR00814 399599010799 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 399599010800 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 399599010801 MarR family; Region: MarR; pfam01047 399599010802 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599010803 Coenzyme A binding pocket [chemical binding]; other site 399599010804 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 399599010805 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 399599010806 catalytic loop [active] 399599010807 iron binding site [ion binding]; other site 399599010808 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 399599010809 FAD binding pocket [chemical binding]; other site 399599010810 FAD binding motif [chemical binding]; other site 399599010811 phosphate binding motif [ion binding]; other site 399599010812 beta-alpha-beta structure motif; other site 399599010813 NAD binding pocket [chemical binding]; other site 399599010814 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 399599010815 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 399599010816 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 399599010817 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 399599010818 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 399599010819 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 399599010820 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 399599010821 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 399599010822 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 399599010823 active site 399599010824 catalytic tetrad [active] 399599010825 MltA-interacting protein MipA; Region: MipA; cl01504 399599010826 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399599010827 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 399599010828 dimerization interface [polypeptide binding]; other site 399599010829 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 399599010830 dimer interface [polypeptide binding]; other site 399599010831 phosphorylation site [posttranslational modification] 399599010832 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599010833 ATP binding site [chemical binding]; other site 399599010834 Mg2+ binding site [ion binding]; other site 399599010835 G-X-G motif; other site 399599010836 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 399599010837 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599010838 active site 399599010839 phosphorylation site [posttranslational modification] 399599010840 intermolecular recognition site; other site 399599010841 dimerization interface [polypeptide binding]; other site 399599010842 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 399599010843 DNA binding site [nucleotide binding] 399599010844 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 399599010845 MltA-interacting protein MipA; Region: MipA; cl01504 399599010846 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 399599010847 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 399599010848 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 399599010849 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 399599010850 dimerization interface [polypeptide binding]; other site 399599010851 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599010852 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599010853 dimer interface [polypeptide binding]; other site 399599010854 putative CheW interface [polypeptide binding]; other site 399599010855 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 399599010856 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 399599010857 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 399599010858 catalytic residue [active] 399599010859 Fe-S metabolism associated domain; Region: SufE; cl00951 399599010860 Membrane dipeptidase (Peptidase family M19); Region: Peptidase_M19; pfam01244 399599010861 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 399599010862 active site 399599010863 Predicted ATPase [General function prediction only]; Region: COG4637 399599010864 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599010865 Walker A/P-loop; other site 399599010866 ATP binding site [chemical binding]; other site 399599010867 Cupin domain; Region: Cupin_2; pfam07883 399599010868 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 399599010869 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 399599010870 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 399599010871 pentamer interface [polypeptide binding]; other site 399599010872 dodecaamer interface [polypeptide binding]; other site 399599010873 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 399599010874 Peptidase family U32; Region: Peptidase_U32; pfam01136 399599010875 Collagenase; Region: DUF3656; pfam12392 399599010876 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 399599010877 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 399599010878 active site 399599010879 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 399599010880 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 399599010881 putative DNA binding site [nucleotide binding]; other site 399599010882 putative Zn2+ binding site [ion binding]; other site 399599010883 AsnC family; Region: AsnC_trans_reg; pfam01037 399599010884 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 399599010885 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 399599010886 putative active site [active] 399599010887 catalytic triad [active] 399599010888 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 399599010889 PA/protease or protease-like domain interface [polypeptide binding]; other site 399599010890 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 399599010891 catalytic residues [active] 399599010892 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599010893 Integrase core domain; Region: rve; pfam00665 399599010894 Integrase core domain; Region: rve_3; pfam13683 399599010895 inner membrane transport permease; Provisional; Region: PRK15066 399599010896 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 399599010897 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 399599010898 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 399599010899 Walker A/P-loop; other site 399599010900 ATP binding site [chemical binding]; other site 399599010901 Q-loop/lid; other site 399599010902 ABC transporter signature motif; other site 399599010903 Walker B; other site 399599010904 D-loop; other site 399599010905 H-loop/switch region; other site 399599010906 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 399599010907 active site 399599010908 aromatic acid decarboxylase; Validated; Region: PRK05920 399599010909 Flavoprotein; Region: Flavoprotein; pfam02441 399599010910 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 399599010911 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 399599010912 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 399599010913 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 399599010914 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 399599010915 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 399599010916 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 399599010917 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 399599010918 hypothetical protein; Provisional; Region: PRK11627 399599010919 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 399599010920 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 399599010921 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 399599010922 substrate binding site [chemical binding]; other site 399599010923 muropeptide transporter; Reviewed; Region: ampG; PRK11902 399599010924 AmpG-like permease; Region: 2A0125; TIGR00901 399599010925 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 399599010926 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 399599010927 Predicted integral membrane protein [Function unknown]; Region: COG5652 399599010928 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 399599010929 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 399599010930 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 399599010931 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 399599010932 Nitrogen regulatory protein P-II; Region: P-II; smart00938 399599010933 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 399599010934 CSS motif domain associated with EAL; Region: CSS-motif; pfam12792 399599010935 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 399599010936 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 399599010937 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 399599010938 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 399599010939 Protein of unknown function (DUF819); Region: DUF819; cl02317 399599010940 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 399599010941 Tetratricopeptide repeat; Region: TPR_9; pfam13371 399599010942 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 399599010943 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599010944 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 399599010945 Coenzyme A binding pocket [chemical binding]; other site 399599010946 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 399599010947 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 399599010948 peptide chain release factor 1; Validated; Region: prfA; PRK00591 399599010949 This domain is found in peptide chain release factors; Region: PCRF; smart00937 399599010950 RF-1 domain; Region: RF-1; pfam00472 399599010951 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 399599010952 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 399599010953 tRNA; other site 399599010954 putative tRNA binding site [nucleotide binding]; other site 399599010955 putative NADP binding site [chemical binding]; other site 399599010956 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 399599010957 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 399599010958 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 399599010959 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 399599010960 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 399599010961 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 399599010962 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 399599010963 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 399599010964 active site 399599010965 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 399599010966 dimerization interface [polypeptide binding]; other site 399599010967 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599010968 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599010969 dimer interface [polypeptide binding]; other site 399599010970 putative CheW interface [polypeptide binding]; other site 399599010971 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 399599010972 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399599010973 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 399599010974 DNA binding residues [nucleotide binding] 399599010975 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 399599010976 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 399599010977 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 399599010978 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 399599010979 RNA binding surface [nucleotide binding]; other site 399599010980 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 399599010981 active site 399599010982 uracil binding [chemical binding]; other site 399599010983 maltose O-acetyltransferase; Provisional; Region: PRK10092 399599010984 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 399599010985 trimer interface [polypeptide binding]; other site 399599010986 active site 399599010987 substrate binding site [chemical binding]; other site 399599010988 CoA binding site [chemical binding]; other site 399599010989 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 399599010990 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 399599010991 active site 399599010992 Zn binding site [ion binding]; other site 399599010993 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 399599010994 synthetase active site [active] 399599010995 NTP binding site [chemical binding]; other site 399599010996 metal binding site [ion binding]; metal-binding site 399599010997 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 399599010998 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 399599010999 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 399599011000 putative C-terminal domain interface [polypeptide binding]; other site 399599011001 putative GSH binding site (G-site) [chemical binding]; other site 399599011002 putative dimer interface [polypeptide binding]; other site 399599011003 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 399599011004 dimer interface [polypeptide binding]; other site 399599011005 N-terminal domain interface [polypeptide binding]; other site 399599011006 substrate binding pocket (H-site) [chemical binding]; other site 399599011007 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 399599011008 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 399599011009 N-terminal plug; other site 399599011010 ligand-binding site [chemical binding]; other site 399599011011 Bacterial PH domain; Region: DUF304; pfam03703 399599011012 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 399599011013 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 399599011014 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 399599011015 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 399599011016 malate dehydrogenase; Provisional; Region: PRK13529 399599011017 Malic enzyme, N-terminal domain; Region: malic; pfam00390 399599011018 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 399599011019 NAD(P) binding site [chemical binding]; other site 399599011020 Protein of unknown function (DUF3069); Region: DUF3069; pfam11269 399599011021 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 399599011022 active site 399599011023 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 399599011024 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599011025 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599011026 metal binding site [ion binding]; metal-binding site 399599011027 active site 399599011028 I-site; other site 399599011029 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399599011030 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 399599011031 substrate binding pocket [chemical binding]; other site 399599011032 membrane-bound complex binding site; other site 399599011033 hinge residues; other site 399599011034 epoxyqueuosine reductase; Region: TIGR00276 399599011035 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 399599011036 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 399599011037 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 399599011038 THF binding site; other site 399599011039 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 399599011040 substrate binding site [chemical binding]; other site 399599011041 THF binding site; other site 399599011042 zinc-binding site [ion binding]; other site 399599011043 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599011044 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599011045 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 399599011046 putative dimerization interface [polypeptide binding]; other site 399599011047 Predicted signal transduction protein [Signal transduction mechanisms]; Region: COG1639 399599011048 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 399599011049 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 399599011050 N-terminal plug; other site 399599011051 ligand-binding site [chemical binding]; other site 399599011052 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 399599011053 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 399599011054 active site 399599011055 tetramer interface [polypeptide binding]; other site 399599011056 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 399599011057 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 399599011058 substrate binding site [chemical binding]; other site 399599011059 dimer interface [polypeptide binding]; other site 399599011060 ATP binding site [chemical binding]; other site 399599011061 azurin; Region: azurin; TIGR02695 399599011062 Protein of unknown function (DUF3103); Region: DUF3103; pfam11301 399599011063 Protein of unknown function (DUF3622); Region: DUF3622; pfam12286 399599011064 Glycerophosphodiester phosphodiesterase domain similar to Escherichia coli periplasmic phosphodiesterase (GlpQ) include uncharacterized proteins; Region: GDPD_EcGlpQ_like_1; cd08560 399599011065 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 399599011066 putative active site [active] 399599011067 catalytic site [active] 399599011068 putative metal binding site [ion binding]; other site 399599011069 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 399599011070 active site 399599011071 Phosphodiesterase/alkaline phosphatase D [Inorganic ion transport and metabolism]; Region: PhoD; COG3540 399599011072 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 399599011073 putative active site [active] 399599011074 putative metal binding site [ion binding]; other site 399599011075 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 399599011076 FOG: CBS domain [General function prediction only]; Region: COG0517 399599011077 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 399599011078 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_8; cd13134 399599011079 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 399599011080 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 399599011081 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 399599011082 substrate binding pocket [chemical binding]; other site 399599011083 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 399599011084 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 399599011085 metal ion-dependent adhesion site (MIDAS); other site 399599011086 Domain of unknown function (DUF1973); Region: DUF1973; pfam09315 399599011087 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 399599011088 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599011089 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599011090 metal binding site [ion binding]; metal-binding site 399599011091 active site 399599011092 I-site; other site 399599011093 YcaO domain protein; Region: TIGR03549 399599011094 OsmC-like protein; Region: OsmC; pfam02566 399599011095 YcaO-like family; Region: YcaO; pfam02624 399599011096 Cache domain; Region: Cache_2; pfam08269 399599011097 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 399599011098 dimerization interface [polypeptide binding]; other site 399599011099 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599011100 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599011101 dimer interface [polypeptide binding]; other site 399599011102 putative CheW interface [polypeptide binding]; other site 399599011103 Ribosome recycling factor; Region: RRF_GI; pfam12614 399599011104 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599011105 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599011106 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 399599011107 putative effector binding pocket; other site 399599011108 dimerization interface [polypeptide binding]; other site 399599011109 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 399599011110 putative NAD(P) binding site [chemical binding]; other site 399599011111 homodimer interface [polypeptide binding]; other site 399599011112 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 399599011113 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 399599011114 active site 399599011115 dimer interface [polypeptide binding]; other site 399599011116 motif 1; other site 399599011117 motif 2; other site 399599011118 motif 3; other site 399599011119 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible for...; Region: HGTP_anticodon; cl00266 399599011120 anticodon binding site; other site 399599011121 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399599011122 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 399599011123 substrate binding pocket [chemical binding]; other site 399599011124 membrane-bound complex binding site; other site 399599011125 hinge residues; other site 399599011126 NACHT domain; Region: NACHT; pfam05729 399599011127 glycine dehydrogenase; Provisional; Region: PRK05367 399599011128 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 399599011129 tetramer interface [polypeptide binding]; other site 399599011130 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599011131 catalytic residue [active] 399599011132 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 399599011133 tetramer interface [polypeptide binding]; other site 399599011134 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599011135 catalytic residue [active] 399599011136 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 399599011137 lipoyl attachment site [posttranslational modification]; other site 399599011138 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 399599011139 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 399599011140 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 399599011141 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 399599011142 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 399599011143 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 399599011144 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 399599011145 Cell division protein ZapA; Region: ZapA; pfam05164 399599011146 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 399599011147 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 399599011148 dihydromonapterin reductase; Provisional; Region: PRK06483 399599011149 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399599011150 NAD(P) binding site [chemical binding]; other site 399599011151 active site 399599011152 Protein of unknown function, DUF393; Region: DUF393; pfam04134 399599011153 malate dehydrogenase; Provisional; Region: PRK05086 399599011154 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 399599011155 NAD binding site [chemical binding]; other site 399599011156 dimerization interface [polypeptide binding]; other site 399599011157 Substrate binding site [chemical binding]; other site 399599011158 arginine repressor; Provisional; Region: PRK05066 399599011159 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 399599011160 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 399599011161 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 399599011162 NADH(P)-binding; Region: NAD_binding_10; pfam13460 399599011163 NAD binding site [chemical binding]; other site 399599011164 substrate binding site [chemical binding]; other site 399599011165 putative active site [active] 399599011166 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599011167 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599011168 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 399599011169 putative effector binding pocket; other site 399599011170 dimerization interface [polypeptide binding]; other site 399599011171 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 399599011172 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 399599011173 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 399599011174 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 399599011175 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 399599011176 Walker A/P-loop; other site 399599011177 ATP binding site [chemical binding]; other site 399599011178 Q-loop/lid; other site 399599011179 ABC transporter signature motif; other site 399599011180 Walker B; other site 399599011181 D-loop; other site 399599011182 H-loop/switch region; other site 399599011183 TOBE domain; Region: TOBE_2; pfam08402 399599011184 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 399599011185 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 399599011186 dimer interface [polypeptide binding]; other site 399599011187 conserved gate region; other site 399599011188 putative PBP binding loops; other site 399599011189 ABC-ATPase subunit interface; other site 399599011190 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 399599011191 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 399599011192 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 399599011193 putative C-terminal domain interface [polypeptide binding]; other site 399599011194 putative GSH binding site (G-site) [chemical binding]; other site 399599011195 putative dimer interface [polypeptide binding]; other site 399599011196 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 399599011197 dimer interface [polypeptide binding]; other site 399599011198 N-terminal domain interface [polypeptide binding]; other site 399599011199 substrate binding pocket (H-site) [chemical binding]; other site 399599011200 ferredoxin-NADP reductase; Provisional; Region: PRK10926 399599011201 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 399599011202 FAD binding pocket [chemical binding]; other site 399599011203 FAD binding motif [chemical binding]; other site 399599011204 phosphate binding motif [ion binding]; other site 399599011205 beta-alpha-beta structure motif; other site 399599011206 NAD binding pocket [chemical binding]; other site 399599011207 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 399599011208 catalytic core [active] 399599011209 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 399599011210 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 399599011211 active site 399599011212 FMN binding site [chemical binding]; other site 399599011213 substrate binding site [chemical binding]; other site 399599011214 3Fe-4S cluster binding site [ion binding]; other site 399599011215 Src Homology 3 domain superfamily; Region: SH3; cl17036 399599011216 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 399599011217 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 399599011218 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599011219 Walker A/P-loop; other site 399599011220 ATP binding site [chemical binding]; other site 399599011221 Q-loop/lid; other site 399599011222 ABC transporter signature motif; other site 399599011223 Walker B; other site 399599011224 D-loop; other site 399599011225 H-loop/switch region; other site 399599011226 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 399599011227 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 399599011228 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 399599011229 binding surface 399599011230 TPR motif; other site 399599011231 Tetratricopeptide repeat; Region: TPR_12; pfam13424 399599011232 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 399599011233 binding surface 399599011234 TPR motif; other site 399599011235 TPR repeat; Region: TPR_11; pfam13414 399599011236 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 399599011237 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 399599011238 Nitrogen regulatory protein P-II; Region: P-II; smart00938 399599011239 Isochorismatase family; Region: Isochorismatase; pfam00857 399599011240 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 399599011241 catalytic triad [active] 399599011242 dimer interface [polypeptide binding]; other site 399599011243 conserved cis-peptide bond; other site 399599011244 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 399599011245 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 399599011246 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 399599011247 HAMP domain; Region: HAMP; pfam00672 399599011248 Histidine kinase; Region: HisKA_3; pfam07730 399599011249 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599011250 ATP binding site [chemical binding]; other site 399599011251 Mg2+ binding site [ion binding]; other site 399599011252 G-X-G motif; other site 399599011253 transcriptional regulator NarL; Provisional; Region: PRK10651 399599011254 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599011255 active site 399599011256 phosphorylation site [posttranslational modification] 399599011257 intermolecular recognition site; other site 399599011258 dimerization interface [polypeptide binding]; other site 399599011259 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 399599011260 DNA binding residues [nucleotide binding] 399599011261 dimerization interface [polypeptide binding]; other site 399599011262 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 399599011263 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 399599011264 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 399599011265 Cl binding site [ion binding]; other site 399599011266 oligomer interface [polypeptide binding]; other site 399599011267 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 399599011268 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 399599011269 active site 399599011270 Zn binding site [ion binding]; other site 399599011271 aspartate kinase III; Validated; Region: PRK09084 399599011272 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 399599011273 nucleotide binding site [chemical binding]; other site 399599011274 substrate binding site [chemical binding]; other site 399599011275 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC-like_1; cd04912 399599011276 dimer interface [polypeptide binding]; other site 399599011277 allosteric regulatory binding pocket; other site 399599011278 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 399599011279 dimer interface [polypeptide binding]; other site 399599011280 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 399599011281 two-component response regulator; Provisional; Region: PRK11173 399599011282 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599011283 active site 399599011284 phosphorylation site [posttranslational modification] 399599011285 intermolecular recognition site; other site 399599011286 dimerization interface [polypeptide binding]; other site 399599011287 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 399599011288 DNA binding site [nucleotide binding] 399599011289 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 399599011290 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 399599011291 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399599011292 fructose-1,6-bisphosphatase family protein; Region: PLN02628 399599011293 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 399599011294 AMP binding site [chemical binding]; other site 399599011295 metal binding site [ion binding]; metal-binding site 399599011296 active site 399599011297 Nuclease-related domain; Region: NERD; pfam08378 399599011298 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 399599011299 Transposase; Region: DEDD_Tnp_IS110; pfam01548 399599011300 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 399599011301 Transposase; Region: DEDD_Tnp_IS110; pfam01548 399599011302 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 399599011303 BON domain; Region: BON; pfam04972 399599011304 hypothetical protein; Provisional; Region: PRK05208 399599011305 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 399599011306 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 399599011307 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 399599011308 active site 399599011309 metal binding site [ion binding]; metal-binding site 399599011310 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 399599011311 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 399599011312 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599011313 active site 399599011314 phosphorylation site [posttranslational modification] 399599011315 intermolecular recognition site; other site 399599011316 dimerization interface [polypeptide binding]; other site 399599011317 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 399599011318 DNA binding residues [nucleotide binding] 399599011319 dimerization interface [polypeptide binding]; other site 399599011320 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 399599011321 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 399599011322 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 399599011323 dimer interface [polypeptide binding]; other site 399599011324 phosphorylation site [posttranslational modification] 399599011325 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599011326 ATP binding site [chemical binding]; other site 399599011327 Mg2+ binding site [ion binding]; other site 399599011328 G-X-G motif; other site 399599011329 tetrathionate reductase subunit B; Provisional; Region: PRK14993 399599011330 4Fe-4S binding domain; Region: Fer4; pfam00037 399599011331 tetrathionate reductase subunit C; Provisional; Region: PRK14992 399599011332 tetrathionate reductase subunit A; Provisional; Region: PRK14991 399599011333 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 399599011334 molybdopterin cofactor binding site; other site 399599011335 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 399599011336 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 399599011337 putative molybdopterin cofactor binding site; other site 399599011338 PAS domain; Region: PAS_9; pfam13426 399599011339 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 399599011340 putative active site [active] 399599011341 heme pocket [chemical binding]; other site 399599011342 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 399599011343 PAS domain; Region: PAS_9; pfam13426 399599011344 putative active site [active] 399599011345 heme pocket [chemical binding]; other site 399599011346 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599011347 dimer interface [polypeptide binding]; other site 399599011348 putative CheW interface [polypeptide binding]; other site 399599011349 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 399599011350 phage shock protein C; Region: phageshock_pspC; TIGR02978 399599011351 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 399599011352 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 399599011353 Transglycosylase; Region: Transgly; pfam00912 399599011354 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 399599011355 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 399599011356 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 399599011357 ATP binding site [chemical binding]; other site 399599011358 putative Mg++ binding site [ion binding]; other site 399599011359 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 399599011360 nucleotide binding region [chemical binding]; other site 399599011361 ATP-binding site [chemical binding]; other site 399599011362 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 399599011363 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 399599011364 GAF domain; Region: GAF; cl17456 399599011365 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599011366 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599011367 metal binding site [ion binding]; metal-binding site 399599011368 active site 399599011369 I-site; other site 399599011370 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 399599011371 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 399599011372 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 399599011373 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 399599011374 Sel1-like repeats; Region: SEL1; smart00671 399599011375 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 399599011376 TPR motif; other site 399599011377 binding surface 399599011378 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 399599011379 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 399599011380 ligand binding site [chemical binding]; other site 399599011381 flexible hinge region; other site 399599011382 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 399599011383 putative switch regulator; other site 399599011384 non-specific DNA interactions [nucleotide binding]; other site 399599011385 DNA binding site [nucleotide binding] 399599011386 sequence specific DNA binding site [nucleotide binding]; other site 399599011387 putative cAMP binding site [chemical binding]; other site 399599011388 Predicted membrane protein [Function unknown]; Region: COG3212 399599011389 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 399599011390 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599011391 active site 399599011392 phosphorylation site [posttranslational modification] 399599011393 intermolecular recognition site; other site 399599011394 dimerization interface [polypeptide binding]; other site 399599011395 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 399599011396 DNA binding site [nucleotide binding] 399599011397 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399599011398 HAMP domain; Region: HAMP; pfam00672 399599011399 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 399599011400 dimer interface [polypeptide binding]; other site 399599011401 phosphorylation site [posttranslational modification] 399599011402 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599011403 ATP binding site [chemical binding]; other site 399599011404 Mg2+ binding site [ion binding]; other site 399599011405 G-X-G motif; other site 399599011406 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 399599011407 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 399599011408 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 399599011409 NAD(P) binding site [chemical binding]; other site 399599011410 catalytic residues [active] 399599011411 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 399599011412 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 399599011413 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 399599011414 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 399599011415 inhibitor-cofactor binding pocket; inhibition site 399599011416 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599011417 catalytic residue [active] 399599011418 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 399599011419 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 399599011420 HDOD domain; Region: HDOD; pfam08668 399599011421 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 399599011422 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 399599011423 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399599011424 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 399599011425 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 399599011426 glutamine binding [chemical binding]; other site 399599011427 catalytic triad [active] 399599011428 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 399599011429 stringent starvation protein A; Provisional; Region: sspA; PRK09481 399599011430 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 399599011431 C-terminal domain interface [polypeptide binding]; other site 399599011432 putative GSH binding site (G-site) [chemical binding]; other site 399599011433 dimer interface [polypeptide binding]; other site 399599011434 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 399599011435 dimer interface [polypeptide binding]; other site 399599011436 N-terminal domain interface [polypeptide binding]; other site 399599011437 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 399599011438 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 399599011439 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 399599011440 Qi binding site; other site 399599011441 intrachain domain interface; other site 399599011442 interchain domain interface [polypeptide binding]; other site 399599011443 heme bH binding site [chemical binding]; other site 399599011444 heme bL binding site [chemical binding]; other site 399599011445 Qo binding site; other site 399599011446 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 399599011447 interchain domain interface [polypeptide binding]; other site 399599011448 intrachain domain interface; other site 399599011449 Qi binding site; other site 399599011450 Qo binding site; other site 399599011451 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 399599011452 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 399599011453 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 399599011454 [2Fe-2S] cluster binding site [ion binding]; other site 399599011455 FtsH protease regulator HflC; Provisional; Region: PRK11029 399599011456 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 399599011457 FtsH protease regulator HflK; Provisional; Region: PRK10930 399599011458 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 399599011459 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 399599011460 GTPase HflX; Provisional; Region: PRK11058 399599011461 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 399599011462 HflX GTPase family; Region: HflX; cd01878 399599011463 G1 box; other site 399599011464 GTP/Mg2+ binding site [chemical binding]; other site 399599011465 Switch I region; other site 399599011466 G2 box; other site 399599011467 G3 box; other site 399599011468 Switch II region; other site 399599011469 G4 box; other site 399599011470 G5 box; other site 399599011471 bacterial Hfq-like; Region: Hfq; cd01716 399599011472 hexamer interface [polypeptide binding]; other site 399599011473 Sm1 motif; other site 399599011474 RNA binding site [nucleotide binding]; other site 399599011475 Sm2 motif; other site 399599011476 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 399599011477 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 399599011478 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 399599011479 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599011480 ATP binding site [chemical binding]; other site 399599011481 Mg2+ binding site [ion binding]; other site 399599011482 G-X-G motif; other site 399599011483 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 399599011484 ATP binding site [chemical binding]; other site 399599011485 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 399599011486 AMIN domain; Region: AMIN; pfam11741 399599011487 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 399599011488 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 399599011489 active site 399599011490 metal binding site [ion binding]; metal-binding site 399599011491 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 399599011492 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 399599011493 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 399599011494 putative carbohydrate kinase; Provisional; Region: PRK10565 399599011495 Uncharacterized conserved protein [Function unknown]; Region: COG0062 399599011496 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 399599011497 putative substrate binding site [chemical binding]; other site 399599011498 putative ATP binding site [chemical binding]; other site 399599011499 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 399599011500 catalytic site [active] 399599011501 putative active site [active] 399599011502 putative substrate binding site [chemical binding]; other site 399599011503 dimer interface [polypeptide binding]; other site 399599011504 GTPase RsgA; Reviewed; Region: PRK12288 399599011505 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 399599011506 RNA binding site [nucleotide binding]; other site 399599011507 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 399599011508 GTPase/Zn-binding domain interface [polypeptide binding]; other site 399599011509 GTP/Mg2+ binding site [chemical binding]; other site 399599011510 G4 box; other site 399599011511 G5 box; other site 399599011512 G1 box; other site 399599011513 Switch I region; other site 399599011514 G2 box; other site 399599011515 G3 box; other site 399599011516 Switch II region; other site 399599011517 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 399599011518 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 399599011519 EamA-like transporter family; Region: EamA; pfam00892 399599011520 EamA-like transporter family; Region: EamA; pfam00892 399599011521 putative mechanosensitive channel protein; Provisional; Region: PRK10929 399599011522 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 399599011523 Mechanosensitive ion channel; Region: MS_channel; pfam00924 399599011524 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 399599011525 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 399599011526 active site 399599011527 catalytic site [active] 399599011528 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 399599011529 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 399599011530 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 399599011531 NAD binding site [chemical binding]; other site 399599011532 ligand binding site [chemical binding]; other site 399599011533 catalytic site [active] 399599011534 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 399599011535 PAS fold; Region: PAS_3; pfam08447 399599011536 putative active site [active] 399599011537 heme pocket [chemical binding]; other site 399599011538 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 399599011539 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599011540 dimer interface [polypeptide binding]; other site 399599011541 putative CheW interface [polypeptide binding]; other site 399599011542 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 399599011543 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 399599011544 Protein kinase domain; Region: Pkinase; pfam00069 399599011545 Catalytic domain of Protein Kinases; Region: PKc; cd00180 399599011546 active site 399599011547 ATP binding site [chemical binding]; other site 399599011548 substrate binding site [chemical binding]; other site 399599011549 activation loop (A-loop); other site 399599011550 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 399599011551 active site 399599011552 Cache domain; Region: Cache_1; pfam02743 399599011553 PAS fold; Region: PAS_4; pfam08448 399599011554 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 399599011555 putative active site [active] 399599011556 heme pocket [chemical binding]; other site 399599011557 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 399599011558 PAS fold; Region: PAS_3; pfam08447 399599011559 putative active site [active] 399599011560 heme pocket [chemical binding]; other site 399599011561 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 399599011562 dimer interface [polypeptide binding]; other site 399599011563 phosphorylation site [posttranslational modification] 399599011564 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599011565 ATP binding site [chemical binding]; other site 399599011566 Mg2+ binding site [ion binding]; other site 399599011567 G-X-G motif; other site 399599011568 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599011569 Response regulator receiver domain; Region: Response_reg; pfam00072 399599011570 active site 399599011571 phosphorylation site [posttranslational modification] 399599011572 intermolecular recognition site; other site 399599011573 dimerization interface [polypeptide binding]; other site 399599011574 Response regulator receiver domain; Region: Response_reg; pfam00072 399599011575 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599011576 active site 399599011577 phosphorylation site [posttranslational modification] 399599011578 intermolecular recognition site; other site 399599011579 dimerization interface [polypeptide binding]; other site 399599011580 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 399599011581 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 399599011582 putative active site [active] 399599011583 PhoH-like protein; Region: PhoH; pfam02562 399599011584 ATP-dependent helicase HepA; Validated; Region: PRK04914 399599011585 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 399599011586 ATP binding site [chemical binding]; other site 399599011587 putative Mg++ binding site [ion binding]; other site 399599011588 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 399599011589 nucleotide binding region [chemical binding]; other site 399599011590 ATP-binding site [chemical binding]; other site 399599011591 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 399599011592 enoyl-CoA hydratase; Provisional; Region: PRK07509 399599011593 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 399599011594 substrate binding site [chemical binding]; other site 399599011595 oxyanion hole (OAH) forming residues; other site 399599011596 trimer interface [polypeptide binding]; other site 399599011597 Response regulator receiver domain; Region: Response_reg; pfam00072 399599011598 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599011599 active site 399599011600 phosphorylation site [posttranslational modification] 399599011601 intermolecular recognition site; other site 399599011602 dimerization interface [polypeptide binding]; other site 399599011603 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 399599011604 PAS domain; Region: PAS_9; pfam13426 399599011605 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599011606 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599011607 metal binding site [ion binding]; metal-binding site 399599011608 active site 399599011609 I-site; other site 399599011610 RNase E inhibitor protein; Provisional; Region: PRK11191 399599011611 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 399599011612 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 399599011613 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 399599011614 putative acyl-acceptor binding pocket; other site 399599011615 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 399599011616 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 399599011617 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 399599011618 putative ligand binding site [chemical binding]; other site 399599011619 Mechanosensitive ion channel; Region: MS_channel; pfam00924 399599011620 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 399599011621 formate--tetrahydrofolate ligase; Provisional; Region: PRK13506 399599011622 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 399599011623 Potassium binding sites [ion binding]; other site 399599011624 Cesium cation binding sites [ion binding]; other site 399599011625 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 399599011626 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 399599011627 active site 399599011628 catalytic tetrad [active] 399599011629 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 399599011630 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 399599011631 active site 2 [active] 399599011632 active site 1 [active] 399599011633 2-polyprenyl-3-methyl-5-hydroxy-6-metoxy-1, 4-benzoquinol methylase [Coenzyme metabolism]; Region: UbiG; COG2227 399599011634 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 399599011635 S-adenosylmethionine binding site [chemical binding]; other site 399599011636 CRISPR/Cas system-associated protein Cas8c; Region: Cas8c_I-C; cl12004 399599011637 TraB family; Region: TraB; pfam01963 399599011638 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 399599011639 FOG: CBS domain [General function prediction only]; Region: COG0517 399599011640 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 399599011641 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599011642 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599011643 metal binding site [ion binding]; metal-binding site 399599011644 active site 399599011645 I-site; other site 399599011646 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 399599011647 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 399599011648 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 399599011649 active site 399599011650 phosphorylation site [posttranslational modification] 399599011651 intermolecular recognition site; other site 399599011652 dimerization interface [polypeptide binding]; other site 399599011653 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599011654 Response regulator receiver domain; Region: Response_reg; pfam00072 399599011655 active site 399599011656 phosphorylation site [posttranslational modification] 399599011657 intermolecular recognition site; other site 399599011658 dimerization interface [polypeptide binding]; other site 399599011659 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 399599011660 IHF dimer interface [polypeptide binding]; other site 399599011661 IHF - DNA interface [nucleotide binding]; other site 399599011662 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 399599011663 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 399599011664 ATP-grasp domain; Region: ATP-grasp_4; cl17255 399599011665 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399599011666 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599011667 active site 399599011668 phosphorylation site [posttranslational modification] 399599011669 intermolecular recognition site; other site 399599011670 dimerization interface [polypeptide binding]; other site 399599011671 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599011672 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599011673 metal binding site [ion binding]; metal-binding site 399599011674 active site 399599011675 I-site; other site 399599011676 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 399599011677 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599011678 active site 399599011679 phosphorylation site [posttranslational modification] 399599011680 intermolecular recognition site; other site 399599011681 CHASE domain; Region: CHASE; pfam03924 399599011682 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 399599011683 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 399599011684 putative active site [active] 399599011685 heme pocket [chemical binding]; other site 399599011686 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 399599011687 dimer interface [polypeptide binding]; other site 399599011688 phosphorylation site [posttranslational modification] 399599011689 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599011690 ATP binding site [chemical binding]; other site 399599011691 Mg2+ binding site [ion binding]; other site 399599011692 G-X-G motif; other site 399599011693 conserved hypothetical protein; Region: QEGLA; TIGR02421 399599011694 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 399599011695 amino acid carrier protein; Region: agcS; TIGR00835 399599011696 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 399599011697 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 399599011698 Beta-Casp domain; Region: Beta-Casp; smart01027 399599011699 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 399599011700 Protein of unknown function (DUF2927); Region: DUF2927; pfam11150 399599011701 Major Facilitator Superfamily; Region: MFS_1; pfam07690 399599011702 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 399599011703 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 399599011704 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 399599011705 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 399599011706 catalytic residues [active] 399599011707 Predicted permeases [General function prediction only]; Region: COG0701 399599011708 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 399599011709 arsenical-resistance protein; Region: acr3; TIGR00832 399599011710 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 399599011711 dimerization interface [polypeptide binding]; other site 399599011712 putative DNA binding site [nucleotide binding]; other site 399599011713 putative Zn2+ binding site [ion binding]; other site 399599011714 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 399599011715 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 399599011716 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599011717 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 399599011718 dimerization interface [polypeptide binding]; other site 399599011719 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 399599011720 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 399599011721 conserved cys residue [active] 399599011722 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399599011723 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399599011724 Isochorismatase family; Region: Isochorismatase; pfam00857 399599011725 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 399599011726 catalytic triad [active] 399599011727 conserved cis-peptide bond; other site 399599011728 Radical SAM superfamily; Region: Radical_SAM; pfam04055 399599011729 Uncharacterized conserved protein [Function unknown]; Region: COG1359 399599011730 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 399599011731 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599011732 Coenzyme A binding pocket [chemical binding]; other site 399599011733 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 399599011734 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599011735 putative substrate translocation pore; other site 399599011736 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599011737 putative substrate translocation pore; other site 399599011738 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 399599011739 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399599011740 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599011741 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599011742 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599011743 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 399599011744 putative effector binding pocket; other site 399599011745 dimerization interface [polypeptide binding]; other site 399599011746 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 399599011747 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 399599011748 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 399599011749 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 399599011750 Protein export membrane protein; Region: SecD_SecF; cl14618 399599011751 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399599011752 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399599011753 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599011754 Outer membrane efflux protein; Region: OEP; pfam02321 399599011755 Protein of unknown function (DUF3012); Region: DUF3012; pfam11216 399599011756 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 399599011757 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 399599011758 hypothetical protein; Provisional; Region: PRK09256 399599011759 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 399599011760 Dehydroquinase class II; Region: DHquinase_II; pfam01220 399599011761 active site 399599011762 trimer interface [polypeptide binding]; other site 399599011763 dimer interface [polypeptide binding]; other site 399599011764 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 399599011765 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 399599011766 carboxyltransferase (CT) interaction site; other site 399599011767 biotinylation site [posttranslational modification]; other site 399599011768 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 399599011769 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399599011770 NAD(P) binding site [chemical binding]; other site 399599011771 active site 399599011772 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 399599011773 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599011774 putative substrate translocation pore; other site 399599011775 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 399599011776 FMN reductase; Validated; Region: fre; PRK08051 399599011777 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 399599011778 FAD binding pocket [chemical binding]; other site 399599011779 FAD binding motif [chemical binding]; other site 399599011780 phosphate binding motif [ion binding]; other site 399599011781 beta-alpha-beta structure motif; other site 399599011782 NAD binding pocket [chemical binding]; other site 399599011783 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 399599011784 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 399599011785 active site 399599011786 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599011787 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599011788 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 399599011789 dimerization interface [polypeptide binding]; other site 399599011790 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 399599011791 Fatty acid cis/trans isomerase (CTI); Region: CTI; pfam06934 399599011792 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 399599011793 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 399599011794 active site 399599011795 Zn binding site [ion binding]; other site 399599011796 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 399599011797 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 399599011798 DNA binding site [nucleotide binding] 399599011799 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 399599011800 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 399599011801 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 399599011802 Walker A/P-loop; other site 399599011803 ATP binding site [chemical binding]; other site 399599011804 Q-loop/lid; other site 399599011805 ABC transporter signature motif; other site 399599011806 Walker B; other site 399599011807 D-loop; other site 399599011808 H-loop/switch region; other site 399599011809 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 399599011810 NosL; Region: NosL; pfam05573 399599011811 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 399599011812 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 399599011813 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 399599011814 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 399599011815 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 399599011816 TPR motif; other site 399599011817 binding surface 399599011818 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 399599011819 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 399599011820 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 399599011821 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 399599011822 active site residue [active] 399599011823 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 399599011824 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 399599011825 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 399599011826 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 399599011827 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 399599011828 catalytic residues [active] 399599011829 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 399599011830 metal binding site [ion binding]; metal-binding site 399599011831 Pathogenicity locus; Region: Cdd1; pfam11731 399599011832 Domain of unknown function DUF20; Region: UPF0118; pfam01594 399599011833 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 399599011834 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 399599011835 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 399599011836 catalytic residues [active] 399599011837 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 399599011838 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 399599011839 catalytic residues [active] 399599011840 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 399599011841 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 399599011842 FMN binding site [chemical binding]; other site 399599011843 substrate binding site [chemical binding]; other site 399599011844 putative catalytic residue [active] 399599011845 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_8; cd07246 399599011846 putative dimer interface [polypeptide binding]; other site 399599011847 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399599011848 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 399599011849 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 399599011850 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 399599011851 UbiA prenyltransferase family; Region: UbiA; pfam01040 399599011852 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 399599011853 Part of AAA domain; Region: AAA_19; pfam13245 399599011854 Family description; Region: UvrD_C_2; pfam13538 399599011855 Methyltransferase domain; Region: Methyltransf_31; pfam13847 399599011856 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 399599011857 S-adenosylmethionine binding site [chemical binding]; other site 399599011858 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 399599011859 nudix motif; other site 399599011860 Predicted metalloprotease [General function prediction only]; Region: COG2321 399599011861 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 399599011862 Poxvirus P35 protein; Region: Pox_P35; pfam03213 399599011863 conjugal transfer protein TraV; Provisional; Region: PRK13733 399599011864 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 399599011865 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 399599011866 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 399599011867 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 399599011868 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 399599011869 DctM-like transporters; Region: DctM; pfam06808 399599011870 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 399599011871 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 399599011872 putative active site [active] 399599011873 PAS fold; Region: PAS_3; pfam08447 399599011874 heme pocket [chemical binding]; other site 399599011875 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599011876 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599011877 metal binding site [ion binding]; metal-binding site 399599011878 active site 399599011879 I-site; other site 399599011880 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 399599011881 thioredoxin 2; Provisional; Region: PRK10996 399599011882 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 399599011883 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 399599011884 catalytic residues [active] 399599011885 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 399599011886 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 399599011887 transmembrane helices; other site 399599011888 putative MFS family transporter protein; Provisional; Region: PRK03633 399599011889 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 399599011890 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 399599011891 RNA binding surface [nucleotide binding]; other site 399599011892 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 399599011893 active site 399599011894 uracil binding [chemical binding]; other site 399599011895 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 399599011896 SPFH domain / Band 7 family; Region: Band_7; pfam01145 399599011897 Predicted permease; Region: DUF318; cl17795 399599011898 Predicted permease; Region: DUF318; cl17795 399599011899 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 399599011900 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 399599011901 DNA binding residues [nucleotide binding] 399599011902 dimer interface [polypeptide binding]; other site 399599011903 metal binding site [ion binding]; metal-binding site 399599011904 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 399599011905 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 399599011906 purine monophosphate binding site [chemical binding]; other site 399599011907 dimer interface [polypeptide binding]; other site 399599011908 putative catalytic residues [active] 399599011909 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 399599011910 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 399599011911 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 399599011912 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 399599011913 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 399599011914 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 399599011915 Peptidase M60-like family; Region: M60-like; pfam13402 399599011916 11beta-hydroxysteroid dehydrogenase type 1 (11beta-HSD1)-like, classical (c) SDRs; Region: 11beta-HSD1_like_SDR_c; cd05332 399599011917 short chain dehydrogenase; Provisional; Region: PRK06181 399599011918 NADP binding site [chemical binding]; other site 399599011919 homodimer interface [polypeptide binding]; other site 399599011920 substrate binding site [chemical binding]; other site 399599011921 active site 399599011922 PAS fold; Region: PAS_4; pfam08448 399599011923 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 399599011924 putative active site [active] 399599011925 heme pocket [chemical binding]; other site 399599011926 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599011927 metal binding site [ion binding]; metal-binding site 399599011928 active site 399599011929 I-site; other site 399599011930 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 399599011931 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 399599011932 substrate binding site [chemical binding]; other site 399599011933 active site 399599011934 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 399599011935 Homeodomain-like domain; Region: HTH_23; pfam13384 399599011936 Winged helix-turn helix; Region: HTH_29; pfam13551 399599011937 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 399599011938 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 399599011939 substrate binding site [chemical binding]; other site 399599011940 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 399599011941 substrate binding site [chemical binding]; other site 399599011942 ligand binding site [chemical binding]; other site 399599011943 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 399599011944 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 399599011945 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 399599011946 motif II; other site 399599011947 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 399599011948 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 399599011949 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 399599011950 active site 399599011951 Zn binding site [ion binding]; other site 399599011952 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 399599011953 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 399599011954 active site 399599011955 nucleophile elbow; other site 399599011956 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 399599011957 Surface antigen; Region: Bac_surface_Ag; pfam01103 399599011958 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 399599011959 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 399599011960 heme pocket [chemical binding]; other site 399599011961 putative active site [active] 399599011962 PAS fold; Region: PAS_3; pfam08447 399599011963 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 399599011964 PAS domain; Region: PAS_9; pfam13426 399599011965 putative active site [active] 399599011966 heme pocket [chemical binding]; other site 399599011967 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599011968 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599011969 metal binding site [ion binding]; metal-binding site 399599011970 active site 399599011971 I-site; other site 399599011972 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 399599011973 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 399599011974 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 399599011975 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 399599011976 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 399599011977 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 399599011978 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 399599011979 E3 interaction surface; other site 399599011980 lipoyl attachment site [posttranslational modification]; other site 399599011981 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 399599011982 E3 interaction surface; other site 399599011983 lipoyl attachment site [posttranslational modification]; other site 399599011984 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 399599011985 E3 interaction surface; other site 399599011986 lipoyl attachment site [posttranslational modification]; other site 399599011987 e3 binding domain; Region: E3_binding; pfam02817 399599011988 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 399599011989 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 399599011990 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 399599011991 dimer interface [polypeptide binding]; other site 399599011992 TPP-binding site [chemical binding]; other site 399599011993 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 399599011994 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399599011995 DNA-binding site [nucleotide binding]; DNA binding site 399599011996 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 399599011997 regulatory protein AmpE; Provisional; Region: PRK10987 399599011998 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 399599011999 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 399599012000 amidase catalytic site [active] 399599012001 Zn binding residues [ion binding]; other site 399599012002 substrate binding site [chemical binding]; other site 399599012003 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 399599012004 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 399599012005 dimerization interface [polypeptide binding]; other site 399599012006 active site 399599012007 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 399599012008 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 399599012009 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 399599012010 Walker A motif; other site 399599012011 ATP binding site [chemical binding]; other site 399599012012 Walker B motif; other site 399599012013 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 399599012014 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 399599012015 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 399599012016 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 399599012017 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 399599012018 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 399599012019 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 399599012020 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 399599012021 CoA-binding site [chemical binding]; other site 399599012022 ATP-binding [chemical binding]; other site 399599012023 hypothetical protein; Provisional; Region: PRK05287 399599012024 Domain of unknown function (DUF329); Region: DUF329; pfam03884 399599012025 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 399599012026 active site 399599012027 8-oxo-dGMP binding site [chemical binding]; other site 399599012028 nudix motif; other site 399599012029 metal binding site [ion binding]; metal-binding site 399599012030 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 399599012031 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 399599012032 catalytic residues [active] 399599012033 exopolyphosphatase; Region: exo_poly_only; TIGR03706 399599012034 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 399599012035 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 399599012036 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 399599012037 ATP binding site [chemical binding]; other site 399599012038 Mg++ binding site [ion binding]; other site 399599012039 motif III; other site 399599012040 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 399599012041 nucleotide binding region [chemical binding]; other site 399599012042 ATP-binding site [chemical binding]; other site 399599012043 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 399599012044 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 399599012045 catalytic residues [active] 399599012046 transcription termination factor Rho; Provisional; Region: rho; PRK09376 399599012047 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 399599012048 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 399599012049 RNA binding site [nucleotide binding]; other site 399599012050 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 399599012051 multimer interface [polypeptide binding]; other site 399599012052 Walker A motif; other site 399599012053 ATP binding site [chemical binding]; other site 399599012054 Walker B motif; other site 399599012055 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599012056 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599012057 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 399599012058 putative effector binding pocket; other site 399599012059 dimerization interface [polypeptide binding]; other site 399599012060 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 399599012061 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 399599012062 putative NAD(P) binding site [chemical binding]; other site 399599012063 dimer interface [polypeptide binding]; other site 399599012064 Uncharacterized conserved protein [Function unknown]; Region: COG1359 399599012065 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 399599012066 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 399599012067 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 399599012068 L-aspartate oxidase; Provisional; Region: PRK06175 399599012069 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 399599012070 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 399599012071 Iron-sulfur protein interface; other site 399599012072 proximal heme binding site [chemical binding]; other site 399599012073 distal heme binding site [chemical binding]; other site 399599012074 dimer interface [polypeptide binding]; other site 399599012075 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13554 399599012076 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 399599012077 Iron-sulfur protein interface; other site 399599012078 proximal heme binding site [chemical binding]; other site 399599012079 distal heme binding site [chemical binding]; other site 399599012080 dimer interface [polypeptide binding]; other site 399599012081 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 399599012082 DNA methylase; Region: N6_N4_Mtase; cl17433 399599012083 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 399599012084 S-adenosylmethionine binding site [chemical binding]; other site 399599012085 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 399599012086 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 399599012087 FMN binding site [chemical binding]; other site 399599012088 active site 399599012089 catalytic residues [active] 399599012090 substrate binding site [chemical binding]; other site 399599012091 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 399599012092 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 399599012093 Part of AAA domain; Region: AAA_19; pfam13245 399599012094 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 399599012095 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 399599012096 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 399599012097 Hemerythrin-like domain; Region: Hr-like; cd12108 399599012098 Divergent AAA domain; Region: AAA_4; pfam04326 399599012099 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 399599012100 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 399599012101 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 399599012102 motif II; other site 399599012103 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 399599012104 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 399599012105 active site 399599012106 Int/Topo IB signature motif; other site 399599012107 Protein of unknown function, DUF484; Region: DUF484; cl17449 399599012108 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 399599012109 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 399599012110 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 399599012111 diaminopimelate decarboxylase; Region: lysA; TIGR01048 399599012112 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 399599012113 active site 399599012114 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 399599012115 substrate binding site [chemical binding]; other site 399599012116 catalytic residues [active] 399599012117 dimer interface [polypeptide binding]; other site 399599012118 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 399599012119 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 399599012120 putative iron binding site [ion binding]; other site 399599012121 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 399599012122 adenylate cyclase; Provisional; Region: cyaA; PRK09450 399599012123 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 399599012124 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 399599012125 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 399599012126 domain interfaces; other site 399599012127 active site 399599012128 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 399599012129 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 399599012130 active site 399599012131 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 399599012132 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 399599012133 HemY protein N-terminus; Region: HemY_N; pfam07219 399599012134 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 399599012135 binding surface 399599012136 TPR motif; other site 399599012137 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 399599012138 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 399599012139 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 399599012140 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 399599012141 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 399599012142 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 399599012143 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 399599012144 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 399599012145 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 399599012146 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 399599012147 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 399599012148 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 399599012149 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 399599012150 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 399599012151 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 399599012152 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 399599012153 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 399599012154 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 399599012155 metal ion-dependent adhesion site (MIDAS); other site 399599012156 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 399599012157 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 399599012158 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 399599012159 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 399599012160 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 399599012161 Walker A/P-loop; other site 399599012162 ATP binding site [chemical binding]; other site 399599012163 Q-loop/lid; other site 399599012164 ABC transporter signature motif; other site 399599012165 Walker B; other site 399599012166 D-loop; other site 399599012167 H-loop/switch region; other site 399599012168 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 399599012169 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399599012170 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599012171 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 399599012172 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 399599012173 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 399599012174 ligand binding site [chemical binding]; other site 399599012175 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 399599012176 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 399599012177 dimerization interface [polypeptide binding]; other site 399599012178 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599012179 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599012180 metal binding site [ion binding]; metal-binding site 399599012181 active site 399599012182 I-site; other site 399599012183 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 399599012184 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 399599012185 GAF domain; Region: GAF; pfam01590 399599012186 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 399599012187 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 399599012188 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599012189 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599012190 metal binding site [ion binding]; metal-binding site 399599012191 active site 399599012192 I-site; other site 399599012193 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 399599012194 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 399599012195 Part of AAA domain; Region: AAA_19; pfam13245 399599012196 Family description; Region: UvrD_C_2; pfam13538 399599012197 Membrane fusogenic activity; Region: BMFP; pfam04380 399599012198 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 399599012199 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 399599012200 inner membrane protein; Provisional; Region: PRK11715 399599012201 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 399599012202 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 399599012203 active site 399599012204 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399599012205 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 399599012206 substrate binding pocket [chemical binding]; other site 399599012207 membrane-bound complex binding site; other site 399599012208 hinge residues; other site 399599012209 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 399599012210 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 399599012211 putative DNA binding site [nucleotide binding]; other site 399599012212 putative Zn2+ binding site [ion binding]; other site 399599012213 AsnC family; Region: AsnC_trans_reg; pfam01037 399599012214 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 399599012215 Na2 binding site [ion binding]; other site 399599012216 putative substrate binding site 1 [chemical binding]; other site 399599012217 Na binding site 1 [ion binding]; other site 399599012218 putative substrate binding site 2 [chemical binding]; other site 399599012219 Tim44-like domain; Region: Tim44; pfam04280 399599012220 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 399599012221 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 399599012222 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 399599012223 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 399599012224 homodimer interface [polypeptide binding]; other site 399599012225 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599012226 catalytic residue [active] 399599012227 threonine dehydratase; Reviewed; Region: PRK09224 399599012228 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 399599012229 tetramer interface [polypeptide binding]; other site 399599012230 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599012231 catalytic residue [active] 399599012232 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 399599012233 putative Ile/Val binding site [chemical binding]; other site 399599012234 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 399599012235 putative Ile/Val binding site [chemical binding]; other site 399599012236 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 399599012237 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 399599012238 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 399599012239 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 399599012240 PYR/PP interface [polypeptide binding]; other site 399599012241 dimer interface [polypeptide binding]; other site 399599012242 TPP binding site [chemical binding]; other site 399599012243 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 399599012244 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 399599012245 TPP-binding site [chemical binding]; other site 399599012246 dimer interface [polypeptide binding]; other site 399599012247 ketol-acid reductoisomerase; Validated; Region: PRK05225 399599012248 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 399599012249 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 399599012250 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 399599012251 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599012252 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 399599012253 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 399599012254 putative dimerization interface [polypeptide binding]; other site 399599012255 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 399599012256 Domain of unknown function DUF21; Region: DUF21; pfam01595 399599012257 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 399599012258 Transporter associated domain; Region: CorC_HlyC; smart01091 399599012259 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 399599012260 GAF domain; Region: GAF; pfam01590 399599012261 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599012262 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599012263 metal binding site [ion binding]; metal-binding site 399599012264 active site 399599012265 I-site; other site 399599012266 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 399599012267 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 399599012268 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 399599012269 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 399599012270 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 399599012271 Walker A motif; other site 399599012272 ATP binding site [chemical binding]; other site 399599012273 Walker B motif; other site 399599012274 arginine finger; other site 399599012275 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 399599012276 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 399599012277 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 399599012278 putative acyl-acceptor binding pocket; other site 399599012279 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 399599012280 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 399599012281 putative acyl-acceptor binding pocket; other site 399599012282 Uncharacterized conserved protein [Function unknown]; Region: COG1683 399599012283 Transcriptional regulators [Transcription]; Region: GntR; COG1802 399599012284 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 399599012285 DNA-binding site [nucleotide binding]; DNA binding site 399599012286 FCD domain; Region: FCD; pfam07729 399599012287 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 399599012288 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 399599012289 tetramer interface [polypeptide binding]; other site 399599012290 active site 399599012291 Mg2+/Mn2+ binding site [ion binding]; other site 399599012292 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 399599012293 dimer interface [polypeptide binding]; other site 399599012294 Citrate synthase; Region: Citrate_synt; pfam00285 399599012295 active site 399599012296 citrylCoA binding site [chemical binding]; other site 399599012297 oxalacetate/citrate binding site [chemical binding]; other site 399599012298 coenzyme A binding site [chemical binding]; other site 399599012299 catalytic triad [active] 399599012300 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 399599012301 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 399599012302 substrate binding site [chemical binding]; other site 399599012303 ligand binding site [chemical binding]; other site 399599012304 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 399599012305 substrate binding site [chemical binding]; other site 399599012306 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 399599012307 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 399599012308 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 399599012309 tetramer interface [polypeptide binding]; other site 399599012310 active site 399599012311 Mg2+/Mn2+ binding site [ion binding]; other site 399599012312 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 399599012313 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 399599012314 PAS fold; Region: PAS_3; pfam08447 399599012315 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 399599012316 PAS domain; Region: PAS_9; pfam13426 399599012317 putative active site [active] 399599012318 heme pocket [chemical binding]; other site 399599012319 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599012320 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599012321 metal binding site [ion binding]; metal-binding site 399599012322 active site 399599012323 I-site; other site 399599012324 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 399599012325 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 399599012326 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 399599012327 homodimer interface [polypeptide binding]; other site 399599012328 substrate-cofactor binding pocket; other site 399599012329 catalytic residue [active] 399599012330 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; pfam07073 399599012331 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 399599012332 homotrimer interaction site [polypeptide binding]; other site 399599012333 putative active site [active] 399599012334 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 399599012335 Protein of unknown function (DUF904); Region: DUF904; cl11531 399599012336 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 399599012337 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 399599012338 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 399599012339 catalytic residues [active] 399599012340 hinge region; other site 399599012341 alpha helical domain; other site 399599012342 serine/threonine protein kinase; Provisional; Region: PRK11768 399599012343 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 399599012344 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 399599012345 Uncharacterized conserved protein [Function unknown]; Region: COG0397 399599012346 hypothetical protein; Validated; Region: PRK00029 399599012347 DsrE/DsrF-like family; Region: DrsE; cl00672 399599012348 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 399599012349 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 399599012350 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599012351 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599012352 metal binding site [ion binding]; metal-binding site 399599012353 active site 399599012354 I-site; other site 399599012355 Acyltransferase family; Region: Acyl_transf_3; pfam01757 399599012356 Uncharacterized conserved protein [Function unknown]; Region: COG3339 399599012357 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 399599012358 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 399599012359 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 399599012360 substrate binding site [chemical binding]; other site 399599012361 Protein of unknown function (DUF2618); Region: DUF2618; pfam10940 399599012362 ornithine decarboxylase; Provisional; Region: PRK13578 399599012363 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 399599012364 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 399599012365 homodimer interface [polypeptide binding]; other site 399599012366 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599012367 catalytic residue [active] 399599012368 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 399599012369 putrescine transporter; Provisional; Region: potE; PRK10655 399599012370 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 399599012371 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 399599012372 trimer interface [polypeptide binding]; other site 399599012373 eyelet of channel; other site 399599012374 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 399599012375 Shikimate kinase; Region: SKI; pfam01202 399599012376 ATP-binding site [chemical binding]; other site 399599012377 Gluconate-6-phosphate binding site [chemical binding]; other site 399599012378 low affinity gluconate transporter; Provisional; Region: PRK10472 399599012379 GntP family permease; Region: GntP_permease; pfam02447 399599012380 gluconate operon transcriptional regulator; Provisional; Region: PRK14987 399599012381 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 399599012382 DNA binding site [nucleotide binding] 399599012383 domain linker motif; other site 399599012384 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 399599012385 putative ligand binding site [chemical binding]; other site 399599012386 putative dimerization interface [polypeptide binding]; other site 399599012387 hypothetical protein; Provisional; Region: PRK01254 399599012388 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 399599012389 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 399599012390 MAPEG family; Region: MAPEG; cl09190 399599012391 Uncharacterized conserved protein [Function unknown]; Region: COG2966 399599012392 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 399599012393 Uncharacterized conserved protein [Function unknown]; Region: COG3610 399599012394 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 399599012395 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 399599012396 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 399599012397 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 399599012398 conserved cys residue [active] 399599012399 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399599012400 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399599012401 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 399599012402 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 399599012403 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 399599012404 putative SAM binding site [chemical binding]; other site 399599012405 putative homodimer interface [polypeptide binding]; other site 399599012406 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 399599012407 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 399599012408 putative ligand binding site [chemical binding]; other site 399599012409 hypothetical protein; Reviewed; Region: PRK12497 399599012410 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 399599012411 dimer interface [polypeptide binding]; other site 399599012412 active site 399599012413 outer membrane lipoprotein; Provisional; Region: PRK11023 399599012414 BON domain; Region: BON; pfam04972 399599012415 BON domain; Region: BON; pfam04972 399599012416 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 399599012417 EamA-like transporter family; Region: EamA; pfam00892 399599012418 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 399599012419 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599012420 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 399599012421 dimerization interface [polypeptide binding]; other site 399599012422 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 399599012423 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 399599012424 active site 399599012425 HIGH motif; other site 399599012426 dimer interface [polypeptide binding]; other site 399599012427 KMSKS motif; other site 399599012428 phosphoglycolate phosphatase; Provisional; Region: PRK13222 399599012429 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others; Region: HAD_like; cl17915 399599012430 motif I; other site 399599012431 active site 399599012432 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 399599012433 motif II; other site 399599012434 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 399599012435 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 399599012436 substrate binding site [chemical binding]; other site 399599012437 hexamer interface [polypeptide binding]; other site 399599012438 metal binding site [ion binding]; metal-binding site 399599012439 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 399599012440 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 399599012441 AAA ATPase domain; Region: AAA_16; pfam13191 399599012442 AAA domain; Region: AAA_22; pfam13401 399599012443 Walker A motif; other site 399599012444 ATP binding site [chemical binding]; other site 399599012445 Walker B motif; other site 399599012446 Sporulation related domain; Region: SPOR; pfam05036 399599012447 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 399599012448 active site 399599012449 dimer interface [polypeptide binding]; other site 399599012450 metal binding site [ion binding]; metal-binding site 399599012451 shikimate kinase; Reviewed; Region: aroK; PRK00131 399599012452 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 399599012453 ADP binding site [chemical binding]; other site 399599012454 magnesium binding site [ion binding]; other site 399599012455 putative shikimate binding site; other site 399599012456 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 399599012457 Secretin and TonB N terminus short domain; Region: STN; smart00965 399599012458 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 399599012459 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 399599012460 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 399599012461 Pilus assembly protein, PilP; Region: PilP; pfam04351 399599012462 Pilus assembly protein, PilO; Region: PilO; pfam04350 399599012463 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 399599012464 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 399599012465 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 399599012466 Competence protein A; Region: Competence_A; pfam11104 399599012467 nucleotide binding site [chemical binding]; other site 399599012468 Cell division protein FtsA; Region: FtsA; pfam14450 399599012469 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 399599012470 Transglycosylase; Region: Transgly; pfam00912 399599012471 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 399599012472 argininosuccinate lyase; Provisional; Region: PRK04833 399599012473 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 399599012474 active sites [active] 399599012475 tetramer interface [polypeptide binding]; other site 399599012476 argininosuccinate synthase; Provisional; Region: PRK13820 399599012477 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 399599012478 ANP binding site [chemical binding]; other site 399599012479 Substrate Binding Site II [chemical binding]; other site 399599012480 Substrate Binding Site I [chemical binding]; other site 399599012481 ornithine carbamoyltransferase; Provisional; Region: PRK14805 399599012482 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 399599012483 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 399599012484 acetylglutamate kinase; Provisional; Region: PRK00942 399599012485 nucleotide binding site [chemical binding]; other site 399599012486 substrate binding site [chemical binding]; other site 399599012487 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 399599012488 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 399599012489 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 399599012490 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 399599012491 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 399599012492 competence damage-inducible protein A; Provisional; Region: PRK00549 399599012493 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 399599012494 putative MPT binding site; other site 399599012495 Competence-damaged protein; Region: CinA; pfam02464 399599012496 Helix-turn-helix domain; Region: HTH_17; pfam12728 399599012497 PBP superfamily domain; Region: PBP_like; pfam12727 399599012498 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 399599012499 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 399599012500 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 399599012501 Ferredoxin [Energy production and conversion]; Region: COG1146 399599012502 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 399599012503 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 399599012504 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 399599012505 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 399599012506 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 399599012507 [4Fe-4S] binding site [ion binding]; other site 399599012508 molybdopterin cofactor binding site; other site 399599012509 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 399599012510 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 399599012511 molybdopterin cofactor binding site; other site 399599012512 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 399599012513 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 399599012514 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 399599012515 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 399599012516 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 399599012517 [4Fe-4S] binding site [ion binding]; other site 399599012518 molybdopterin cofactor binding site; other site 399599012519 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 399599012520 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 399599012521 molybdopterin cofactor binding site; other site 399599012522 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 399599012523 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 399599012524 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 399599012525 putative transposase OrfB; Reviewed; Region: PHA02517 399599012526 HTH-like domain; Region: HTH_21; pfam13276 399599012527 Integrase core domain; Region: rve; pfam00665 399599012528 Integrase core domain; Region: rve_2; pfam13333 399599012529 Transposase; Region: HTH_Tnp_1; pfam01527 399599012530 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599012531 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 399599012532 dimerization interface [polypeptide binding]; other site 399599012533 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599012534 dimer interface [polypeptide binding]; other site 399599012535 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 399599012536 putative CheW interface [polypeptide binding]; other site 399599012537 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 399599012538 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 399599012539 Sel1-like repeats; Region: SEL1; smart00671 399599012540 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 399599012541 Sodium Bile acid symporter family; Region: SBF; pfam01758 399599012542 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 399599012543 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 399599012544 FeS/SAM binding site; other site 399599012545 Sec63 Brl domain; Region: Sec63; pfam02889 399599012546 enterobactin receptor protein; Provisional; Region: PRK13483 399599012547 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 399599012548 N-terminal plug; other site 399599012549 ligand-binding site [chemical binding]; other site 399599012550 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599012551 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599012552 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 399599012553 putative effector binding pocket; other site 399599012554 dimerization interface [polypeptide binding]; other site 399599012555 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 399599012556 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 399599012557 active site 399599012558 nucleophile elbow; other site 399599012559 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 399599012560 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599012561 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 399599012562 substrate binding pocket [chemical binding]; other site 399599012563 dimerization interface [polypeptide binding]; other site 399599012564 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 399599012565 EamA-like transporter family; Region: EamA; pfam00892 399599012566 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 399599012567 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 399599012568 substrate binding pocket [chemical binding]; other site 399599012569 membrane-bound complex binding site; other site 399599012570 hinge residues; other site 399599012571 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 399599012572 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 399599012573 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 399599012574 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 399599012575 putative active site [active] 399599012576 putative NTP binding site [chemical binding]; other site 399599012577 putative nucleic acid binding site [nucleotide binding]; other site 399599012578 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 399599012579 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599012580 Transposase; Region: HTH_Tnp_1; pfam01527 399599012581 putative transposase OrfB; Reviewed; Region: PHA02517 399599012582 HTH-like domain; Region: HTH_21; pfam13276 399599012583 Integrase core domain; Region: rve; pfam00665 399599012584 Integrase core domain; Region: rve_3; pfam13683 399599012585 Domain of unknown function (DUF4209); Region: DUF4209; pfam13910 399599012586 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 399599012587 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 399599012588 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399599012589 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 399599012590 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 399599012591 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 399599012592 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 399599012593 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 399599012594 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 399599012595 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 399599012596 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 399599012597 metal binding site [ion binding]; metal-binding site 399599012598 putative dimer interface [polypeptide binding]; other site 399599012599 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 399599012600 dimerization interface [polypeptide binding]; other site 399599012601 putative DNA binding site [nucleotide binding]; other site 399599012602 putative Zn2+ binding site [ion binding]; other site 399599012603 NIPSNAP; Region: NIPSNAP; pfam07978 399599012604 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 399599012605 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 399599012606 Methyltransferase domain; Region: Methyltransf_23; pfam13489 399599012607 Methyltransferase domain; Region: Methyltransf_11; pfam08241 399599012608 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 399599012609 PAS domain; Region: PAS_9; pfam13426 399599012610 putative active site [active] 399599012611 heme pocket [chemical binding]; other site 399599012612 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599012613 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599012614 metal binding site [ion binding]; metal-binding site 399599012615 active site 399599012616 I-site; other site 399599012617 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 399599012618 DTW domain; Region: DTW; cl01221 399599012619 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599012620 multidrug efflux system protein MdtL; Provisional; Region: PRK10473 399599012621 putative substrate translocation pore; other site 399599012622 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 399599012623 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599012624 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 399599012625 substrate binding pocket [chemical binding]; other site 399599012626 dimerization interface [polypeptide binding]; other site 399599012627 Cache domain; Region: Cache_1; pfam02743 399599012628 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 399599012629 dimerization interface [polypeptide binding]; other site 399599012630 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599012631 dimer interface [polypeptide binding]; other site 399599012632 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 399599012633 putative CheW interface [polypeptide binding]; other site 399599012634 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 399599012635 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 399599012636 Sel1-like repeats; Region: SEL1; smart00671 399599012637 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 399599012638 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 399599012639 putative metal binding site [ion binding]; other site 399599012640 HDOD domain; Region: HDOD; pfam08668 399599012641 Spore germination protein; Region: Spore_permease; cl17796 399599012642 putative transporter; Provisional; Region: PRK11021 399599012643 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 399599012644 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 399599012645 dimerization interface [polypeptide binding]; other site 399599012646 putative Zn2+ binding site [ion binding]; other site 399599012647 putative DNA binding site [nucleotide binding]; other site 399599012648 AsnC family; Region: AsnC_trans_reg; pfam01037 399599012649 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 399599012650 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 399599012651 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 399599012652 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 399599012653 radical SAM peptide maturase, FibroRumin system; Region: rSAM_FibroRumin; TIGR04136 399599012654 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599012655 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599012656 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 399599012657 dimerization interface [polypeptide binding]; other site 399599012658 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 399599012659 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 399599012660 dimer interface [polypeptide binding]; other site 399599012661 tetramer interface [polypeptide binding]; other site 399599012662 PYR/PP interface [polypeptide binding]; other site 399599012663 TPP binding site [chemical binding]; other site 399599012664 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 399599012665 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 399599012666 TPP-binding site; other site 399599012667 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 399599012668 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 399599012669 nucleophilic elbow; other site 399599012670 catalytic triad; other site 399599012671 O-succinylbenzoate synthase; Provisional; Region: PRK05105 399599012672 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 399599012673 active site 399599012674 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 399599012675 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 399599012676 acyl-activating enzyme (AAE) consensus motif; other site 399599012677 putative AMP binding site [chemical binding]; other site 399599012678 putative active site [active] 399599012679 putative CoA binding site [chemical binding]; other site 399599012680 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 399599012681 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399599012682 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 399599012683 DNA binding residues [nucleotide binding] 399599012684 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 399599012685 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 399599012686 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 399599012687 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599012688 Walker A/P-loop; other site 399599012689 ATP binding site [chemical binding]; other site 399599012690 Q-loop/lid; other site 399599012691 ABC transporter signature motif; other site 399599012692 Walker B; other site 399599012693 D-loop; other site 399599012694 H-loop/switch region; other site 399599012695 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 399599012696 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 399599012697 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 399599012698 P loop; other site 399599012699 GTP binding site [chemical binding]; other site 399599012700 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 399599012701 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 399599012702 S-adenosylmethionine binding site [chemical binding]; other site 399599012703 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 399599012704 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 399599012705 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 399599012706 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 399599012707 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399599012708 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599012709 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 399599012710 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 399599012711 B1 nucleotide binding pocket [chemical binding]; other site 399599012712 B2 nucleotide binding pocket [chemical binding]; other site 399599012713 CAS motifs; other site 399599012714 active site 399599012715 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 399599012716 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 399599012717 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 399599012718 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 399599012719 aromatic amino acid transport protein; Region: araaP; TIGR00837 399599012720 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 399599012721 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 399599012722 putative acyl-acceptor binding pocket; other site 399599012723 LexA repressor; Validated; Region: PRK00215 399599012724 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 399599012725 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 399599012726 Catalytic site [active] 399599012727 Cell division inhibitor SulA; Region: SulA; cl01880 399599012728 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 399599012729 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 399599012730 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 399599012731 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 399599012732 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 399599012733 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 399599012734 Cytochrome c; Region: Cytochrom_C; pfam00034 399599012735 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 399599012736 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 399599012737 Subunit I/III interface [polypeptide binding]; other site 399599012738 D-pathway; other site 399599012739 Subunit I/VIIc interface [polypeptide binding]; other site 399599012740 Subunit I/IV interface [polypeptide binding]; other site 399599012741 Subunit I/II interface [polypeptide binding]; other site 399599012742 Low-spin heme (heme a) binding site [chemical binding]; other site 399599012743 Subunit I/VIIa interface [polypeptide binding]; other site 399599012744 Subunit I/VIa interface [polypeptide binding]; other site 399599012745 Dimer interface; other site 399599012746 Putative water exit pathway; other site 399599012747 Binuclear center (heme a3/CuB) [ion binding]; other site 399599012748 K-pathway; other site 399599012749 Subunit I/Vb interface [polypeptide binding]; other site 399599012750 Putative proton exit pathway; other site 399599012751 Subunit I/VIb interface; other site 399599012752 Subunit I/VIc interface [polypeptide binding]; other site 399599012753 Electron transfer pathway; other site 399599012754 Subunit I/VIIIb interface [polypeptide binding]; other site 399599012755 Subunit I/VIIb interface [polypeptide binding]; other site 399599012756 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 399599012757 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 399599012758 Subunit III/VIIa interface [polypeptide binding]; other site 399599012759 Phospholipid binding site [chemical binding]; other site 399599012760 Subunit I/III interface [polypeptide binding]; other site 399599012761 Subunit III/VIb interface [polypeptide binding]; other site 399599012762 Subunit III/VIa interface; other site 399599012763 Subunit III/Vb interface [polypeptide binding]; other site 399599012764 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 399599012765 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 399599012766 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 399599012767 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 399599012768 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 399599012769 UbiA prenyltransferase family; Region: UbiA; pfam01040 399599012770 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 399599012771 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 399599012772 Cu(I) binding site [ion binding]; other site 399599012773 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 399599012774 putative active site [active] 399599012775 putative metal binding site [ion binding]; other site 399599012776 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 399599012777 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 399599012778 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 399599012779 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 399599012780 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 399599012781 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 399599012782 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 399599012783 FMN-binding domain; Region: FMN_bind; pfam04205 399599012784 L-aspartate oxidase; Provisional; Region: PRK06175 399599012785 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 399599012786 Predicted oxidoreductase [General function prediction only]; Region: COG3573 399599012787 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 399599012788 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399599012789 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 399599012790 dimer interface [polypeptide binding]; other site 399599012791 phosphorylation site [posttranslational modification] 399599012792 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 399599012793 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599012794 active site 399599012795 phosphorylation site [posttranslational modification] 399599012796 intermolecular recognition site; other site 399599012797 dimerization interface [polypeptide binding]; other site 399599012798 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 399599012799 DNA binding site [nucleotide binding] 399599012800 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 399599012801 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 399599012802 dimerization interface [polypeptide binding]; other site 399599012803 DNA binding residues [nucleotide binding] 399599012804 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 399599012805 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 399599012806 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 399599012807 Sulfatase; Region: Sulfatase; pfam00884 399599012808 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 399599012809 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 399599012810 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 399599012811 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 399599012812 RNA binding site [nucleotide binding]; other site 399599012813 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 399599012814 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 399599012815 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 399599012816 Response regulator receiver domain; Region: Response_reg; pfam00072 399599012817 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599012818 active site 399599012819 phosphorylation site [posttranslational modification] 399599012820 intermolecular recognition site; other site 399599012821 dimerization interface [polypeptide binding]; other site 399599012822 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599012823 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599012824 metal binding site [ion binding]; metal-binding site 399599012825 active site 399599012826 I-site; other site 399599012827 CHASE domain; Region: CHASE; pfam03924 399599012828 PAS domain S-box; Region: sensory_box; TIGR00229 399599012829 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 399599012830 putative active site [active] 399599012831 heme pocket [chemical binding]; other site 399599012832 PAS domain; Region: PAS_9; pfam13426 399599012833 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 399599012834 putative active site [active] 399599012835 heme pocket [chemical binding]; other site 399599012836 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 399599012837 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 399599012838 putative active site [active] 399599012839 heme pocket [chemical binding]; other site 399599012840 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 399599012841 putative active site [active] 399599012842 heme pocket [chemical binding]; other site 399599012843 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399599012844 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 399599012845 dimer interface [polypeptide binding]; other site 399599012846 phosphorylation site [posttranslational modification] 399599012847 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599012848 ATP binding site [chemical binding]; other site 399599012849 Mg2+ binding site [ion binding]; other site 399599012850 G-X-G motif; other site 399599012851 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399599012852 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599012853 active site 399599012854 phosphorylation site [posttranslational modification] 399599012855 intermolecular recognition site; other site 399599012856 dimerization interface [polypeptide binding]; other site 399599012857 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 399599012858 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599012859 active site 399599012860 phosphorylation site [posttranslational modification] 399599012861 intermolecular recognition site; other site 399599012862 dimerization interface [polypeptide binding]; other site 399599012863 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 399599012864 osmolarity response regulator; Provisional; Region: ompR; PRK09468 399599012865 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599012866 active site 399599012867 phosphorylation site [posttranslational modification] 399599012868 intermolecular recognition site; other site 399599012869 dimerization interface [polypeptide binding]; other site 399599012870 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 399599012871 DNA binding site [nucleotide binding] 399599012872 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 399599012873 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 399599012874 dimerization interface [polypeptide binding]; other site 399599012875 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 399599012876 dimer interface [polypeptide binding]; other site 399599012877 phosphorylation site [posttranslational modification] 399599012878 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599012879 ATP binding site [chemical binding]; other site 399599012880 Mg2+ binding site [ion binding]; other site 399599012881 G-X-G motif; other site 399599012882 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 399599012883 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 399599012884 dimerization interface [polypeptide binding]; other site 399599012885 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 399599012886 dimer interface [polypeptide binding]; other site 399599012887 putative CheW interface [polypeptide binding]; other site 399599012888 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 399599012889 catalytic triad [active] 399599012890 dimer interface [polypeptide binding]; other site 399599012891 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 399599012892 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 399599012893 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599012894 active site 399599012895 phosphorylation site [posttranslational modification] 399599012896 intermolecular recognition site; other site 399599012897 dimerization interface [polypeptide binding]; other site 399599012898 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 399599012899 DNA binding site [nucleotide binding] 399599012900 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 399599012901 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599012902 ATP binding site [chemical binding]; other site 399599012903 Mg2+ binding site [ion binding]; other site 399599012904 G-X-G motif; other site 399599012905 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 399599012906 MASE1; Region: MASE1; cl17823 399599012907 CHASE domain; Region: CHASE; pfam03924 399599012908 PAS domain S-box; Region: sensory_box; TIGR00229 399599012909 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 399599012910 putative active site [active] 399599012911 heme pocket [chemical binding]; other site 399599012912 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 399599012913 PAS domain; Region: PAS_9; pfam13426 399599012914 putative active site [active] 399599012915 heme pocket [chemical binding]; other site 399599012916 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 399599012917 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599012918 metal binding site [ion binding]; metal-binding site 399599012919 active site 399599012920 I-site; other site 399599012921 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 399599012922 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 399599012923 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 399599012924 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 399599012925 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 399599012926 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 399599012927 D-pathway; other site 399599012928 Putative ubiquinol binding site [chemical binding]; other site 399599012929 Low-spin heme (heme b) binding site [chemical binding]; other site 399599012930 Putative water exit pathway; other site 399599012931 Binuclear center (heme o3/CuB) [ion binding]; other site 399599012932 K-pathway; other site 399599012933 Putative proton exit pathway; other site 399599012934 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 399599012935 Subunit I/III interface [polypeptide binding]; other site 399599012936 Subunit III/IV interface [polypeptide binding]; other site 399599012937 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 399599012938 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 399599012939 UbiA prenyltransferase family; Region: UbiA; pfam01040 399599012940 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 399599012941 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 399599012942 catalytic residues [active] 399599012943 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 399599012944 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 399599012945 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 399599012946 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 399599012947 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 399599012948 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 399599012949 DsbD alpha interface [polypeptide binding]; other site 399599012950 catalytic residues [active] 399599012951 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 399599012952 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 399599012953 NAD(P) binding site [chemical binding]; other site 399599012954 active site 399599012955 Transcriptional regulator [Transcription]; Region: LysR; COG0583 399599012956 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 399599012957 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 399599012958 putative effector binding pocket; other site 399599012959 putative dimerization interface [polypeptide binding]; other site 399599012960 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 399599012961 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 399599012962 trimer interface [polypeptide binding]; other site 399599012963 active site 399599012964 substrate binding site [chemical binding]; other site 399599012965 CoA binding site [chemical binding]; other site 399599012966 Methyltransferase domain; Region: Methyltransf_12; pfam08242 399599012967 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 399599012968 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cd06174 399599012969 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 399599012970 putative substrate translocation pore; other site 399599012971 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 399599012972 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599012973 Walker A/P-loop; other site 399599012974 ATP binding site [chemical binding]; other site 399599012975 Q-loop/lid; other site 399599012976 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399599012977 ABC transporter; Region: ABC_tran_2; pfam12848 399599012978 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 399599012979 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 399599012980 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 399599012981 substrate binding pocket [chemical binding]; other site 399599012982 membrane-bound complex binding site; other site 399599012983 hinge residues; other site 399599012984 RNA polymerase sigma factor; Provisional; Region: PRK12528 399599012985 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 399599012986 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 399599012987 DNA binding residues [nucleotide binding] 399599012988 fec operon regulator FecR; Reviewed; Region: PRK09774 399599012989 FecR protein; Region: FecR; pfam04773 399599012990 Secretin and TonB N terminus short domain; Region: STN; smart00965 399599012991 enterobactin receptor protein; Provisional; Region: PRK13483 399599012992 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 399599012993 N-terminal plug; other site 399599012994 ligand-binding site [chemical binding]; other site 399599012995 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 399599012996 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 399599012997 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 399599012998 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 399599012999 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 399599013000 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 399599013001 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 399599013002 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 399599013003 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 399599013004 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 399599013005 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 399599013006 S-adenosylmethionine binding site [chemical binding]; other site 399599013007 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599013008 metal binding site [ion binding]; metal-binding site 399599013009 active site 399599013010 I-site; other site 399599013011 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 399599013012 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 399599013013 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 399599013014 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 399599013015 N-acetyl-D-glucosamine binding site [chemical binding]; other site 399599013016 catalytic residue [active] 399599013017 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 399599013018 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 399599013019 AbgT putative transporter family; Region: ABG_transport; pfam03806 399599013020 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 399599013021 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 399599013022 Protein export membrane protein; Region: SecD_SecF; cl14618 399599013023 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 399599013024 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399599013025 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599013026 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 399599013027 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 399599013028 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 399599013029 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 399599013030 C-terminal domain interface [polypeptide binding]; other site 399599013031 GSH binding site (G-site) [chemical binding]; other site 399599013032 dimer interface [polypeptide binding]; other site 399599013033 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 399599013034 N-terminal domain interface [polypeptide binding]; other site 399599013035 dimer interface [polypeptide binding]; other site 399599013036 substrate binding pocket (H-site) [chemical binding]; other site 399599013037 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 399599013038 active site 399599013039 oligopeptidase A; Provisional; Region: PRK10911 399599013040 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 399599013041 active site 399599013042 Zn binding site [ion binding]; other site 399599013043 glutathione reductase; Validated; Region: PRK06116 399599013044 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 399599013045 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 399599013046 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 399599013047 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 399599013048 DNA binding site [nucleotide binding] 399599013049 Int/Topo IB signature motif; other site 399599013050 active site 399599013051 catalytic residues [active] 399599013052 Tagatose 6 phosphate kinase; Region: Tagatose_6_P_K; cl09211 399599013053 Transposase, Mutator family; Region: Transposase_mut; pfam00872 399599013054 MULE transposase domain; Region: MULE; pfam10551 399599013055 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 399599013056 RHS Repeat; Region: RHS_repeat; cl11982 399599013057 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 399599013058 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 399599013059 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 399599013060 active site 399599013061 DNA binding site [nucleotide binding] 399599013062 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 399599013063 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 399599013064 Catalytic site [active] 399599013065 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 399599013066 non-specific DNA binding site [nucleotide binding]; other site 399599013067 salt bridge; other site 399599013068 sequence-specific DNA binding site [nucleotide binding]; other site 399599013069 AAA domain; Region: AAA_22; pfam13401 399599013070 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 399599013071 ATP binding site [chemical binding]; other site 399599013072 putative Mg++ binding site [ion binding]; other site 399599013073 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 399599013074 catalytic residues [active] 399599013075 putative transposase OrfB; Reviewed; Region: PHA02517 399599013076 HTH-like domain; Region: HTH_21; pfam13276 399599013077 Integrase core domain; Region: rve; pfam00665 399599013078 Integrase core domain; Region: rve_3; pfam13683 399599013079 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599013080 Transposase; Region: HTH_Tnp_1; pfam01527 399599013081 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 399599013082 active site 399599013083 catalytic triad [active] 399599013084 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 399599013085 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 399599013086 Walker A motif; other site 399599013087 ATP binding site [chemical binding]; other site 399599013088 Walker B motif; other site 399599013089 arginine finger; other site 399599013090 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599013091 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 399599013092 AAA domain; Region: AAA_21; pfam13304 399599013093 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 399599013094 putative active site [active] 399599013095 putative metal-binding site [ion binding]; other site 399599013096 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 399599013097 Part of AAA domain; Region: AAA_19; pfam13245 399599013098 Family description; Region: UvrD_C_2; pfam13538 399599013099 Protein of unknown function (DUF1656); Region: DUF1656; cl11658 399599013100 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 399599013101 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399599013102 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599013103 Fusaric acid resistance protein family; Region: FUSC; pfam04632 399599013104 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 399599013105 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 399599013106 Na binding site [ion binding]; other site 399599013107 gamma-glutamyl kinase; Provisional; Region: PRK13402 399599013108 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 399599013109 nucleotide binding site [chemical binding]; other site 399599013110 homotetrameric interface [polypeptide binding]; other site 399599013111 putative phosphate binding site [ion binding]; other site 399599013112 putative allosteric binding site; other site 399599013113 PUA domain; Region: PUA; cl00607 399599013114 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 399599013115 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 399599013116 putative catalytic cysteine [active] 399599013117 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 399599013118 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 399599013119 N-terminal plug; other site 399599013120 ligand-binding site [chemical binding]; other site 399599013121 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 399599013122 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 399599013123 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 399599013124 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599013125 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 399599013126 Protein export membrane protein; Region: SecD_SecF; cl14618 399599013127 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 399599013128 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 399599013129 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 399599013130 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 399599013131 Bacterial SH3 domain; Region: SH3_3; pfam08239 399599013132 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 399599013133 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 399599013134 non-specific DNA binding site [nucleotide binding]; other site 399599013135 salt bridge; other site 399599013136 sequence-specific DNA binding site [nucleotide binding]; other site 399599013137 Protein of unknown function (DUF3612); Region: DUF3612; pfam12268 399599013138 malate synthase; Provisional; Region: PRK08951 399599013139 Predicted membrane protein [Function unknown]; Region: COG2855 399599013140 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 399599013141 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 399599013142 DNA binding residues [nucleotide binding] 399599013143 dimerization interface [polypeptide binding]; other site 399599013144 HlyD family secretion protein; Region: HlyD_3; pfam13437 399599013145 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 399599013146 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 399599013147 Paraquat-inducible protein A; Region: PqiA; pfam04403 399599013148 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 399599013149 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 399599013150 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 399599013151 Zn2+ binding site [ion binding]; other site 399599013152 Mg2+ binding site [ion binding]; other site 399599013153 ABC-type cobalt transport system, permease component CbiQ and related transporters [Inorganic ion transport and metabolism]; Region: CbiQ; COG0619 399599013154 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 399599013155 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 399599013156 Walker A/P-loop; other site 399599013157 ATP binding site [chemical binding]; other site 399599013158 Q-loop/lid; other site 399599013159 ABC transporter signature motif; other site 399599013160 Walker B; other site 399599013161 D-loop; other site 399599013162 H-loop/switch region; other site 399599013163 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599013164 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 399599013165 Walker A/P-loop; other site 399599013166 ATP binding site [chemical binding]; other site 399599013167 Q-loop/lid; other site 399599013168 ABC transporter signature motif; other site 399599013169 Walker B; other site 399599013170 D-loop; other site 399599013171 H-loop/switch region; other site 399599013172 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 399599013173 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 399599013174 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 399599013175 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 399599013176 chorismate binding enzyme; Region: Chorismate_bind; cl10555 399599013177 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 399599013178 hypothetical protein; Provisional; Region: PRK11212 399599013179 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 399599013180 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 399599013181 Coenzyme A binding pocket [chemical binding]; other site 399599013182 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 399599013183 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 399599013184 dimer interface [polypeptide binding]; other site 399599013185 phosphorylation site [posttranslational modification] 399599013186 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cd00075 399599013187 ATP binding site [chemical binding]; other site 399599013188 G-X-G motif; other site 399599013189 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 399599013190 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 399599013191 active site 399599013192 phosphorylation site [posttranslational modification] 399599013193 intermolecular recognition site; other site 399599013194 dimerization interface [polypeptide binding]; other site 399599013195 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 399599013196 Walker A motif; other site 399599013197 ATP binding site [chemical binding]; other site 399599013198 Walker B motif; other site 399599013199 arginine finger; other site 399599013200 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 399599013201 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 399599013202 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 399599013203 dimerization interface [polypeptide binding]; other site 399599013204 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 399599013205 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 399599013206 dimer interface [polypeptide binding]; other site 399599013207 conserved gate region; other site 399599013208 putative PBP binding loops; other site 399599013209 ABC-ATPase subunit interface; other site 399599013210 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 399599013211 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599013212 Walker A/P-loop; other site 399599013213 ATP binding site [chemical binding]; other site 399599013214 Q-loop/lid; other site 399599013215 ABC transporter signature motif; other site 399599013216 Walker B; other site 399599013217 D-loop; other site 399599013218 H-loop/switch region; other site 399599013219 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 399599013220 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 399599013221 GTP binding site; other site 399599013222 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional; Region: PRK14491 399599013223 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 399599013224 Walker A motif; other site 399599013225 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 399599013226 dimer interface [polypeptide binding]; other site 399599013227 putative functional site; other site 399599013228 putative MPT binding site; other site 399599013229 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 399599013230 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 399599013231 FeS/SAM binding site; other site 399599013232 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 399599013233 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 399599013234 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 399599013235 DNA binding site [nucleotide binding] 399599013236 catalytic residue [active] 399599013237 H2TH interface [polypeptide binding]; other site 399599013238 putative catalytic residues [active] 399599013239 turnover-facilitating residue; other site 399599013240 intercalation triad [nucleotide binding]; other site 399599013241 8OG recognition residue [nucleotide binding]; other site 399599013242 putative reading head residues; other site 399599013243 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 399599013244 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 399599013245 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 399599013246 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 399599013247 Uncharacterized conserved protein [Function unknown]; Region: COG0398 399599013248 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 399599013249 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 399599013250 Ligand binding site; other site 399599013251 Putative Catalytic site; other site 399599013252 DXD motif; other site 399599013253 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 399599013254 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 399599013255 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 399599013256 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 399599013257 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 399599013258 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 399599013259 putative NAD(P) binding site [chemical binding]; other site 399599013260 active site 399599013261 putative substrate binding site [chemical binding]; other site 399599013262 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 399599013263 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 399599013264 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 399599013265 active site 399599013266 (T/H)XGH motif; other site 399599013267 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 399599013268 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 399599013269 putative ADP-binding pocket [chemical binding]; other site 399599013270 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 399599013271 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 399599013272 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 399599013273 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 399599013274 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 399599013275 putative ADP-binding pocket [chemical binding]; other site 399599013276 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 399599013277 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 399599013278 putative active site [active] 399599013279 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 399599013280 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 399599013281 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 399599013282 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 399599013283 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 399599013284 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 399599013285 Bacterial transcriptional repressor; Region: TetR; pfam13972 399599013286 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 399599013287 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 399599013288 substrate-cofactor binding pocket; other site 399599013289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 399599013290 catalytic residue [active] 399599013291 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 399599013292 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 399599013293 NAD(P) binding site [chemical binding]; other site 399599013294 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 399599013295 active site residue [active] 399599013296 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 399599013297 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 399599013298 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 399599013299 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 399599013300 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 399599013301 conserved cys residue [active] 399599013302 DNA polymerase I; Provisional; Region: PRK05755 399599013303 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 399599013304 active site 399599013305 metal binding site 1 [ion binding]; metal-binding site 399599013306 putative 5' ssDNA interaction site; other site 399599013307 metal binding site 3; metal-binding site 399599013308 metal binding site 2 [ion binding]; metal-binding site 399599013309 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 399599013310 putative DNA binding site [nucleotide binding]; other site 399599013311 putative metal binding site [ion binding]; other site 399599013312 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 399599013313 active site 399599013314 catalytic site [active] 399599013315 substrate binding site [chemical binding]; other site 399599013316 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 399599013317 active site 399599013318 DNA binding site [nucleotide binding] 399599013319 catalytic site [active] 399599013320 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 399599013321 G1 box; other site 399599013322 GTP/Mg2+ binding site [chemical binding]; other site 399599013323 Switch I region; other site 399599013324 G2 box; other site 399599013325 G3 box; other site 399599013326 Switch II region; other site 399599013327 G4 box; other site 399599013328 G5 box; other site 399599013329 Cytochrome c553 [Energy production and conversion]; Region: COG2863 399599013330 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 399599013331 Cytochrome c; Region: Cytochrom_C; cl11414 399599013332 putative transposase OrfB; Reviewed; Region: PHA02517 399599013333 Integrase core domain; Region: rve; pfam00665 399599013334 Integrase core domain; Region: rve_3; pfam13683 399599013335 Methyltransferase domain; Region: Methyltransf_23; pfam13489 399599013336 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 399599013337 Der GTPase activator (YihI); Region: YihI; pfam04220 399599013338 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 399599013339 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 399599013340 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 399599013341 FeS/SAM binding site; other site 399599013342 HemN C-terminal domain; Region: HemN_C; pfam06969 399599013343 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 399599013344 adenosine deaminase; Provisional; Region: PRK09358 399599013345 active site 399599013346 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 399599013347 lysophospholipase L2; Provisional; Region: PRK10749 399599013348 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 399599013349 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 399599013350 PAS fold; Region: PAS_3; pfam08447 399599013351 putative active site [active] 399599013352 heme pocket [chemical binding]; other site 399599013353 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 399599013354 metal binding site [ion binding]; metal-binding site 399599013355 active site 399599013356 I-site; other site 399599013357 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 399599013358 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 399599013359 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 399599013360 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 399599013361 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 399599013362 substrate binding site [chemical binding]; other site 399599013363 oxyanion hole (OAH) forming residues; other site 399599013364 trimer interface [polypeptide binding]; other site 399599013365 Predicted membrane protein [Function unknown]; Region: COG3205 399599013366 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 399599013367 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 399599013368 glutaminase active site [active] 399599013369 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 399599013370 dimer interface [polypeptide binding]; other site 399599013371 active site 399599013372 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 399599013373 dimer interface [polypeptide binding]; other site 399599013374 active site 399599013375 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 399599013376 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 399599013377 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 399599013378 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 399599013379 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 399599013380 N-terminal plug; other site 399599013381 ligand-binding site [chemical binding]; other site 399599013382 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 399599013383 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 399599013384 Substrate binding site; other site 399599013385 Mg++ binding site; other site 399599013386 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 399599013387 active site 399599013388 substrate binding site [chemical binding]; other site 399599013389 CoA binding site [chemical binding]; other site 399599013390 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 399599013391 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 399599013392 gamma subunit interface [polypeptide binding]; other site 399599013393 epsilon subunit interface [polypeptide binding]; other site 399599013394 LBP interface [polypeptide binding]; other site 399599013395 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 399599013396 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 399599013397 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 399599013398 alpha subunit interaction interface [polypeptide binding]; other site 399599013399 Walker A motif; other site 399599013400 ATP binding site [chemical binding]; other site 399599013401 Walker B motif; other site 399599013402 inhibitor binding site; inhibition site 399599013403 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 399599013404 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 399599013405 core domain interface [polypeptide binding]; other site 399599013406 delta subunit interface [polypeptide binding]; other site 399599013407 epsilon subunit interface [polypeptide binding]; other site 399599013408 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 399599013409 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 399599013410 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 399599013411 beta subunit interaction interface [polypeptide binding]; other site 399599013412 Walker A motif; other site 399599013413 ATP binding site [chemical binding]; other site 399599013414 Walker B motif; other site 399599013415 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 399599013416 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 399599013417 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 399599013418 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 399599013419 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 399599013420 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 399599013421 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 399599013422 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 399599013423 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 399599013424 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 399599013425 ParB-like nuclease domain; Region: ParBc; pfam02195 399599013426 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 399599013427 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 399599013428 P-loop; other site 399599013429 Magnesium ion binding site [ion binding]; other site 399599013430 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 399599013431 Magnesium ion binding site [ion binding]; other site 399599013432 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 399599013433 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 399599013434 S-adenosylmethionine binding site [chemical binding]; other site 399599013435 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 399599013436 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 399599013437 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 399599013438 FMN-binding protein MioC; Provisional; Region: PRK09004 399599013439 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 399599013440 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 399599013441 trmE is a tRNA modification GTPase; Region: trmE; cd04164 399599013442 G1 box; other site 399599013443 GTP/Mg2+ binding site [chemical binding]; other site 399599013444 Switch I region; other site 399599013445 G2 box; other site 399599013446 Switch II region; other site 399599013447 G3 box; other site 399599013448 G4 box; other site 399599013449 G5 box; other site 399599013450 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 399599013451 membrane protein insertase; Provisional; Region: PRK01318 399599013452 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 399599013453 Haemolytic domain; Region: Haemolytic; pfam01809 399599013454 ribonuclease P; Reviewed; Region: rnpA; PRK01732 399599013455 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 399599013456 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 399599013457 Conjugative relaxosome accessory transposon protein; Region: TraH; pfam06122 399599013458 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 399599013459 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 399599013460 catalytic residues [active] 399599013461 conjugal transfer protein TrbB; Provisional; Region: PRK13728; cl17283 399599013462 F plasmid transfer operon protein; Region: TraF; pfam13728 399599013463 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 399599013464 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 399599013465 TraU protein; Region: TraU; cl06067 399599013466 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 399599013467 Type-F conjugative transfer system protein (TrbI_Ftype); Region: TrbI_Ftype; pfam09677 399599013468 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 399599013469 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 399599013470 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 399599013471 Walker A motif; other site 399599013472 ATP binding site [chemical binding]; other site 399599013473 type IV conjugative transfer system lipoprotein TraV; Region: TraV; TIGR02747 399599013474 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 399599013475 conjugal transfer pilus assembly protein TraB; Provisional; Region: PRK13729 399599013476 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 399599013477 TraK protein; Region: TraK; pfam06586 399599013478 conjugal transfer protein TraK; Provisional; Region: PRK13736; cl05878 399599013479 TraE protein; Region: TraE; pfam05309 399599013480 TraL protein; Region: TraL; pfam07178 399599013481 type IV conjugative transfer system pilin TraA; Region: TraA_TIGR; TIGR02758 399599013482 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 399599013483 plasmid partitioning protein RepA; Region: partition_RepA; TIGR03453 399599013484 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 399599013485 P-loop; other site 399599013486 Magnesium ion binding site [ion binding]; other site 399599013487 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 399599013488 Magnesium ion binding site [ion binding]; other site 399599013489 ParB family; Region: ParB; pfam08775 399599013490 AAA domain; Region: AAA_21; pfam13304 399599013491 Competence protein CoiA-like family; Region: CoiA; cl11541 399599013492 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 399599013493 Sel1-like repeats; Region: SEL1; smart00671 399599013494 Sel1-like repeats; Region: SEL1; smart00671 399599013495 Sel1-like repeats; Region: SEL1; smart00671 399599013496 Sel1-like repeats; Region: SEL1; smart00671 399599013497 Sel1 repeat; Region: Sel1; cl02723 399599013498 Sel1-like repeats; Region: SEL1; smart00671 399599013499 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 399599013500 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 399599013501 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 399599013502 Helix-turn-helix domain; Region: HTH_38; pfam13936 399599013503 Integrase core domain; Region: rve; pfam00665 399599013504 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 399599013505 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 399599013506 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 399599013507 catalytic residues [active] 399599013508 catalytic nucleophile [active] 399599013509 Presynaptic Site I dimer interface [polypeptide binding]; other site 399599013510 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 399599013511 Synaptic Flat tetramer interface [polypeptide binding]; other site 399599013512 Synaptic Site I dimer interface [polypeptide binding]; other site 399599013513 DNA binding site [nucleotide binding] 399599013514 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 399599013515 DNA-binding interface [nucleotide binding]; DNA binding site 399599013516 multiple promoter invertase; Provisional; Region: mpi; PRK13413 399599013517 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 399599013518 catalytic residues [active] 399599013519 catalytic nucleophile [active] 399599013520 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 399599013521 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 399599013522 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599013523 Walker A/P-loop; other site 399599013524 ATP binding site [chemical binding]; other site 399599013525 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599013526 Q-loop/lid; other site 399599013527 ABC transporter signature motif; other site 399599013528 Walker B; other site 399599013529 D-loop; other site 399599013530 H-loop/switch region; other site 399599013531 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 399599013532 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 399599013533 Catalytic site [active] 399599013534 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 399599013535 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 399599013536 active site 399599013537 DNA binding site [nucleotide binding] 399599013538 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 399599013539 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 399599013540 active site 399599013541 catalytic residues [active] 399599013542 DNA binding site [nucleotide binding] 399599013543 Int/Topo IB signature motif; other site 399599013544 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 399599013545 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 399599013546 DNA-specific endonuclease I; Provisional; Region: PRK15137 399599013547 Endonuclease I; Region: Endonuclease_1; pfam04231 399599013548 ParB-like nuclease domain; Region: ParBc; pfam02195 399599013549 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 399599013550 HicB family; Region: HicB; pfam05534 399599013551 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 399599013552 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 399599013553 polyketide-type polyunsaturated fatty acid synthase PfaA; Region: omega_3_PfaA; TIGR02813 399599013554 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 399599013555 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 399599013556 AAA domain; Region: AAA_30; pfam13604 399599013557 AAA domain; Region: AAA_30; pfam13604 399599013558 Toprim domain; Region: Toprim_3; pfam13362 399599013559 type IV conjugative transfer system coupling protein TraD; Region: TraD_Ftype; TIGR02759 399599013560 F sex factor protein N terminal; Region: TraD_N; pfam12615 399599013561 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 399599013562 Walker A motif; other site 399599013563 ATP binding site [chemical binding]; other site 399599013564 Walker B motif; other site 399599013565 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 399599013566 sequence-specific DNA binding site [nucleotide binding]; other site 399599013567 salt bridge; other site 399599013568 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 399599013569 Catalytic site [active] 399599013570 Transposase; Region: HTH_Tnp_1; pfam01527 399599013571 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599013572 putative transposase OrfB; Reviewed; Region: PHA02517 399599013573 HTH-like domain; Region: HTH_21; pfam13276 399599013574 Integrase core domain; Region: rve; pfam00665 399599013575 Integrase core domain; Region: rve_2; pfam13333 399599013576 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 399599013577 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 399599013578 active site 399599013579 DNA binding site [nucleotide binding] 399599013580 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 399599013581 DNA-specific endonuclease I; Provisional; Region: PRK15137 399599013582 Endonuclease I; Region: Endonuclease_1; pfam04231 399599013583 ParB-like nuclease domain; Region: ParB; smart00470 399599013584 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 399599013585 Protein of unknown function (DUF1778); Region: DUF1778; pfam08681 399599013586 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 399599013587 Predicted nuclease of the RNAse H fold, HicB family [General function prediction only]; Region: HicB; COG4226 399599013588 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 399599013589 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 399599013590 polyketide-type polyunsaturated fatty acid synthase PfaA; Region: omega_3_PfaA; TIGR02813 399599013591 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 399599013592 conjugative transfer relaxase protein TraI; Region: TraI_TIGR; TIGR02760 399599013593 AAA domain; Region: AAA_30; pfam13604 399599013594 Toprim domain; Region: Toprim_3; pfam13362 399599013595 type IV conjugative transfer system coupling protein TraD; Region: TraD_Ftype; TIGR02759 399599013596 F sex factor protein N terminal; Region: TraD_N; pfam12615 399599013597 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 399599013598 Walker A motif; other site 399599013599 ATP binding site [chemical binding]; other site 399599013600 Walker B motif; other site 399599013601 F sex factor protein N terminal; Region: TraD_N; pfam12615 399599013602 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 399599013603 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 399599013604 Conjugative relaxosome accessory transposon protein; Region: TraH; pfam06122 399599013605 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 399599013606 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 399599013607 catalytic residues [active] 399599013608 conjugal transfer protein TrbB; Provisional; Region: PRK13728; cl17283 399599013609 F plasmid transfer operon protein; Region: TraF; pfam13728 399599013610 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 399599013611 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; cl09883 399599013612 TraU protein; Region: TraU; cl06067 399599013613 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 399599013614 Type-F conjugative transfer system protein (TrbI_Ftype); Region: TrbI_Ftype; pfam09677 399599013615 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 399599013616 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 399599013617 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 399599013618 Walker A motif; other site 399599013619 ATP binding site [chemical binding]; other site 399599013620 type IV conjugative transfer system lipoprotein TraV; Region: TraV; TIGR02747 399599013621 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 399599013622 conjugal transfer pilus assembly protein TraB; Provisional; Region: PRK13729 399599013623 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 399599013624 TraK protein; Region: TraK; pfam06586 399599013625 conjugal transfer protein TraK; Provisional; Region: PRK13736; cl05878 399599013626 TraE protein; Region: TraE; pfam05309 399599013627 TraL protein; Region: TraL; pfam07178 399599013628 type IV conjugative transfer system pilin TraA; Region: TraA_TIGR; TIGR02758 399599013629 TraY domain; Region: TraY; pfam05509 399599013630 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 399599013631 non-specific DNA binding site [nucleotide binding]; other site 399599013632 salt bridge; other site 399599013633 sequence-specific DNA binding site [nucleotide binding]; other site 399599013634 Predicted transcriptional regulator [Transcription]; Region: COG2932 399599013635 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 399599013636 Catalytic site [active] 399599013637 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 399599013638 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 399599013639 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 399599013640 P-loop; other site 399599013641 Magnesium ion binding site [ion binding]; other site 399599013642 Protein of unknown function DUF262; Region: DUF262; pfam03235 399599013643 integron integrase; Region: integrase_gron; TIGR02249 399599013644 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 399599013645 active site 399599013646 DNA binding site [nucleotide binding] 399599013647 Int/Topo IB signature motif; other site 399599013648 bifunctional antitoxin/transcriptional repressor RelB; Provisional; Region: PRK11235 399599013649 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 399599013650 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 399599013651 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 399599013652 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 399599013653 Transposase; Region: DEDD_Tnp_IS110; pfam01548 399599013654 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 399599013655 putative transposase OrfB; Reviewed; Region: PHA02517 399599013656 HTH-like domain; Region: HTH_21; pfam13276 399599013657 Integrase core domain; Region: rve; pfam00665 399599013658 Integrase core domain; Region: rve_3; pfam13683 399599013659 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599013660 Transposase; Region: HTH_Tnp_1; pfam01527 399599013661 HTH-like domain; Region: HTH_21; pfam13276 399599013662 Integrase core domain; Region: rve; pfam00665 399599013663 Transposase; Region: HTH_Tnp_1; pfam01527 399599013664 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599013665 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 399599013666 Homeodomain-like domain; Region: HTH_32; pfam13565 399599013667 Integrase core domain; Region: rve; pfam00665 399599013668 Integrase core domain; Region: rve_3; cl15866 399599013669 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599013670 Transposase; Region: HTH_Tnp_1; pfam01527 399599013671 putative transposase OrfB; Reviewed; Region: PHA02517 399599013672 putative transposase OrfB; Reviewed; Region: PHA02517 399599013673 HTH-like domain; Region: HTH_21; pfam13276 399599013674 Integrase core domain; Region: rve; pfam00665 399599013675 Integrase core domain; Region: rve_2; pfam13333 399599013676 Transposase; Region: HTH_Tnp_1; pfam01527 399599013677 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 399599013678 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 399599013679 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 399599013680 Integrase core domain; Region: rve; pfam00665 399599013681 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 399599013682 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 399599013683 catalytic residues [active] 399599013684 catalytic nucleophile [active] 399599013685 Domain of unknown function (DUF1738); Region: DUF1738; pfam08401 399599013686 Antirestriction protein [DNA replication, recombination, and repair]; Region: COG4227 399599013687 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 399599013688 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 399599013689 active site 399599013690 metal binding site [ion binding]; metal-binding site 399599013691 interdomain interaction site; other site 399599013692 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 399599013693 Plasmid stabilization system protein [General function prediction only]; Region: ParE; COG3668 399599013694 conjugal transfer relaxase TraI; Provisional; Region: PRK13878 399599013695 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 399599013696 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 399599013697 conjugal transfer protein TraL; Provisional; Region: PRK13886 399599013698 conjugal transfer protein TraM; Provisional; Region: PRK13895 399599013699 Transposase, Mutator family; Region: Transposase_mut; pfam00872 399599013700 MULE transposase domain; Region: MULE; pfam10551 399599013701 Adhesin biosynthesis transcription regulatory protein; Region: PapB; cl04012 399599013702 YcfA-like protein; Region: YcfA; pfam07927 399599013703 Abi-like protein; Region: Abi_2; pfam07751 399599013704 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 399599013705 active site 399599013706 catalytic residues [active] 399599013707 DNA binding site [nucleotide binding] 399599013708 Int/Topo IB signature motif; other site 399599013709 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 399599013710 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 399599013711 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 399599013712 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 399599013713 P-loop; other site 399599013714 Magnesium ion binding site [ion binding]; other site 399599013715 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 399599013716 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 399599013717 ATP binding site [chemical binding]; other site 399599013718 Walker A motif; other site 399599013719 hexamer interface [polypeptide binding]; other site 399599013720 Walker B motif; other site 399599013721 TrbC/VIRB2 family; Region: TrbC; cl01583 399599013722 conjugal transfer protein TrbE; Provisional; Region: PRK13891 399599013723 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 399599013724 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 399599013725 Domain of unknown function DUF87; Region: DUF87; pfam01935 399599013726 Walker A/P-loop; other site 399599013727 ATP binding site [chemical binding]; other site 399599013728 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 399599013729 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 399599013730 VirB8 protein; Region: VirB8; cl01500 399599013731 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 399599013732 VirB7 interaction site; other site 399599013733 Bacterial conjugation TrbI-like protein; Region: TrbI; cl04242 399599013734 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 399599013735 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 399599013736 type II secretion system protein E; Region: type_II_gspE; TIGR02533 399599013737 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 399599013738 Walker A motif; other site 399599013739 ATP binding site [chemical binding]; other site 399599013740 Walker B motif; other site 399599013741 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 399599013742 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 399599013743 active site 399599013744 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 399599013745 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 399599013746 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 399599013747 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 399599013748 Walker A motif; other site 399599013749 ATP binding site [chemical binding]; other site 399599013750 Walker B motif; other site 399599013751 DNA topoisomerase III; Provisional; Region: PRK07726 399599013752 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 399599013753 active site 399599013754 putative interdomain interaction site [polypeptide binding]; other site 399599013755 putative metal-binding site [ion binding]; other site 399599013756 putative nucleotide binding site [chemical binding]; other site 399599013757 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 399599013758 domain I; other site 399599013759 DNA binding groove [nucleotide binding] 399599013760 phosphate binding site [ion binding]; other site 399599013761 domain II; other site 399599013762 domain III; other site 399599013763 nucleotide binding site [chemical binding]; other site 399599013764 catalytic site [active] 399599013765 domain IV; other site 399599013766 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396