-- dump date 20140619_092536 -- class Genbank::misc_feature -- table misc_feature_note -- id note 550540000001 DnaA N-terminal domain; Region: DnaA_N; pfam11638 550540000002 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 550540000003 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 550540000004 Walker A motif; other site 550540000005 ATP binding site [chemical binding]; other site 550540000006 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 550540000007 Walker B motif; other site 550540000008 arginine finger; other site 550540000009 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 550540000010 DnaA box-binding interface [nucleotide binding]; other site 550540000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 550540000012 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 550540000013 putative DNA binding surface [nucleotide binding]; other site 550540000014 dimer interface [polypeptide binding]; other site 550540000015 beta-clamp/clamp loader binding surface; other site 550540000016 beta-clamp/translesion DNA polymerase binding surface; other site 550540000017 recombination protein F; Reviewed; Region: recF; PRK00064 550540000018 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540000019 Walker A/P-loop; other site 550540000020 ATP binding site [chemical binding]; other site 550540000021 Q-loop/lid; other site 550540000022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540000023 ABC transporter signature motif; other site 550540000024 Walker B; other site 550540000025 D-loop; other site 550540000026 H-loop/switch region; other site 550540000027 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 550540000028 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 550540000029 ATP binding site [chemical binding]; other site 550540000030 Mg2+ binding site [ion binding]; other site 550540000031 G-X-G motif; other site 550540000032 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 550540000033 anchoring element; other site 550540000034 dimer interface [polypeptide binding]; other site 550540000035 ATP binding site [chemical binding]; other site 550540000036 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 550540000037 active site 550540000038 putative metal-binding site [ion binding]; other site 550540000039 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 550540000040 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 550540000041 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 550540000042 active site 550540000043 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 550540000044 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 550540000045 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 550540000046 dimer interface [polypeptide binding]; other site 550540000047 motif 1; other site 550540000048 active site 550540000049 motif 2; other site 550540000050 motif 3; other site 550540000051 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 550540000052 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 550540000053 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 550540000054 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 550540000055 Amidohydrolase; Region: Amidohydro_5; pfam13594 550540000056 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 550540000057 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 550540000058 CPxP motif; other site 550540000059 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 550540000060 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 550540000061 dimer interface [polypeptide binding]; other site 550540000062 active site 550540000063 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 550540000064 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 550540000065 substrate binding site [chemical binding]; other site 550540000066 oxyanion hole (OAH) forming residues; other site 550540000067 trimer interface [polypeptide binding]; other site 550540000068 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 550540000069 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 550540000070 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 550540000071 proline dipeptidase; Provisional; Region: PRK13607 550540000072 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 550540000073 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 550540000074 active site 550540000075 hypothetical protein; Provisional; Region: PRK11568 550540000076 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 550540000077 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 550540000078 Cation transport protein; Region: TrkH; cl17365 550540000079 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 550540000080 Flavodoxin domain; Region: Flavodoxin_5; cl17428 550540000081 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 550540000082 dimerization interface [polypeptide binding]; other site 550540000083 putative DNA binding site [nucleotide binding]; other site 550540000084 putative Zn2+ binding site [ion binding]; other site 550540000085 Flavodoxin domain; Region: Flavodoxin_5; cl17428 550540000086 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 550540000087 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 550540000088 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 550540000089 TrkA-N domain; Region: TrkA_N; pfam02254 550540000090 TrkA-C domain; Region: TrkA_C; pfam02080 550540000091 TrkA-N domain; Region: TrkA_N; pfam02254 550540000092 TrkA-C domain; Region: TrkA_C; pfam02080 550540000093 16S rRNA methyltransferase B; Provisional; Region: PRK10901 550540000094 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 550540000095 putative RNA binding site [nucleotide binding]; other site 550540000096 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 550540000097 S-adenosylmethionine binding site [chemical binding]; other site 550540000098 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 550540000099 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 550540000100 putative active site [active] 550540000101 substrate binding site [chemical binding]; other site 550540000102 putative cosubstrate binding site; other site 550540000103 catalytic site [active] 550540000104 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 550540000105 substrate binding site [chemical binding]; other site 550540000106 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 550540000107 active site 550540000108 catalytic residues [active] 550540000109 metal binding site [ion binding]; metal-binding site 550540000110 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 550540000111 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550540000112 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 550540000113 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 550540000114 DNA protecting protein DprA; Region: dprA; TIGR00732 550540000115 hypothetical protein; Validated; Region: PRK03430 550540000116 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 550540000117 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 550540000118 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 550540000119 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 550540000120 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 550540000121 AIR carboxylase; Region: AIRC; pfam00731 550540000122 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 550540000123 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 550540000124 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 550540000125 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 550540000126 apolar tunnel; other site 550540000127 heme binding site [chemical binding]; other site 550540000128 dimerization interface [polypeptide binding]; other site 550540000129 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 550540000130 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 550540000131 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 550540000132 shikimate binding site; other site 550540000133 NAD(P) binding site [chemical binding]; other site 550540000134 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 550540000135 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 550540000136 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 550540000137 trimer interface [polypeptide binding]; other site 550540000138 putative metal binding site [ion binding]; other site 550540000139 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 550540000140 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 550540000141 HTH domain; Region: HTH_11; cl17392 550540000142 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 550540000143 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 550540000144 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 550540000145 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 550540000146 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 550540000147 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 550540000148 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 550540000149 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 550540000150 acyl-activating enzyme (AAE) consensus motif; other site 550540000151 putative AMP binding site [chemical binding]; other site 550540000152 putative active site [active] 550540000153 putative CoA binding site [chemical binding]; other site 550540000154 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 550540000155 O-succinylbenzoate synthase; Provisional; Region: PRK05105 550540000156 metal binding site [ion binding]; metal-binding site 550540000157 substrate binding pocket [chemical binding]; other site 550540000158 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 550540000159 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 550540000160 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 550540000161 dimer interface [polypeptide binding]; other site 550540000162 tetramer interface [polypeptide binding]; other site 550540000163 PYR/PP interface [polypeptide binding]; other site 550540000164 TPP binding site [chemical binding]; other site 550540000165 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 550540000166 TPP-binding site; other site 550540000167 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 550540000168 chorismate binding enzyme; Region: Chorismate_bind; cl10555 550540000169 glycerol kinase; Provisional; Region: glpK; PRK00047 550540000170 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 550540000171 N- and C-terminal domain interface [polypeptide binding]; other site 550540000172 active site 550540000173 MgATP binding site [chemical binding]; other site 550540000174 catalytic site [active] 550540000175 metal binding site [ion binding]; metal-binding site 550540000176 glycerol binding site [chemical binding]; other site 550540000177 homotetramer interface [polypeptide binding]; other site 550540000178 homodimer interface [polypeptide binding]; other site 550540000179 protein IIAGlc interface [polypeptide binding]; other site 550540000180 PDZ domain; Region: PDZ_2; pfam13180 550540000181 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 550540000182 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 550540000183 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 550540000184 Cytochrome c; Region: Cytochrom_C; cl11414 550540000185 Protein of unknown function (DUF1800); Region: DUF1800; pfam08811 550540000186 Protein of unknown function (DUF1501); Region: DUF1501; pfam07394 550540000187 Phosphopentomutase [Carbohydrate transport and metabolism]; Region: DeoB; cl17415 550540000188 glutathione reductase; Validated; Region: PRK06116 550540000189 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 550540000190 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 550540000191 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 550540000192 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 550540000193 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 550540000194 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 550540000195 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 550540000196 active site 550540000197 FMN binding site [chemical binding]; other site 550540000198 substrate binding site [chemical binding]; other site 550540000199 3Fe-4S cluster binding site [ion binding]; other site 550540000200 oligopeptidase A; Provisional; Region: PRK10911 550540000201 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 550540000202 active site 550540000203 Zn binding site [ion binding]; other site 550540000204 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550540000205 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550540000206 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 550540000207 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 550540000208 S-adenosylmethionine binding site [chemical binding]; other site 550540000209 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 550540000210 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550540000211 Coenzyme A binding pocket [chemical binding]; other site 550540000212 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 550540000213 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 550540000214 Ferritin-like domain; Region: Ferritin; pfam00210 550540000215 ferroxidase diiron center [ion binding]; other site 550540000216 MFS/sugar transport protein; Region: MFS_2; pfam13347 550540000217 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 550540000218 putative substrate translocation pore; other site 550540000219 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550540000220 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550540000221 Cupin domain; Region: Cupin_2; pfam07883 550540000222 L-aspartate oxidase; Provisional; Region: PRK06175 550540000223 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 550540000224 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 550540000225 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 550540000226 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 550540000227 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 550540000228 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 550540000229 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 550540000230 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 550540000231 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 550540000232 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 550540000233 NnrU protein; Region: NnrU; pfam07298 550540000234 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 550540000235 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 550540000236 nylC-like family; composed of proteins with similarity to Flavobacterium endo-type 6-aminohexanoate-oligomer hydrolase (EIII), the product of the nylon oligomer degradation gene, nylC. EIII is an amide hydrolase that catalyzes the degradation of...; Region: nylC_like; cd02252 550540000237 putative active site pocket [active] 550540000238 cleavage site 550540000239 elongation factor G; Reviewed; Region: PRK13351 550540000240 Elongation factor G (EF-G) family; Region: EF-G_bact; cd04170 550540000241 G1 box; other site 550540000242 putative GEF interaction site [polypeptide binding]; other site 550540000243 GTP/Mg2+ binding site [chemical binding]; other site 550540000244 Switch I region; other site 550540000245 G2 box; other site 550540000246 G3 box; other site 550540000247 Switch II region; other site 550540000248 G4 box; other site 550540000249 G5 box; other site 550540000250 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 550540000251 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 550540000252 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 550540000253 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 550540000254 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 550540000255 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 550540000256 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 550540000257 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 550540000258 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 550540000259 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 550540000260 active site residue [active] 550540000261 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 550540000262 active site residue [active] 550540000263 two-component sensor protein; Provisional; Region: cpxA; PRK09470 550540000264 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 550540000265 dimerization interface [polypeptide binding]; other site 550540000266 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 550540000267 dimer interface [polypeptide binding]; other site 550540000268 phosphorylation site [posttranslational modification] 550540000269 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 550540000270 ATP binding site [chemical binding]; other site 550540000271 Mg2+ binding site [ion binding]; other site 550540000272 G-X-G motif; other site 550540000273 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 550540000274 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540000275 active site 550540000276 phosphorylation site [posttranslational modification] 550540000277 intermolecular recognition site; other site 550540000278 dimerization interface [polypeptide binding]; other site 550540000279 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 550540000280 DNA binding site [nucleotide binding] 550540000281 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 550540000282 dimer interface [polypeptide binding]; other site 550540000283 Cation efflux family; Region: Cation_efflux; cl00316 550540000284 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 550540000285 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 550540000286 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540000287 active site 550540000288 phosphorylation site [posttranslational modification] 550540000289 intermolecular recognition site; other site 550540000290 dimerization interface [polypeptide binding]; other site 550540000291 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 550540000292 Walker A motif; other site 550540000293 ATP binding site [chemical binding]; other site 550540000294 Walker B motif; other site 550540000295 arginine finger; other site 550540000296 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 550540000297 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 550540000298 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 550540000299 dimer interface [polypeptide binding]; other site 550540000300 phosphorylation site [posttranslational modification] 550540000301 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 550540000302 ATP binding site [chemical binding]; other site 550540000303 Mg2+ binding site [ion binding]; other site 550540000304 G-X-G motif; other site 550540000305 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 550540000306 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 550540000307 glutamine synthetase; Provisional; Region: glnA; PRK09469 550540000308 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 550540000309 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 550540000310 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 550540000311 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 550540000312 G1 box; other site 550540000313 putative GEF interaction site [polypeptide binding]; other site 550540000314 GTP/Mg2+ binding site [chemical binding]; other site 550540000315 Switch I region; other site 550540000316 G2 box; other site 550540000317 G3 box; other site 550540000318 Switch II region; other site 550540000319 G4 box; other site 550540000320 G5 box; other site 550540000321 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 550540000322 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 550540000323 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 550540000324 active site 550540000325 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 550540000326 active site 550540000327 motif I; other site 550540000328 motif II; other site 550540000329 Phosphotransferase enzyme family; Region: APH; pfam01636 550540000330 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 550540000331 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 550540000332 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 550540000333 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550540000334 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540000335 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540000336 metal binding site [ion binding]; metal-binding site 550540000337 active site 550540000338 I-site; other site 550540000339 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 550540000340 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 550540000341 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 550540000342 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 550540000343 Phytase; Region: Phytase; cl17685 550540000344 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 550540000345 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 550540000346 hypothetical protein; Reviewed; Region: PRK01637 550540000347 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 550540000348 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 550540000349 putative active site [active] 550540000350 dimerization interface [polypeptide binding]; other site 550540000351 putative tRNAtyr binding site [nucleotide binding]; other site 550540000352 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 550540000353 Response regulator receiver domain; Region: Response_reg; pfam00072 550540000354 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540000355 active site 550540000356 phosphorylation site [posttranslational modification] 550540000357 intermolecular recognition site; other site 550540000358 dimerization interface [polypeptide binding]; other site 550540000359 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 550540000360 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 550540000361 Y-family of DNA polymerases; Region: PolY; cl12025 550540000362 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 550540000363 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 550540000364 generic binding surface II; other site 550540000365 ssDNA binding site; other site 550540000366 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 550540000367 ATP binding site [chemical binding]; other site 550540000368 putative Mg++ binding site [ion binding]; other site 550540000369 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 550540000370 nucleotide binding region [chemical binding]; other site 550540000371 ATP-binding site [chemical binding]; other site 550540000372 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 550540000373 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 550540000374 acyl-activating enzyme (AAE) consensus motif; other site 550540000375 putative AMP binding site [chemical binding]; other site 550540000376 putative active site [active] 550540000377 putative CoA binding site [chemical binding]; other site 550540000378 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 550540000379 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 550540000380 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 550540000381 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 550540000382 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550540000383 Zn2+ binding site [ion binding]; other site 550540000384 Mg2+ binding site [ion binding]; other site 550540000385 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 550540000386 synthetase active site [active] 550540000387 NTP binding site [chemical binding]; other site 550540000388 metal binding site [ion binding]; metal-binding site 550540000389 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 550540000390 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 550540000391 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 550540000392 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 550540000393 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 550540000394 catalytic site [active] 550540000395 G-X2-G-X-G-K; other site 550540000396 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 550540000397 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 550540000398 dimerization interface [polypeptide binding]; other site 550540000399 DPS ferroxidase diiron center [ion binding]; other site 550540000400 ion pore; other site 550540000401 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 550540000402 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 550540000403 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 550540000404 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 550540000405 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 550540000406 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 550540000407 ligand binding site [chemical binding]; other site 550540000408 FOG: WD40 repeat [General function prediction only]; Region: COG2319 550540000409 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; cd00200 550540000410 structural tetrad; other site 550540000411 Uncharacterized conserved protein [Function unknown]; Region: COG1262 550540000412 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 550540000413 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 550540000414 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 550540000415 active site 550540000416 O-Antigen ligase; Region: Wzy_C; pfam04932 550540000417 Bacterial sugar transferase; Region: Bac_transf; pfam02397 550540000418 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 550540000419 Chain length determinant protein; Region: Wzz; cl15801 550540000420 Chain length determinant protein; Region: Wzz; cl15801 550540000421 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 550540000422 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 550540000423 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 550540000424 SLBB domain; Region: SLBB; pfam10531 550540000425 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 550540000426 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 550540000427 hypothetical protein; Provisional; Region: PRK11820 550540000428 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 550540000429 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 550540000430 ribonuclease PH; Reviewed; Region: rph; PRK00173 550540000431 Ribonuclease PH; Region: RNase_PH_bact; cd11362 550540000432 hexamer interface [polypeptide binding]; other site 550540000433 active site 550540000434 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 550540000435 active site 550540000436 division inhibitor protein; Provisional; Region: slmA; PRK09480 550540000437 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550540000438 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 550540000439 trimer interface [polypeptide binding]; other site 550540000440 active site 550540000441 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 550540000442 Flavoprotein; Region: Flavoprotein; pfam02441 550540000443 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 550540000444 hypothetical protein; Reviewed; Region: PRK00024 550540000445 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 550540000446 MPN+ (JAMM) motif; other site 550540000447 Zinc-binding site [ion binding]; other site 550540000448 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 550540000449 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 550540000450 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 550540000451 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 550540000452 DNA binding site [nucleotide binding] 550540000453 catalytic residue [active] 550540000454 H2TH interface [polypeptide binding]; other site 550540000455 putative catalytic residues [active] 550540000456 turnover-facilitating residue; other site 550540000457 intercalation triad [nucleotide binding]; other site 550540000458 8OG recognition residue [nucleotide binding]; other site 550540000459 putative reading head residues; other site 550540000460 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 550540000461 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 550540000462 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 550540000463 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 550540000464 active site 550540000465 (T/H)XGH motif; other site 550540000466 A4GalT_like proteins catalyze the addition of galactose or glucose residues to the lipooligosaccharide (LOS) or lipopolysaccharide (LPS) of the bacterial cell surface; Region: GT8_A4GalT_like; cd04194 550540000467 Glycosyl transferase family 8; Region: Glyco_transf_8; pfam01501 550540000468 Ligand binding site; other site 550540000469 metal-binding site 550540000470 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 550540000471 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 550540000472 active site 550540000473 TupA-like ATPgrasp; Region: ATPgrasp_TupA; pfam14305 550540000474 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 550540000475 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 550540000476 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 550540000477 active site 550540000478 nucleotide binding site [chemical binding]; other site 550540000479 HIGH motif; other site 550540000480 KMSKS motif; other site 550540000481 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 550540000482 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 550540000483 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 550540000484 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 550540000485 putative NAD(P) binding site [chemical binding]; other site 550540000486 active site 550540000487 putative substrate binding site [chemical binding]; other site 550540000488 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 550540000489 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 550540000490 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 550540000491 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 550540000492 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 550540000493 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 550540000494 putative active site [active] 550540000495 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 550540000496 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 550540000497 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 550540000498 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 550540000499 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 550540000500 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550540000501 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550540000502 Bacterial transcriptional repressor; Region: TetR; pfam13972 550540000503 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 550540000504 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 550540000505 substrate-cofactor binding pocket; other site 550540000506 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540000507 catalytic residue [active] 550540000508 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 550540000509 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 550540000510 NAD(P) binding site [chemical binding]; other site 550540000511 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 550540000512 active site residue [active] 550540000513 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 550540000514 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 550540000515 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 550540000516 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 550540000517 Chorismate lyase; Region: Chor_lyase; cl01230 550540000518 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 550540000519 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540000520 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 550540000521 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 550540000522 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 550540000523 DNA binding residues [nucleotide binding] 550540000524 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 550540000525 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 550540000526 salt bridge; other site 550540000527 non-specific DNA binding site [nucleotide binding]; other site 550540000528 sequence-specific DNA binding site [nucleotide binding]; other site 550540000529 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 550540000530 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 550540000531 catalytic loop [active] 550540000532 iron binding site [ion binding]; other site 550540000533 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 550540000534 copper exporting ATPase; Provisional; Region: copA; PRK10671 550540000535 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 550540000536 metal-binding site [ion binding] 550540000537 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 550540000538 metal-binding site [ion binding] 550540000539 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 550540000540 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 550540000541 motif II; other site 550540000542 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 550540000543 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 550540000544 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 550540000545 C-terminal domain interface [polypeptide binding]; other site 550540000546 GSH binding site (G-site) [chemical binding]; other site 550540000547 dimer interface [polypeptide binding]; other site 550540000548 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 550540000549 N-terminal domain interface [polypeptide binding]; other site 550540000550 putative dimer interface [polypeptide binding]; other site 550540000551 active site 550540000552 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 550540000553 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 550540000554 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 550540000555 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 550540000556 Peptidase family M48; Region: Peptidase_M48; cl12018 550540000557 Uncharacterized conserved protein [Function unknown]; Region: COG3148 550540000558 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 550540000559 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 550540000560 putative acyl-acceptor binding pocket; other site 550540000561 LexA repressor; Validated; Region: PRK00215 550540000562 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 550540000563 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 550540000564 Catalytic site [active] 550540000565 Cell division inhibitor SulA; Region: SulA; cl01880 550540000566 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 550540000567 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 550540000568 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 550540000569 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 550540000570 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 550540000571 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 550540000572 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 550540000573 Subunit I/III interface [polypeptide binding]; other site 550540000574 D-pathway; other site 550540000575 Subunit I/VIIc interface [polypeptide binding]; other site 550540000576 Subunit I/IV interface [polypeptide binding]; other site 550540000577 Subunit I/II interface [polypeptide binding]; other site 550540000578 Low-spin heme (heme a) binding site [chemical binding]; other site 550540000579 Subunit I/VIIa interface [polypeptide binding]; other site 550540000580 Subunit I/VIa interface [polypeptide binding]; other site 550540000581 Dimer interface; other site 550540000582 Putative water exit pathway; other site 550540000583 Binuclear center (heme a3/CuB) [ion binding]; other site 550540000584 K-pathway; other site 550540000585 Subunit I/Vb interface [polypeptide binding]; other site 550540000586 Putative proton exit pathway; other site 550540000587 Subunit I/VIb interface; other site 550540000588 Subunit I/VIc interface [polypeptide binding]; other site 550540000589 Electron transfer pathway; other site 550540000590 Subunit I/VIIIb interface [polypeptide binding]; other site 550540000591 Subunit I/VIIb interface [polypeptide binding]; other site 550540000592 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 550540000593 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 550540000594 Subunit III/VIIa interface [polypeptide binding]; other site 550540000595 Phospholipid binding site [chemical binding]; other site 550540000596 Subunit I/III interface [polypeptide binding]; other site 550540000597 Subunit III/VIb interface [polypeptide binding]; other site 550540000598 Subunit III/VIa interface; other site 550540000599 Subunit III/Vb interface [polypeptide binding]; other site 550540000600 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 550540000601 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 550540000602 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 550540000603 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 550540000604 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 550540000605 UbiA prenyltransferase family; Region: UbiA; pfam01040 550540000606 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 550540000607 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 550540000608 Cu(I) binding site [ion binding]; other site 550540000609 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 550540000610 putative active site [active] 550540000611 putative metal binding site [ion binding]; other site 550540000612 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 550540000613 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 550540000614 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 550540000615 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 550540000616 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 550540000617 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 550540000618 putative active site [active] 550540000619 Zn binding site [ion binding]; other site 550540000620 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 550540000621 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 550540000622 active site 550540000623 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 550540000624 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 550540000625 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 550540000626 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540000627 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540000628 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 550540000629 substrate binding pocket [chemical binding]; other site 550540000630 dimerization interface [polypeptide binding]; other site 550540000631 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 550540000632 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 550540000633 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 550540000634 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 550540000635 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 550540000636 RNA binding site [nucleotide binding]; other site 550540000637 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 550540000638 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 550540000639 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 550540000640 osmolarity response regulator; Provisional; Region: ompR; PRK09468 550540000641 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540000642 active site 550540000643 phosphorylation site [posttranslational modification] 550540000644 intermolecular recognition site; other site 550540000645 dimerization interface [polypeptide binding]; other site 550540000646 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 550540000647 DNA binding site [nucleotide binding] 550540000648 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 550540000649 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 550540000650 dimer interface [polypeptide binding]; other site 550540000651 phosphorylation site [posttranslational modification] 550540000652 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 550540000653 ATP binding site [chemical binding]; other site 550540000654 Mg2+ binding site [ion binding]; other site 550540000655 G-X-G motif; other site 550540000656 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 550540000657 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 550540000658 active site 550540000659 substrate-binding site [chemical binding]; other site 550540000660 metal-binding site [ion binding] 550540000661 ATP binding site [chemical binding]; other site 550540000662 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 550540000663 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 550540000664 dimerization interface [polypeptide binding]; other site 550540000665 domain crossover interface; other site 550540000666 redox-dependent activation switch; other site 550540000667 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 550540000668 RNA binding surface [nucleotide binding]; other site 550540000669 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 550540000670 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 550540000671 type II secretion system protein D; Region: type_II_gspD; TIGR02517 550540000672 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 550540000673 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 550540000674 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 550540000675 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 550540000676 type II secretion system protein E; Region: type_II_gspE; TIGR02533 550540000677 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 550540000678 Walker A motif; other site 550540000679 ATP binding site [chemical binding]; other site 550540000680 Walker B motif; other site 550540000681 type II secretion system protein F; Region: GspF; TIGR02120 550540000682 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 550540000683 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 550540000684 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 550540000685 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 550540000686 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 550540000687 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 550540000688 type II secretion system protein I; Region: gspI; TIGR01707 550540000689 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 550540000690 type II secretion system protein J; Region: gspJ; TIGR01711 550540000691 Prokaryotic N-terminal methylation motif; Region: N_methyl; pfam07963 550540000692 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 550540000693 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 550540000694 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 550540000695 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 550540000696 GspL periplasmic domain; Region: GspL_C; pfam12693 550540000697 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 550540000698 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 550540000699 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 550540000700 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 550540000701 dimer interface [polypeptide binding]; other site 550540000702 ADP-ribose binding site [chemical binding]; other site 550540000703 active site 550540000704 nudix motif; other site 550540000705 metal binding site [ion binding]; metal-binding site 550540000706 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 550540000707 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 550540000708 active site 550540000709 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 550540000710 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 550540000711 active site residue [active] 550540000712 selenophosphate synthetase; Provisional; Region: PRK00943 550540000713 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 550540000714 dimerization interface [polypeptide binding]; other site 550540000715 putative ATP binding site [chemical binding]; other site 550540000716 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 550540000717 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 550540000718 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 550540000719 active site 550540000720 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 550540000721 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 550540000722 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 550540000723 Fatty acid desaturase; Region: FA_desaturase; pfam00487 550540000724 Di-iron ligands [ion binding]; other site 550540000725 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 550540000726 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550540000727 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 550540000728 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 550540000729 ligand binding site [chemical binding]; other site 550540000730 flexible hinge region; other site 550540000731 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 550540000732 non-specific DNA interactions [nucleotide binding]; other site 550540000733 DNA binding site [nucleotide binding] 550540000734 sequence specific DNA binding site [nucleotide binding]; other site 550540000735 putative cAMP binding site [chemical binding]; other site 550540000736 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 550540000737 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 550540000738 molybdopterin cofactor binding site; other site 550540000739 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 550540000740 putative molybdopterin cofactor binding site; other site 550540000741 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 550540000742 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 550540000743 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 550540000744 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 550540000745 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 550540000746 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 550540000747 S-adenosylmethionine binding site [chemical binding]; other site 550540000748 glutamate racemase; Provisional; Region: PRK00865 550540000749 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 550540000750 FAD binding domain; Region: FAD_binding_4; pfam01565 550540000751 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 550540000752 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 550540000753 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 550540000754 DNA-binding site [nucleotide binding]; DNA binding site 550540000755 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 550540000756 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 550540000757 pantothenate kinase; Provisional; Region: PRK05439 550540000758 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 550540000759 ATP-binding site [chemical binding]; other site 550540000760 CoA-binding site [chemical binding]; other site 550540000761 Mg2+-binding site [ion binding]; other site 550540000762 elongation factor Tu; Reviewed; Region: PRK00049 550540000763 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 550540000764 G1 box; other site 550540000765 GEF interaction site [polypeptide binding]; other site 550540000766 GTP/Mg2+ binding site [chemical binding]; other site 550540000767 Switch I region; other site 550540000768 G2 box; other site 550540000769 G3 box; other site 550540000770 Switch II region; other site 550540000771 G4 box; other site 550540000772 G5 box; other site 550540000773 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 550540000774 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 550540000775 Antibiotic Binding Site [chemical binding]; other site 550540000776 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 550540000777 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 550540000778 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 550540000779 putative homodimer interface [polypeptide binding]; other site 550540000780 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 550540000781 heterodimer interface [polypeptide binding]; other site 550540000782 homodimer interface [polypeptide binding]; other site 550540000783 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 550540000784 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 550540000785 23S rRNA interface [nucleotide binding]; other site 550540000786 L7/L12 interface [polypeptide binding]; other site 550540000787 putative thiostrepton binding site; other site 550540000788 L25 interface [polypeptide binding]; other site 550540000789 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 550540000790 mRNA/rRNA interface [nucleotide binding]; other site 550540000791 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 550540000792 23S rRNA interface [nucleotide binding]; other site 550540000793 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 550540000794 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 550540000795 L11 interface [polypeptide binding]; other site 550540000796 putative EF-Tu interaction site [polypeptide binding]; other site 550540000797 putative EF-G interaction site [polypeptide binding]; other site 550540000798 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 550540000799 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 550540000800 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 550540000801 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 550540000802 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 550540000803 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 550540000804 RPB3 interaction site [polypeptide binding]; other site 550540000805 RPB1 interaction site [polypeptide binding]; other site 550540000806 RPB11 interaction site [polypeptide binding]; other site 550540000807 RPB10 interaction site [polypeptide binding]; other site 550540000808 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 550540000809 DNA-directed RNA polymerase, beta' subunit, predominant form; Region: rpoC_TIGR; TIGR02386 550540000810 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 550540000811 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 550540000812 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 550540000813 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 550540000814 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 550540000815 DNA binding site [nucleotide binding] 550540000816 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 550540000817 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 550540000818 S17 interaction site [polypeptide binding]; other site 550540000819 S8 interaction site; other site 550540000820 16S rRNA interaction site [nucleotide binding]; other site 550540000821 streptomycin interaction site [chemical binding]; other site 550540000822 23S rRNA interaction site [nucleotide binding]; other site 550540000823 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 550540000824 30S ribosomal protein S7; Validated; Region: PRK05302 550540000825 elongation factor G; Reviewed; Region: PRK00007 550540000826 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 550540000827 G1 box; other site 550540000828 putative GEF interaction site [polypeptide binding]; other site 550540000829 GTP/Mg2+ binding site [chemical binding]; other site 550540000830 Switch I region; other site 550540000831 G2 box; other site 550540000832 G3 box; other site 550540000833 Switch II region; other site 550540000834 G4 box; other site 550540000835 G5 box; other site 550540000836 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 550540000837 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 550540000838 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 550540000839 elongation factor Tu; Reviewed; Region: PRK00049 550540000840 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 550540000841 G1 box; other site 550540000842 GEF interaction site [polypeptide binding]; other site 550540000843 GTP/Mg2+ binding site [chemical binding]; other site 550540000844 Switch I region; other site 550540000845 G2 box; other site 550540000846 G3 box; other site 550540000847 Switch II region; other site 550540000848 G4 box; other site 550540000849 G5 box; other site 550540000850 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 550540000851 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 550540000852 Antibiotic Binding Site [chemical binding]; other site 550540000853 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 550540000854 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 550540000855 active site 550540000856 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 550540000857 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 550540000858 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 550540000859 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 550540000860 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 550540000861 active site 550540000862 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 550540000863 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 550540000864 Kelch motif; Region: Kelch_6; pfam13964 550540000865 Kelch domain; Region: Kelch; smart00612 550540000866 Galactose oxidase, central domain; Region: Kelch_4; pfam13418 550540000867 Kelch domain; Region: Kelch; smart00612 550540000868 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 550540000869 Bacterial sugar transferase; Region: Bac_transf; pfam02397 550540000870 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 550540000871 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 550540000872 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 550540000873 SLBB domain; Region: SLBB; pfam10531 550540000874 exopolysaccharide transport protein family; Region: eps_transp_fam; TIGR01005 550540000875 Chain length determinant protein; Region: Wzz; pfam02706 550540000876 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 550540000877 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 550540000878 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 550540000879 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 550540000880 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 550540000881 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 550540000882 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 550540000883 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 550540000884 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 550540000885 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 550540000886 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 550540000887 putative translocon binding site; other site 550540000888 protein-rRNA interface [nucleotide binding]; other site 550540000889 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 550540000890 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 550540000891 G-X-X-G motif; other site 550540000892 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 550540000893 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 550540000894 23S rRNA interface [nucleotide binding]; other site 550540000895 5S rRNA interface [nucleotide binding]; other site 550540000896 putative antibiotic binding site [chemical binding]; other site 550540000897 L25 interface [polypeptide binding]; other site 550540000898 L27 interface [polypeptide binding]; other site 550540000899 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 550540000900 23S rRNA interface [nucleotide binding]; other site 550540000901 putative translocon interaction site; other site 550540000902 signal recognition particle (SRP54) interaction site; other site 550540000903 L23 interface [polypeptide binding]; other site 550540000904 trigger factor interaction site; other site 550540000905 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 550540000906 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 550540000907 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 550540000908 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 550540000909 RNA binding site [nucleotide binding]; other site 550540000910 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 550540000911 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 550540000912 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 550540000913 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 550540000914 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 550540000915 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 550540000916 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 550540000917 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 550540000918 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 550540000919 23S rRNA interface [nucleotide binding]; other site 550540000920 L21e interface [polypeptide binding]; other site 550540000921 5S rRNA interface [nucleotide binding]; other site 550540000922 L27 interface [polypeptide binding]; other site 550540000923 L5 interface [polypeptide binding]; other site 550540000924 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 550540000925 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 550540000926 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 550540000927 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 550540000928 23S rRNA binding site [nucleotide binding]; other site 550540000929 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 550540000930 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 550540000931 SecY translocase; Region: SecY; pfam00344 550540000932 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 550540000933 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 550540000934 30S ribosomal protein S13; Region: bact_S13; TIGR03631 550540000935 30S ribosomal protein S11; Validated; Region: PRK05309 550540000936 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 550540000937 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 550540000938 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 550540000939 RNA binding surface [nucleotide binding]; other site 550540000940 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 550540000941 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 550540000942 alphaNTD homodimer interface [polypeptide binding]; other site 550540000943 alphaNTD - beta interaction site [polypeptide binding]; other site 550540000944 alphaNTD - beta' interaction site [polypeptide binding]; other site 550540000945 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 550540000946 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 550540000947 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 550540000948 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 550540000949 heme exporter protein CcmC; Region: ccmC; TIGR01191 550540000950 heme exporter protein CcmB; Region: ccmB; TIGR01190 550540000951 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 550540000952 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540000953 Walker A/P-loop; other site 550540000954 ATP binding site [chemical binding]; other site 550540000955 Q-loop/lid; other site 550540000956 ABC transporter signature motif; other site 550540000957 Walker B; other site 550540000958 D-loop; other site 550540000959 H-loop/switch region; other site 550540000960 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 550540000961 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 550540000962 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 550540000963 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 550540000964 TPR motif; other site 550540000965 binding surface 550540000966 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 550540000967 thiol:disulfide interchange protein DsbE; Provisional; Region: PRK15412 550540000968 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 550540000969 catalytic residues [active] 550540000970 central insert; other site 550540000971 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 550540000972 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 550540000973 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 550540000974 catalytic residues [active] 550540000975 competence damage-inducible protein A; Provisional; Region: PRK00549 550540000976 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 550540000977 putative MPT binding site; other site 550540000978 Competence-damaged protein; Region: CinA; pfam02464 550540000979 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 550540000980 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 550540000981 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 550540000982 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 550540000983 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 550540000984 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 550540000985 nucleotide binding site [chemical binding]; other site 550540000986 substrate binding site [chemical binding]; other site 550540000987 ornithine carbamoyltransferase; Provisional; Region: PRK14805 550540000988 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 550540000989 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 550540000990 argininosuccinate synthase; Provisional; Region: PRK13820 550540000991 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 550540000992 ANP binding site [chemical binding]; other site 550540000993 Substrate Binding Site II [chemical binding]; other site 550540000994 Substrate Binding Site I [chemical binding]; other site 550540000995 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 550540000996 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 550540000997 active sites [active] 550540000998 tetramer interface [polypeptide binding]; other site 550540000999 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550540001000 Coenzyme A binding pocket [chemical binding]; other site 550540001001 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 550540001002 Transglycosylase; Region: Transgly; pfam00912 550540001003 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 550540001004 Cell division protein FtsA; Region: FtsA; cl17206 550540001005 Competence protein A; Region: Competence_A; pfam11104 550540001006 Cell division protein FtsA; Region: FtsA; cl17206 550540001007 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 550540001008 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 550540001009 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 550540001010 Pilus assembly protein, PilO; Region: PilO; pfam04350 550540001011 Pilus assembly protein, PilP; Region: PilP; pfam04351 550540001012 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 550540001013 Secretin and TonB N terminus short domain; Region: STN; smart00965 550540001014 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 550540001015 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 550540001016 shikimate kinase; Reviewed; Region: aroK; PRK00131 550540001017 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 550540001018 ADP binding site [chemical binding]; other site 550540001019 magnesium binding site [ion binding]; other site 550540001020 putative shikimate binding site; other site 550540001021 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 550540001022 active site 550540001023 dimer interface [polypeptide binding]; other site 550540001024 metal binding site [ion binding]; metal-binding site 550540001025 AAA ATPase domain; Region: AAA_16; pfam13191 550540001026 AAA domain; Region: AAA_22; pfam13401 550540001027 Walker A motif; other site 550540001028 ATP binding site [chemical binding]; other site 550540001029 Walker B motif; other site 550540001030 cell division protein DamX; Validated; Region: PRK10905 550540001031 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 550540001032 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 550540001033 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 550540001034 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 550540001035 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 550540001036 substrate binding site [chemical binding]; other site 550540001037 hexamer interface [polypeptide binding]; other site 550540001038 metal binding site [ion binding]; metal-binding site 550540001039 phosphoglycolate phosphatase; Provisional; Region: PRK13222 550540001040 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 550540001041 motif II; other site 550540001042 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 550540001043 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 550540001044 active site 550540001045 HIGH motif; other site 550540001046 dimer interface [polypeptide binding]; other site 550540001047 KMSKS motif; other site 550540001048 outer membrane lipoprotein; Provisional; Region: PRK11023 550540001049 BON domain; Region: BON; pfam04972 550540001050 BON domain; Region: BON; pfam04972 550540001051 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 550540001052 dimer interface [polypeptide binding]; other site 550540001053 active site 550540001054 hypothetical protein; Reviewed; Region: PRK12497 550540001055 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 550540001056 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 550540001057 putative ligand binding site [chemical binding]; other site 550540001058 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 550540001059 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 550540001060 putative SAM binding site [chemical binding]; other site 550540001061 putative homodimer interface [polypeptide binding]; other site 550540001062 cell division protein MraZ; Reviewed; Region: PRK00326 550540001063 MraZ protein; Region: MraZ; pfam02381 550540001064 MraZ protein; Region: MraZ; pfam02381 550540001065 MraW methylase family; Region: Methyltransf_5; pfam01795 550540001066 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 550540001067 Cell division protein FtsL; Region: FtsL; pfam04999 550540001068 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 550540001069 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 550540001070 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 550540001071 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 550540001072 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 550540001073 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 550540001074 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 550540001075 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 550540001076 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 550540001077 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 550540001078 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 550540001079 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 550540001080 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 550540001081 Mg++ binding site [ion binding]; other site 550540001082 putative catalytic motif [active] 550540001083 putative substrate binding site [chemical binding]; other site 550540001084 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 550540001085 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 550540001086 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 550540001087 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 550540001088 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 550540001089 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 550540001090 active site 550540001091 homodimer interface [polypeptide binding]; other site 550540001092 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 550540001093 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 550540001094 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 550540001095 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 550540001096 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 550540001097 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 550540001098 ATP-grasp domain; Region: ATP-grasp_4; cl17255 550540001099 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 550540001100 Cell division protein FtsQ; Region: FtsQ; pfam03799 550540001101 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 550540001102 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 550540001103 Cell division protein FtsA; Region: FtsA; pfam14450 550540001104 cell division protein FtsZ; Validated; Region: PRK09330 550540001105 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 550540001106 nucleotide binding site [chemical binding]; other site 550540001107 SulA interaction site; other site 550540001108 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 550540001109 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 550540001110 Protein of unknown function (DUF721); Region: DUF721; cl02324 550540001111 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 550540001112 Peptidase family M23; Region: Peptidase_M23; pfam01551 550540001113 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 550540001114 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 550540001115 SEC-C motif; Region: SEC-C; pfam02810 550540001116 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 550540001117 active site 550540001118 8-oxo-dGMP binding site [chemical binding]; other site 550540001119 nudix motif; other site 550540001120 metal binding site [ion binding]; metal-binding site 550540001121 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 550540001122 O-Antigen ligase; Region: Wzy_C; pfam04932 550540001123 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 550540001124 Domain of unknown function (DUF329); Region: DUF329; cl01144 550540001125 hypothetical protein; Provisional; Region: PRK05287 550540001126 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 550540001127 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 550540001128 CoA-binding site [chemical binding]; other site 550540001129 ATP-binding [chemical binding]; other site 550540001130 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 550540001131 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 550540001132 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 550540001133 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 550540001134 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 550540001135 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 550540001136 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 550540001137 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 550540001138 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 550540001139 Walker A motif; other site 550540001140 ATP binding site [chemical binding]; other site 550540001141 Walker B motif; other site 550540001142 putative major pilin subunit; Provisional; Region: PRK10574 550540001143 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 550540001144 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 550540001145 dimerization interface [polypeptide binding]; other site 550540001146 active site 550540001147 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 550540001148 catalytic motif [active] 550540001149 Catalytic residue [active] 550540001150 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 550540001151 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 550540001152 amidase catalytic site [active] 550540001153 Zn binding residues [ion binding]; other site 550540001154 substrate binding site [chemical binding]; other site 550540001155 Membrane protein required for beta-lactamase induction [Defense mechanisms]; Region: AmpE; cl17896 550540001156 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 550540001157 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 550540001158 DNA-binding site [nucleotide binding]; DNA binding site 550540001159 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 550540001160 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 550540001161 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 550540001162 dimer interface [polypeptide binding]; other site 550540001163 TPP-binding site [chemical binding]; other site 550540001164 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 550540001165 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 550540001166 E3 interaction surface; other site 550540001167 lipoyl attachment site [posttranslational modification]; other site 550540001168 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 550540001169 E3 interaction surface; other site 550540001170 lipoyl attachment site [posttranslational modification]; other site 550540001171 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 550540001172 E3 interaction surface; other site 550540001173 lipoyl attachment site [posttranslational modification]; other site 550540001174 e3 binding domain; Region: E3_binding; pfam02817 550540001175 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 550540001176 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 550540001177 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 550540001178 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 550540001179 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 550540001180 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 550540001181 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 550540001182 PAS fold; Region: PAS_3; pfam08447 550540001183 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 550540001184 PAS domain; Region: PAS_9; pfam13426 550540001185 putative active site [active] 550540001186 heme pocket [chemical binding]; other site 550540001187 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540001188 metal binding site [ion binding]; metal-binding site 550540001189 active site 550540001190 I-site; other site 550540001191 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 550540001192 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 550540001193 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 550540001194 motif II; other site 550540001195 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 550540001196 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 550540001197 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 550540001198 substrate binding site [chemical binding]; other site 550540001199 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 550540001200 substrate binding site [chemical binding]; other site 550540001201 ligand binding site [chemical binding]; other site 550540001202 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; pfam04353 550540001203 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 550540001204 substrate binding site [chemical binding]; other site 550540001205 active site 550540001206 putative kinase; Provisional; Region: PRK09954 550540001207 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 550540001208 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 550540001209 substrate binding site [chemical binding]; other site 550540001210 ATP binding site [chemical binding]; other site 550540001211 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 550540001212 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 550540001213 putative uracil binding site [chemical binding]; other site 550540001214 putative active site [active] 550540001215 PAS fold; Region: PAS_4; pfam08448 550540001216 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 550540001217 putative active site [active] 550540001218 heme pocket [chemical binding]; other site 550540001219 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540001220 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540001221 metal binding site [ion binding]; metal-binding site 550540001222 active site 550540001223 I-site; other site 550540001224 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 550540001225 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550540001226 short chain dehydrogenase; Provisional; Region: PRK06181 550540001227 NAD(P) binding site [chemical binding]; other site 550540001228 active site 550540001229 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 550540001230 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 550540001231 active site 550540001232 nucleophile elbow; other site 550540001233 hypothetical protein; Provisional; Region: PRK01254 550540001234 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 550540001235 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 550540001236 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 550540001237 (R)-hydratase [(R)-specific enoyl-CoA hydratase] catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. (R)-hydratase contains a hot-dog fold similar to those of thioesterase...; Region: R_hydratase; cd03449 550540001238 dimer interaction site [polypeptide binding]; other site 550540001239 substrate-binding tunnel; other site 550540001240 active site 550540001241 catalytic site [active] 550540001242 substrate binding site [chemical binding]; other site 550540001243 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 550540001244 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 550540001245 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 550540001246 dimerization interface [polypeptide binding]; other site 550540001247 putative DNA binding site [nucleotide binding]; other site 550540001248 putative Zn2+ binding site [ion binding]; other site 550540001249 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 550540001250 Sodium Bile acid symporter family; Region: SBF; cl17470 550540001251 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 550540001252 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 550540001253 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 550540001254 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 550540001255 active site 550540001256 putative acetyltransferase YhhY; Provisional; Region: PRK10140 550540001257 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550540001258 Coenzyme A binding pocket [chemical binding]; other site 550540001259 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 550540001260 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 550540001261 hypothetical protein; Provisional; Region: PRK11770 550540001262 Domain of unknown function (DUF307); Region: DUF307; pfam03733 550540001263 Domain of unknown function (DUF307); Region: DUF307; pfam03733 550540001264 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 550540001265 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 550540001266 ATP binding site [chemical binding]; other site 550540001267 putative Mg++ binding site [ion binding]; other site 550540001268 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 550540001269 nucleotide binding region [chemical binding]; other site 550540001270 ATP-binding site [chemical binding]; other site 550540001271 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 550540001272 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 550540001273 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 550540001274 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 550540001275 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 550540001276 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 550540001277 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 550540001278 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 550540001279 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 550540001280 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 550540001281 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 550540001282 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 550540001283 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 550540001284 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 550540001285 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 550540001286 purine monophosphate binding site [chemical binding]; other site 550540001287 dimer interface [polypeptide binding]; other site 550540001288 putative catalytic residues [active] 550540001289 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 550540001290 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 550540001291 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 550540001292 DNA binding residues [nucleotide binding] 550540001293 dimer interface [polypeptide binding]; other site 550540001294 metal binding site [ion binding]; metal-binding site 550540001295 Predicted permease; Region: DUF318; cl17795 550540001296 Predicted permease; Region: DUF318; cl17795 550540001297 Predicted membrane protein [Function unknown]; Region: COG2431 550540001298 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 550540001299 catalytic residues [active] 550540001300 Protein of unknown function (DUF2375); Region: DUF2375; cl09781 550540001301 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 550540001302 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 550540001303 ATP binding site [chemical binding]; other site 550540001304 Mg++ binding site [ion binding]; other site 550540001305 motif III; other site 550540001306 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 550540001307 nucleotide binding region [chemical binding]; other site 550540001308 ATP-binding site [chemical binding]; other site 550540001309 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550540001310 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550540001311 RibD C-terminal domain; Region: RibD_C; cl17279 550540001312 putative outer membrane lipoprotein; Provisional; Region: PRK10510 550540001313 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 550540001314 ligand binding site [chemical binding]; other site 550540001315 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 550540001316 CRISPR-associated protein, TIGR03984 family; Region: TIGR03984 550540001317 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 550540001318 RNA binding surface [nucleotide binding]; other site 550540001319 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; cd00161 550540001320 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 550540001321 putative sugar binding sites [chemical binding]; other site 550540001322 Q-X-W motif; other site 550540001323 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; cd00161 550540001324 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 550540001325 putative sugar binding sites [chemical binding]; other site 550540001326 Q-X-W motif; other site 550540001327 Ricin-type beta-trefoil; Region: RICIN; smart00458 550540001328 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; cd00161 550540001329 putative sugar binding sites [chemical binding]; other site 550540001330 Q-X-W motif; other site 550540001331 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; cd00161 550540001332 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 550540001333 putative sugar binding sites [chemical binding]; other site 550540001334 Q-X-W motif; other site 550540001335 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 550540001336 active site 550540001337 oxyanion hole [active] 550540001338 catalytic triad [active] 550540001339 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 550540001340 TPR motif; other site 550540001341 binding surface 550540001342 succinic semialdehyde dehydrogenase; Region: PLN02278 550540001343 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 550540001344 tetramerization interface [polypeptide binding]; other site 550540001345 NAD(P) binding site [chemical binding]; other site 550540001346 catalytic residues [active] 550540001347 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 550540001348 hypothetical protein; Provisional; Region: PRK12378 550540001349 Putative phosphatase (DUF442); Region: DUF442; cl17385 550540001350 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 550540001351 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 550540001352 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 550540001353 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 550540001354 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 550540001355 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 550540001356 active site 550540001357 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 550540001358 Myxococcus xanthus RfbC like proteins are required for O-antigen biosynthesis; Region: GT2_RfbC_Mx_like; cd04184 550540001359 Probable Catalytic site; other site 550540001360 metal-binding site 550540001361 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 550540001362 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 550540001363 Probable Catalytic site; other site 550540001364 metal-binding site 550540001365 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 550540001366 active site 550540001367 tetramer interface; other site 550540001368 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 550540001369 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 550540001370 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 550540001371 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 550540001372 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 550540001373 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 550540001374 active site 550540001375 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 550540001376 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 550540001377 Putative rhamnosyl transferase; Region: Rhamno_transf; pfam11316 550540001378 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 550540001379 N-terminal domain of Chondroitin polymerase functions as a GalNAc transferase; Region: GT2_Chondriotin_Pol_N; cd06420 550540001380 Substrate binding site; other site 550540001381 metal-binding site 550540001382 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 550540001383 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 550540001384 active site 550540001385 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 550540001386 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 550540001387 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 550540001388 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 550540001389 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 550540001390 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 550540001391 Walker A/P-loop; other site 550540001392 ATP binding site [chemical binding]; other site 550540001393 Q-loop/lid; other site 550540001394 ABC transporter signature motif; other site 550540001395 Walker B; other site 550540001396 D-loop; other site 550540001397 H-loop/switch region; other site 550540001398 ABC-2 type transporter; Region: ABC2_membrane; cl17235 550540001399 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 550540001400 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 550540001401 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 550540001402 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 550540001403 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 550540001404 FMN binding site [chemical binding]; other site 550540001405 active site 550540001406 catalytic residues [active] 550540001407 substrate binding site [chemical binding]; other site 550540001408 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 550540001409 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 550540001410 S-adenosylmethionine binding site [chemical binding]; other site 550540001411 Succinate:quinone oxidoreductase (SQR) and Quinol:fumarate reductase (QFR) family, transmembrane subunits; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol, while QFR catalyzes the reverse reaction. SQR; Region: SQR_QFR_TM; cl00881 550540001412 Iron-sulfur protein interface; other site 550540001413 proximal heme binding site [chemical binding]; other site 550540001414 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 550540001415 L-aspartate oxidase; Provisional; Region: PRK06175 550540001416 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 550540001417 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 550540001418 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 550540001419 catalytic loop [active] 550540001420 iron binding site [ion binding]; other site 550540001421 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 550540001422 metal ion-dependent adhesion site (MIDAS); other site 550540001423 MoxR-like ATPases [General function prediction only]; Region: COG0714 550540001424 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 550540001425 Walker A motif; other site 550540001426 ATP binding site [chemical binding]; other site 550540001427 Walker B motif; other site 550540001428 arginine finger; other site 550540001429 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 550540001430 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 550540001431 active site 550540001432 catalytic residues [active] 550540001433 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 550540001434 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 550540001435 PA/protease or protease-like domain interface [polypeptide binding]; other site 550540001436 catalytic residues [active] 550540001437 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 550540001438 active site 550540001439 catalytic triad [active] 550540001440 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 550540001441 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 550540001442 Walker A motif; other site 550540001443 ATP binding site [chemical binding]; other site 550540001444 Walker B motif; other site 550540001445 arginine finger; other site 550540001446 AAA domain; Region: AAA_25; pfam13481 550540001447 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 550540001448 integrase; Provisional; Region: PRK09692 550540001449 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 550540001450 active site 550540001451 Int/Topo IB signature motif; other site 550540001452 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 550540001453 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 550540001454 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 550540001455 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 550540001456 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 550540001457 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 550540001458 carboxyltransferase (CT) interaction site; other site 550540001459 biotinylation site [posttranslational modification]; other site 550540001460 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 550540001461 Dehydroquinase class II; Region: DHquinase_II; pfam01220 550540001462 active site 550540001463 trimer interface [polypeptide binding]; other site 550540001464 dimer interface [polypeptide binding]; other site 550540001465 hypothetical protein; Provisional; Region: PRK09256 550540001466 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 550540001467 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 550540001468 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 550540001469 Predicted membrane protein [Function unknown]; Region: COG3205 550540001470 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 550540001471 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 550540001472 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 550540001473 TrkA-N domain; Region: TrkA_N; pfam02254 550540001474 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 550540001475 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 550540001476 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 550540001477 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 550540001478 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 550540001479 DsbD alpha interface [polypeptide binding]; other site 550540001480 catalytic residues [active] 550540001481 CutA1 divalent ion tolerance protein; Region: CutA1; pfam03091 550540001482 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 550540001483 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 550540001484 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 550540001485 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 550540001486 oligomerisation interface [polypeptide binding]; other site 550540001487 mobile loop; other site 550540001488 roof hairpin; other site 550540001489 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 550540001490 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 550540001491 ring oligomerisation interface [polypeptide binding]; other site 550540001492 ATP/Mg binding site [chemical binding]; other site 550540001493 stacking interactions; other site 550540001494 hinge regions; other site 550540001495 Predicted membrane protein [Function unknown]; Region: COG1289 550540001496 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 550540001497 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 550540001498 TraB family; Region: TraB; pfam01963 550540001499 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 550540001500 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 550540001501 Radical SAM superfamily; Region: Radical_SAM; pfam04055 550540001502 FeS/SAM binding site; other site 550540001503 elongation factor P; Validated; Region: PRK00529 550540001504 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 550540001505 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 550540001506 RNA binding site [nucleotide binding]; other site 550540001507 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 550540001508 RNA binding site [nucleotide binding]; other site 550540001509 poxB regulator PoxA; Provisional; Region: PRK09350 550540001510 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 550540001511 motif 1; other site 550540001512 dimer interface [polypeptide binding]; other site 550540001513 active site 550540001514 motif 2; other site 550540001515 motif 3; other site 550540001516 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 550540001517 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 550540001518 putative ligand binding site [chemical binding]; other site 550540001519 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 550540001520 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 550540001521 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 550540001522 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 550540001523 heme binding site [chemical binding]; other site 550540001524 ferroxidase pore; other site 550540001525 ferroxidase diiron center [ion binding]; other site 550540001526 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 550540001527 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 550540001528 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 550540001529 NAD binding site [chemical binding]; other site 550540001530 ligand binding site [chemical binding]; other site 550540001531 catalytic site [active] 550540001532 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 550540001533 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 550540001534 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 550540001535 active site 550540001536 catalytic site [active] 550540001537 metal binding site [ion binding]; metal-binding site 550540001538 putative mechanosensitive channel protein; Provisional; Region: PRK10929 550540001539 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 550540001540 Mechanosensitive ion channel; Region: MS_channel; pfam00924 550540001541 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 550540001542 EamA-like transporter family; Region: EamA; pfam00892 550540001543 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 550540001544 GTPase RsgA; Reviewed; Region: PRK12288 550540001545 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 550540001546 RNA binding site [nucleotide binding]; other site 550540001547 homodimer interface [polypeptide binding]; other site 550540001548 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 550540001549 GTPase/Zn-binding domain interface [polypeptide binding]; other site 550540001550 GTP/Mg2+ binding site [chemical binding]; other site 550540001551 G4 box; other site 550540001552 G5 box; other site 550540001553 G1 box; other site 550540001554 Switch I region; other site 550540001555 G2 box; other site 550540001556 G3 box; other site 550540001557 Switch II region; other site 550540001558 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 550540001559 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 550540001560 catalytic site [active] 550540001561 putative active site [active] 550540001562 putative substrate binding site [chemical binding]; other site 550540001563 dimer interface [polypeptide binding]; other site 550540001564 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 550540001565 dinuclear metal binding motif [ion binding]; other site 550540001566 putative carbohydrate kinase; Provisional; Region: PRK10565 550540001567 Uncharacterized conserved protein [Function unknown]; Region: COG0062 550540001568 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 550540001569 putative substrate binding site [chemical binding]; other site 550540001570 putative ATP binding site [chemical binding]; other site 550540001571 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 550540001572 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 550540001573 AMIN domain; Region: AMIN; pfam11741 550540001574 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 550540001575 active site 550540001576 metal binding site [ion binding]; metal-binding site 550540001577 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 550540001578 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550540001579 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 550540001580 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 550540001581 ATP binding site [chemical binding]; other site 550540001582 Mg2+ binding site [ion binding]; other site 550540001583 G-X-G motif; other site 550540001584 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 550540001585 ATP binding site [chemical binding]; other site 550540001586 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 550540001587 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 550540001588 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 550540001589 bacterial Hfq-like; Region: Hfq; cd01716 550540001590 hexamer interface [polypeptide binding]; other site 550540001591 Sm1 motif; other site 550540001592 RNA binding site [nucleotide binding]; other site 550540001593 Sm2 motif; other site 550540001594 GTPase HflX; Provisional; Region: PRK11058 550540001595 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 550540001596 HflX GTPase family; Region: HflX; cd01878 550540001597 G1 box; other site 550540001598 GTP/Mg2+ binding site [chemical binding]; other site 550540001599 Switch I region; other site 550540001600 G2 box; other site 550540001601 G3 box; other site 550540001602 Switch II region; other site 550540001603 G4 box; other site 550540001604 G5 box; other site 550540001605 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 550540001606 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 550540001607 HflK protein; Region: hflK; TIGR01933 550540001608 FtsH protease regulator HflC; Provisional; Region: PRK11029 550540001609 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 550540001610 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 550540001611 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 550540001612 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 550540001613 GDP-binding site [chemical binding]; other site 550540001614 ACT binding site; other site 550540001615 IMP binding site; other site 550540001616 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 550540001617 Sel1 repeat; Region: Sel1; cl02723 550540001618 ribonuclease R; Region: RNase_R; TIGR02063 550540001619 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 550540001620 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 550540001621 RNB domain; Region: RNB; pfam00773 550540001622 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 550540001623 RNA binding site [nucleotide binding]; other site 550540001624 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 550540001625 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 550540001626 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 550540001627 Protein of unknown function, DUF481; Region: DUF481; pfam04338 550540001628 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 550540001629 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 550540001630 generic binding surface II; other site 550540001631 generic binding surface I; other site 550540001632 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 550540001633 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 550540001634 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 550540001635 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 550540001636 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 550540001637 hydrophobic ligand binding site; other site 550540001638 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 550540001639 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 550540001640 VCBS repeat; Region: VCBS_repeat; TIGR01965 550540001641 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 550540001642 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 550540001643 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 550540001644 ligand binding site [chemical binding]; other site 550540001645 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 550540001646 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 550540001647 putative substrate translocation pore; other site 550540001648 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550540001649 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540001650 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540001651 LysR substrate binding domain; Region: LysR_substrate; pfam03466 550540001652 dimerization interface [polypeptide binding]; other site 550540001653 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 550540001654 heme-binding residues [chemical binding]; other site 550540001655 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 550540001656 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 550540001657 L-aspartate oxidase; Provisional; Region: PRK06175 550540001658 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 550540001659 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 550540001660 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 550540001661 Nucleoside recognition; Region: Gate; pfam07670 550540001662 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 550540001663 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 550540001664 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 550540001665 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 550540001666 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 550540001667 ligand binding site [chemical binding]; other site 550540001668 flexible hinge region; other site 550540001669 Predicted transcriptional regulator [Transcription]; Region: COG2378 550540001670 HTH domain; Region: HTH_11; cl17392 550540001671 WYL domain; Region: WYL; pfam13280 550540001672 RDD family; Region: RDD; pfam06271 550540001673 Uncharacterized conserved protein [Function unknown]; Region: COG2128 550540001674 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 550540001675 Proline dehydrogenase; Region: Pro_dh; pfam01619 550540001676 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 550540001677 Glutamate binding site [chemical binding]; other site 550540001678 NAD binding site [chemical binding]; other site 550540001679 catalytic residues [active] 550540001680 Bacterial SH3 domain homologues; Region: SH3b; smart00287 550540001681 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 550540001682 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 550540001683 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 550540001684 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 550540001685 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 550540001686 putative active site [active] 550540001687 putative metal binding residues [ion binding]; other site 550540001688 signature motif; other site 550540001689 putative triphosphate binding site [ion binding]; other site 550540001690 Ion transport protein; Region: Ion_trans; pfam00520 550540001691 Ion channel; Region: Ion_trans_2; pfam07885 550540001692 TATA element modulatory factor 1 DNA binding; Region: TMF_DNA_bd; pfam12329 550540001693 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 550540001694 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 550540001695 metal binding triad; other site 550540001696 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 550540001697 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 550540001698 metal binding triad; other site 550540001699 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 550540001700 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 550540001701 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 550540001702 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 550540001703 putative acyl-acceptor binding pocket; other site 550540001704 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 550540001705 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 550540001706 putative ribose interaction site [chemical binding]; other site 550540001707 putative ADP binding site [chemical binding]; other site 550540001708 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 550540001709 active site 550540001710 nucleotide binding site [chemical binding]; other site 550540001711 HIGH motif; other site 550540001712 KMSKS motif; other site 550540001713 phage shock protein C; Region: phageshock_pspC; TIGR02978 550540001714 phage shock protein C; Region: phageshock_pspC; TIGR02978 550540001715 LysE type translocator; Region: LysE; cl00565 550540001716 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 550540001717 aspartate racemase; Region: asp_race; TIGR00035 550540001718 Protein of unknown function (DUF3622); Region: DUF3622; pfam12286 550540001719 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 550540001720 putative catalytic residues [active] 550540001721 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 550540001722 Predicted transcriptional regulators [Transcription]; Region: COG1733 550540001723 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 550540001724 dimerization interface [polypeptide binding]; other site 550540001725 putative DNA binding site [nucleotide binding]; other site 550540001726 putative Zn2+ binding site [ion binding]; other site 550540001727 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 550540001728 active site 550540001729 SAM binding site [chemical binding]; other site 550540001730 homodimer interface [polypeptide binding]; other site 550540001731 Protein of unknown function (DUF2806); Region: DUF2806; cl12560 550540001732 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 550540001733 putative hydrophobic ligand binding site [chemical binding]; other site 550540001734 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 550540001735 Major Facilitator Superfamily; Region: MFS_1; pfam07690 550540001736 putative substrate translocation pore; other site 550540001737 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 550540001738 binding surface 550540001739 TPR motif; other site 550540001740 Tetratricopeptide repeat; Region: TPR_12; pfam13424 550540001741 TPR repeat; Region: TPR_11; pfam13414 550540001742 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 550540001743 binding surface 550540001744 TPR motif; other site 550540001745 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 550540001746 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 550540001747 DHHA2 domain; Region: DHHA2; pfam02833 550540001748 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 550540001749 AMP binding site [chemical binding]; other site 550540001750 metal binding site [ion binding]; metal-binding site 550540001751 active site 550540001752 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550540001753 active site 550540001754 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 550540001755 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 550540001756 EamA-like transporter family; Region: EamA; pfam00892 550540001757 EamA-like transporter family; Region: EamA; pfam00892 550540001758 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 550540001759 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540001760 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 550540001761 dimerization interface [polypeptide binding]; other site 550540001762 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 550540001763 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 550540001764 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 550540001765 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 550540001766 aromatic acid decarboxylase; Validated; Region: PRK05920 550540001767 Flavoprotein; Region: Flavoprotein; pfam02441 550540001768 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 550540001769 active site 550540001770 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 550540001771 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 550540001772 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550540001773 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550540001774 Superinfection exclusion protein B; Region: SieB; pfam14163 550540001775 Protein of unknown function (DUF342); Region: DUF342; pfam03961 550540001776 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 550540001777 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 550540001778 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 550540001779 S-adenosylmethionine binding site [chemical binding]; other site 550540001780 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540001781 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540001782 metal binding site [ion binding]; metal-binding site 550540001783 active site 550540001784 I-site; other site 550540001785 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 550540001786 glutathione synthetase; Provisional; Region: PRK05246 550540001787 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 550540001788 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 550540001789 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 550540001790 RNA methyltransferase, RsmE family; Region: TIGR00046 550540001791 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 550540001792 hypothetical protein; Provisional; Region: PRK04860 550540001793 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 550540001794 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 550540001795 putative substrate binding pocket [chemical binding]; other site 550540001796 AC domain interface; other site 550540001797 catalytic triad [active] 550540001798 AB domain interface; other site 550540001799 interchain disulfide; other site 550540001800 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 550540001801 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540001802 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540001803 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 550540001804 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 550540001805 putative active site [active] 550540001806 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 550540001807 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 550540001808 Walker A/P-loop; other site 550540001809 ATP binding site [chemical binding]; other site 550540001810 Q-loop/lid; other site 550540001811 ABC transporter signature motif; other site 550540001812 Walker B; other site 550540001813 D-loop; other site 550540001814 H-loop/switch region; other site 550540001815 S-adenosylmethionine synthetase; Validated; Region: PRK05250 550540001816 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 550540001817 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 550540001818 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 550540001819 spermidine synthase; Provisional; Region: PRK00811 550540001820 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 550540001821 S-adenosylmethionine binding site [chemical binding]; other site 550540001822 arginine decarboxylase; Provisional; Region: PRK05354 550540001823 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 550540001824 dimer interface [polypeptide binding]; other site 550540001825 active site 550540001826 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 550540001827 catalytic residues [active] 550540001828 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 550540001829 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 550540001830 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 550540001831 active site pocket [active] 550540001832 BCCT family transporter; Region: BCCT; cl00569 550540001833 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 550540001834 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 550540001835 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 550540001836 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540001837 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 550540001838 dimerization interface [polypeptide binding]; other site 550540001839 Transcriptional regulators [Transcription]; Region: GntR; COG1802 550540001840 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 550540001841 DNA-binding site [nucleotide binding]; DNA binding site 550540001842 FCD domain; Region: FCD; pfam07729 550540001843 DNA ligase; Provisional; Region: PRK09125 550540001844 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 550540001845 DNA binding site [nucleotide binding] 550540001846 active site 550540001847 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 550540001848 DNA binding site [nucleotide binding] 550540001849 transketolase; Reviewed; Region: PRK12753 550540001850 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 550540001851 TPP-binding site [chemical binding]; other site 550540001852 dimer interface [polypeptide binding]; other site 550540001853 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 550540001854 PYR/PP interface [polypeptide binding]; other site 550540001855 dimer interface [polypeptide binding]; other site 550540001856 TPP binding site [chemical binding]; other site 550540001857 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 550540001858 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 550540001859 Bacterial protein of unknown function (DUF903); Region: DUF903; pfam06004 550540001860 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540001861 metal binding site [ion binding]; metal-binding site 550540001862 active site 550540001863 I-site; other site 550540001864 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540001865 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540001866 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 550540001867 putative dimerization interface [polypeptide binding]; other site 550540001868 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 550540001869 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 550540001870 CoenzymeA binding site [chemical binding]; other site 550540001871 subunit interaction site [polypeptide binding]; other site 550540001872 PHB binding site; other site 550540001873 Protein of unknown function (DUF3389); Region: DUF3389; pfam11869 550540001874 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 550540001875 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 550540001876 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 550540001877 Cell division protein ZapA; Region: ZapA; pfam05164 550540001878 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 550540001879 proline aminopeptidase P II; Provisional; Region: PRK10879 550540001880 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 550540001881 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 550540001882 active site 550540001883 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 550540001884 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 550540001885 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 550540001886 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 550540001887 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 550540001888 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 550540001889 glycine cleavage system protein H; Provisional; Region: PRK13380 550540001890 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 550540001891 lipoyl attachment site [posttranslational modification]; other site 550540001892 glycine dehydrogenase; Provisional; Region: PRK05367 550540001893 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 550540001894 tetramer interface [polypeptide binding]; other site 550540001895 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540001896 catalytic residue [active] 550540001897 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 550540001898 tetramer interface [polypeptide binding]; other site 550540001899 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540001900 catalytic residue [active] 550540001901 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540001902 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540001903 LysR substrate binding domain; Region: LysR_substrate; pfam03466 550540001904 dimerization interface [polypeptide binding]; other site 550540001905 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 550540001906 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 550540001907 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 550540001908 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 550540001909 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 550540001910 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 550540001911 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 550540001912 tetramer interface [polypeptide binding]; other site 550540001913 heme binding pocket [chemical binding]; other site 550540001914 NADPH binding site [chemical binding]; other site 550540001915 Mechanosensitive ion channel; Region: MS_channel; pfam00924 550540001916 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 550540001917 hypothetical protein; Provisional; Region: PRK10578 550540001918 UPF0126 domain; Region: UPF0126; pfam03458 550540001919 UPF0126 domain; Region: UPF0126; pfam03458 550540001920 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 550540001921 CobD/Cbib protein; Region: CobD_Cbib; cl00561 550540001922 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 550540001923 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 550540001924 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 550540001925 DNA binding site [nucleotide binding] 550540001926 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 550540001927 heme-binding residues [chemical binding]; other site 550540001928 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 550540001929 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 550540001930 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 550540001931 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 550540001932 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 550540001933 active site 550540001934 dimer interface [polypeptide binding]; other site 550540001935 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 550540001936 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 550540001937 active site 550540001938 FMN binding site [chemical binding]; other site 550540001939 substrate binding site [chemical binding]; other site 550540001940 3Fe-4S cluster binding site [ion binding]; other site 550540001941 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 550540001942 domain interface; other site 550540001943 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 550540001944 putative GTP cyclohydrolase; Provisional; Region: PRK13674 550540001945 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 550540001946 Sporulation related domain; Region: SPOR; pfam05036 550540001947 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 550540001948 putative binding surface; other site 550540001949 active site 550540001950 two-component response regulator; Provisional; Region: PRK11173 550540001951 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540001952 active site 550540001953 phosphorylation site [posttranslational modification] 550540001954 intermolecular recognition site; other site 550540001955 dimerization interface [polypeptide binding]; other site 550540001956 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 550540001957 DNA binding site [nucleotide binding] 550540001958 aspartate kinase III; Validated; Region: PRK09084 550540001959 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 550540001960 nucleotide binding site [chemical binding]; other site 550540001961 substrate binding site [chemical binding]; other site 550540001962 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 550540001963 lysine allosteric regulatory site; other site 550540001964 dimer interface [polypeptide binding]; other site 550540001965 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 550540001966 dimer interface [polypeptide binding]; other site 550540001967 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 550540001968 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 550540001969 active site 550540001970 catalytic residues [active] 550540001971 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 550540001972 PA/protease or protease-like domain interface [polypeptide binding]; other site 550540001973 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 550540001974 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 550540001975 active site 550540001976 catalytic triad [active] 550540001977 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 550540001978 PA/protease or protease-like domain interface [polypeptide binding]; other site 550540001979 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 550540001980 catalytic residues [active] 550540001981 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 550540001982 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 550540001983 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 550540001984 putative DNA binding site [nucleotide binding]; other site 550540001985 putative Zn2+ binding site [ion binding]; other site 550540001986 AsnC family; Region: AsnC_trans_reg; pfam01037 550540001987 asparagine synthetase AsnA; Provisional; Region: PRK05425 550540001988 motif 1; other site 550540001989 dimer interface [polypeptide binding]; other site 550540001990 active site 550540001991 motif 2; other site 550540001992 motif 3; other site 550540001993 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 550540001994 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 550540001995 active site 550540001996 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 550540001997 S-adenosylmethionine binding site [chemical binding]; other site 550540001998 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 550540001999 catalytic residues [active] 550540002000 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 550540002001 peptide chain release factor 2; Validated; Region: prfB; PRK00578 550540002002 This domain is found in peptide chain release factors; Region: PCRF; smart00937 550540002003 RF-1 domain; Region: RF-1; pfam00472 550540002004 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 550540002005 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 550540002006 dimer interface [polypeptide binding]; other site 550540002007 putative anticodon binding site; other site 550540002008 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 550540002009 motif 1; other site 550540002010 active site 550540002011 motif 2; other site 550540002012 motif 3; other site 550540002013 Chitin binding domain; Region: Chitin_bind_3; pfam03067 550540002014 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 550540002015 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 550540002016 aromatic chitin/cellulose binding site residues [chemical binding]; other site 550540002017 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 550540002018 aromatic chitin/cellulose binding site residues [chemical binding]; other site 550540002019 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 550540002020 nudix motif; other site 550540002021 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 550540002022 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 550540002023 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 550540002024 ferredoxin-NADP reductase; Provisional; Region: PRK10926 550540002025 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 550540002026 FAD binding pocket [chemical binding]; other site 550540002027 FAD binding motif [chemical binding]; other site 550540002028 phosphate binding motif [ion binding]; other site 550540002029 beta-alpha-beta structure motif; other site 550540002030 NAD binding pocket [chemical binding]; other site 550540002031 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 550540002032 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 550540002033 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 550540002034 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 550540002035 catalytic residue [active] 550540002036 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 550540002037 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 550540002038 active site residue [active] 550540002039 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 550540002040 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 550540002041 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 550540002042 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 550540002043 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 550540002044 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 550540002045 N-terminal plug; other site 550540002046 ligand-binding site [chemical binding]; other site 550540002047 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 550540002048 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 550540002049 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 550540002050 ligand binding site [chemical binding]; other site 550540002051 NAD binding site [chemical binding]; other site 550540002052 tetramer interface [polypeptide binding]; other site 550540002053 catalytic site [active] 550540002054 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 550540002055 L-serine binding site [chemical binding]; other site 550540002056 ACT domain interface; other site 550540002057 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550540002058 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550540002059 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 550540002060 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 550540002061 NAD(P) binding site [chemical binding]; other site 550540002062 catalytic residues [active] 550540002063 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 550540002064 catalytic residues [active] 550540002065 dimer interface [polypeptide binding]; other site 550540002066 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 550540002067 tetramer (dimer of dimers) interface [polypeptide binding]; other site 550540002068 active site 550540002069 dimer interface [polypeptide binding]; other site 550540002070 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 550540002071 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 550540002072 putative dimer interface [polypeptide binding]; other site 550540002073 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 550540002074 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 550540002075 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 550540002076 Predicted membrane protein [Function unknown]; Region: COG2119 550540002077 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 550540002078 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 550540002079 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 550540002080 Peptidase S46; Region: Peptidase_S46; pfam10459 550540002081 V8-like Glu-specific endopeptidase [Amino acid transport and metabolism]; Region: COG3591 550540002082 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 550540002083 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 550540002084 substrate binding site [chemical binding]; other site 550540002085 oxyanion hole (OAH) forming residues; other site 550540002086 trimer interface [polypeptide binding]; other site 550540002087 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 550540002088 HAMP domain; Region: HAMP; pfam00672 550540002089 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550540002090 dimer interface [polypeptide binding]; other site 550540002091 putative CheW interface [polypeptide binding]; other site 550540002092 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 550540002093 active site 550540002094 8-oxo-dGMP binding site [chemical binding]; other site 550540002095 nudix motif; other site 550540002096 metal binding site [ion binding]; metal-binding site 550540002097 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 550540002098 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 550540002099 Dodecin; Region: Dodecin; pfam07311 550540002100 epoxyqueuosine reductase; Region: TIGR00276 550540002101 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 550540002102 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 550540002103 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 550540002104 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 550540002105 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 550540002106 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 550540002107 DNA binding residues [nucleotide binding] 550540002108 Protein-interacting V-domain of mammalian Alix and related domains; Region: V_Alix_like; cl14654 550540002109 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 550540002110 ATP binding site [chemical binding]; other site 550540002111 Mg2+ binding site [ion binding]; other site 550540002112 G-X-G motif; other site 550540002113 HD domain; Region: HD_3; cl17350 550540002114 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 550540002115 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540002116 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 550540002117 dimerization interface [polypeptide binding]; other site 550540002118 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 550540002119 cyclase homology domain; Region: CHD; cd07302 550540002120 nucleotidyl binding site; other site 550540002121 metal binding site [ion binding]; metal-binding site 550540002122 dimer interface [polypeptide binding]; other site 550540002123 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 550540002124 putative DNA-binding cleft [nucleotide binding]; other site 550540002125 putative DNA clevage site; other site 550540002126 molecular lever; other site 550540002127 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 550540002128 putative active site [active] 550540002129 Ap4A binding site [chemical binding]; other site 550540002130 nudix motif; other site 550540002131 putative metal binding site [ion binding]; other site 550540002132 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 550540002133 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 550540002134 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 550540002135 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 550540002136 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 550540002137 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 550540002138 thymidylate synthase; Reviewed; Region: thyA; PRK01827 550540002139 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 550540002140 dimerization interface [polypeptide binding]; other site 550540002141 active site 550540002142 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 550540002143 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 550540002144 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540002145 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 550540002146 dimerization interface [polypeptide binding]; other site 550540002147 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 550540002148 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 550540002149 putative substrate translocation pore; other site 550540002150 Uncharacterized conserved protein [Function unknown]; Region: COG2938 550540002151 L-aspartate oxidase; Provisional; Region: PRK09077 550540002152 L-aspartate oxidase; Provisional; Region: PRK06175 550540002153 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 550540002154 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 550540002155 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 550540002156 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 550540002157 DNA binding residues [nucleotide binding] 550540002158 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 550540002159 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 550540002160 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 550540002161 MucB/RseB family; Region: MucB_RseB; pfam03888 550540002162 anti-sigma E factor; Provisional; Region: rseB; PRK09455 550540002163 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 550540002164 GTP-binding protein LepA; Provisional; Region: PRK05433 550540002165 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 550540002166 G1 box; other site 550540002167 putative GEF interaction site [polypeptide binding]; other site 550540002168 GTP/Mg2+ binding site [chemical binding]; other site 550540002169 Switch I region; other site 550540002170 G2 box; other site 550540002171 G3 box; other site 550540002172 Switch II region; other site 550540002173 G4 box; other site 550540002174 G5 box; other site 550540002175 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 550540002176 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 550540002177 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 550540002178 signal peptidase I; Provisional; Region: PRK10861 550540002179 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 550540002180 Catalytic site [active] 550540002181 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 550540002182 ribonuclease III; Reviewed; Region: rnc; PRK00102 550540002183 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 550540002184 dimerization interface [polypeptide binding]; other site 550540002185 active site 550540002186 metal binding site [ion binding]; metal-binding site 550540002187 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 550540002188 dsRNA binding site [nucleotide binding]; other site 550540002189 GTPase Era; Reviewed; Region: era; PRK00089 550540002190 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 550540002191 G1 box; other site 550540002192 GTP/Mg2+ binding site [chemical binding]; other site 550540002193 Switch I region; other site 550540002194 G2 box; other site 550540002195 Switch II region; other site 550540002196 G3 box; other site 550540002197 G4 box; other site 550540002198 G5 box; other site 550540002199 KH domain; Region: KH_2; pfam07650 550540002200 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 550540002201 Recombination protein O N terminal; Region: RecO_N; pfam11967 550540002202 Recombination protein O C terminal; Region: RecO_C; pfam02565 550540002203 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 550540002204 active site 550540002205 hydrophilic channel; other site 550540002206 dimerization interface [polypeptide binding]; other site 550540002207 catalytic residues [active] 550540002208 active site lid [active] 550540002209 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 550540002210 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 550540002211 hypothetical protein; Provisional; Region: PRK11573 550540002212 Domain of unknown function DUF21; Region: DUF21; pfam01595 550540002213 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 550540002214 Transporter associated domain; Region: CorC_HlyC; smart01091 550540002215 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 550540002216 signal recognition particle protein; Provisional; Region: PRK10867 550540002217 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 550540002218 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 550540002219 P loop; other site 550540002220 GTP binding site [chemical binding]; other site 550540002221 Signal peptide binding domain; Region: SRP_SPB; pfam02978 550540002222 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 550540002223 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 550540002224 RimM N-terminal domain; Region: RimM; pfam01782 550540002225 PRC-barrel domain; Region: PRC; pfam05239 550540002226 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 550540002227 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 550540002228 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 550540002229 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 550540002230 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 550540002231 chorismate mutase domain of T-protein; Region: CM_T; TIGR01799 550540002232 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; pfam09650 550540002233 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 550540002234 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; cl07863 550540002235 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 550540002236 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 550540002237 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 550540002238 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 550540002239 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 550540002240 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550540002241 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550540002242 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 550540002243 short chain dehydrogenase; Provisional; Region: PRK07201 550540002244 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 550540002245 putative NAD(P) binding site [chemical binding]; other site 550540002246 active site 550540002247 putative substrate binding site [chemical binding]; other site 550540002248 classical (c) SDRs; Region: SDR_c; cd05233 550540002249 NAD(P) binding site [chemical binding]; other site 550540002250 active site 550540002251 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 550540002252 Chorismate mutase type II; Region: CM_2; cl00693 550540002253 Prephenate dehydratase; Region: PDT; pfam00800 550540002254 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 550540002255 putative L-Phe binding site [chemical binding]; other site 550540002256 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 550540002257 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 550540002258 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 550540002259 30S subunit binding site; other site 550540002260 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 550540002261 Cytochrome C' Region: Cytochrom_C_2; pfam01322 550540002262 Trp repressor protein; Region: Trp_repressor; cl17266 550540002263 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 550540002264 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 550540002265 lipid kinase; Reviewed; Region: PRK13054 550540002266 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 550540002267 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540002268 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540002269 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 550540002270 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 550540002271 Helix-turn-helix domain; Region: HTH_18; pfam12833 550540002272 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550540002273 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 550540002274 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 550540002275 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 550540002276 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 550540002277 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 550540002278 putative RNA methyltransferase; Provisional; Region: PRK10433 550540002279 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 550540002280 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 550540002281 putative catalytic residues [active] 550540002282 putative nucleotide binding site [chemical binding]; other site 550540002283 putative aspartate binding site [chemical binding]; other site 550540002284 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 550540002285 dimer interface [polypeptide binding]; other site 550540002286 putative threonine allosteric regulatory site; other site 550540002287 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 550540002288 putative threonine allosteric regulatory site; other site 550540002289 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 550540002290 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 550540002291 homoserine kinase; Provisional; Region: PRK01212 550540002292 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 550540002293 threonine synthase; Validated; Region: PRK09225 550540002294 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 550540002295 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 550540002296 catalytic residue [active] 550540002297 endonuclease IV; Provisional; Region: PRK01060 550540002298 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 550540002299 AP (apurinic/apyrimidinic) site pocket; other site 550540002300 DNA interaction; other site 550540002301 Metal-binding active site; metal-binding site 550540002302 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 550540002303 ligand binding site [chemical binding]; other site 550540002304 active site 550540002305 UGI interface [polypeptide binding]; other site 550540002306 catalytic site [active] 550540002307 Hemerythrin-like domain; Region: Hr-like; cd12108 550540002308 Fe binding site [ion binding]; other site 550540002309 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 550540002310 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 550540002311 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 550540002312 active site 550540002313 dimer interface [polypeptide binding]; other site 550540002314 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 550540002315 dimer interface [polypeptide binding]; other site 550540002316 active site 550540002317 transaldolase-like protein; Provisional; Region: PTZ00411 550540002318 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 550540002319 active site 550540002320 dimer interface [polypeptide binding]; other site 550540002321 catalytic residue [active] 550540002322 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 550540002323 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 550540002324 hypothetical protein; Validated; Region: PRK02101 550540002325 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 550540002326 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 550540002327 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 550540002328 Salmonella repeat of unknown function (DUF823); Region: DUF823; pfam05689 550540002329 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 550540002330 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 550540002331 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 550540002332 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 550540002333 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 550540002334 active site 550540002335 Riboflavin kinase; Region: Flavokinase; smart00904 550540002336 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 550540002337 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 550540002338 active site 550540002339 HIGH motif; other site 550540002340 nucleotide binding site [chemical binding]; other site 550540002341 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 550540002342 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 550540002343 active site 550540002344 KMSKS motif; other site 550540002345 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 550540002346 tRNA binding surface [nucleotide binding]; other site 550540002347 anticodon binding site; other site 550540002348 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 550540002349 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 550540002350 lipoprotein signal peptidase; Provisional; Region: PRK14787 550540002351 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 550540002352 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 550540002353 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 550540002354 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 550540002355 Type II transport protein GspH; Region: GspH; pfam12019 550540002356 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 550540002357 Prokaryotic N-terminal methylation site; Region: N_methyl_3; pfam13633 550540002358 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 550540002359 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 550540002360 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 550540002361 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 550540002362 NAD synthetase; Provisional; Region: PRK13981 550540002363 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 550540002364 multimer interface [polypeptide binding]; other site 550540002365 active site 550540002366 catalytic triad [active] 550540002367 protein interface 1 [polypeptide binding]; other site 550540002368 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 550540002369 homodimer interface [polypeptide binding]; other site 550540002370 NAD binding pocket [chemical binding]; other site 550540002371 ATP binding pocket [chemical binding]; other site 550540002372 Mg binding site [ion binding]; other site 550540002373 active-site loop [active] 550540002374 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 550540002375 Nitrogen regulatory protein P-II; Region: P-II; smart00938 550540002376 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 550540002377 Predicted transcriptional regulator [Transcription]; Region: COG2932 550540002378 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 550540002379 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 550540002380 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 550540002381 RNA binding surface [nucleotide binding]; other site 550540002382 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 550540002383 active site 550540002384 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 550540002385 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 550540002386 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 550540002387 Clp amino terminal domain; Region: Clp_N; pfam02861 550540002388 Clp amino terminal domain; Region: Clp_N; pfam02861 550540002389 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 550540002390 Walker A motif; other site 550540002391 ATP binding site [chemical binding]; other site 550540002392 Walker B motif; other site 550540002393 arginine finger; other site 550540002394 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 550540002395 Walker A motif; other site 550540002396 ATP binding site [chemical binding]; other site 550540002397 Walker B motif; other site 550540002398 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 550540002399 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 550540002400 Sulfatase; Region: Sulfatase; pfam00884 550540002401 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 550540002402 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 550540002403 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 550540002404 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 550540002405 HEAT repeats; Region: HEAT_2; pfam13646 550540002406 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 550540002407 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 550540002408 binding surface 550540002409 TPR motif; other site 550540002410 Cytochrome c; Region: Cytochrom_C; cl11414 550540002411 sulfite oxidase; Provisional; Region: PLN00177 550540002412 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 550540002413 Moco binding site; other site 550540002414 metal coordination site [ion binding]; other site 550540002415 dimerization interface [polypeptide binding]; other site 550540002416 Cupin domain; Region: Cupin_2; pfam07883 550540002417 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 550540002418 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550540002419 Coenzyme A binding pocket [chemical binding]; other site 550540002420 lipoyl synthase; Provisional; Region: PRK05481 550540002421 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 550540002422 FeS/SAM binding site; other site 550540002423 lipoate-protein ligase B; Provisional; Region: PRK14342 550540002424 hypothetical protein; Provisional; Region: PRK04998 550540002425 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 550540002426 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 550540002427 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 550540002428 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 550540002429 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 550540002430 Sporulation related domain; Region: SPOR; pfam05036 550540002431 Transglycosylase SLT domain; Region: SLT_2; pfam13406 550540002432 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 550540002433 N-acetyl-D-glucosamine binding site [chemical binding]; other site 550540002434 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 550540002435 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 550540002436 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 550540002437 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 550540002438 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 550540002439 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 550540002440 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 550540002441 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 550540002442 active site 550540002443 (T/H)XGH motif; other site 550540002444 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 550540002445 Lipopolysaccharide-assembly; Region: LptE; cl01125 550540002446 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 550540002447 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 550540002448 HIGH motif; other site 550540002449 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 550540002450 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 550540002451 active site 550540002452 KMSKS motif; other site 550540002453 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 550540002454 tRNA binding surface [nucleotide binding]; other site 550540002455 hypothetical protein; Provisional; Region: PRK11032 550540002456 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 550540002457 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 550540002458 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 550540002459 ABC transporter; Region: ABC_tran_2; pfam12848 550540002460 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 550540002461 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 550540002462 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 550540002463 N-terminal plug; other site 550540002464 ligand-binding site [chemical binding]; other site 550540002465 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 550540002466 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 550540002467 dimer interface [polypeptide binding]; other site 550540002468 active site 550540002469 glycine-pyridoxal phosphate binding site [chemical binding]; other site 550540002470 folate binding site [chemical binding]; other site 550540002471 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 550540002472 ATP cone domain; Region: ATP-cone; pfam03477 550540002473 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 550540002474 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 550540002475 catalytic motif [active] 550540002476 Zn binding site [ion binding]; other site 550540002477 RibD C-terminal domain; Region: RibD_C; cl17279 550540002478 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 550540002479 Lumazine binding domain; Region: Lum_binding; pfam00677 550540002480 Lumazine binding domain; Region: Lum_binding; pfam00677 550540002481 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 550540002482 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 550540002483 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 550540002484 dimerization interface [polypeptide binding]; other site 550540002485 active site 550540002486 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 550540002487 homopentamer interface [polypeptide binding]; other site 550540002488 active site 550540002489 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 550540002490 putative RNA binding site [nucleotide binding]; other site 550540002491 thiamine monophosphate kinase; Provisional; Region: PRK05731 550540002492 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 550540002493 ATP binding site [chemical binding]; other site 550540002494 dimerization interface [polypeptide binding]; other site 550540002495 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 550540002496 tetramer interfaces [polypeptide binding]; other site 550540002497 binuclear metal-binding site [ion binding]; other site 550540002498 Protein of unknown function (DUF416); Region: DUF416; pfam04222 550540002499 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 550540002500 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 550540002501 HAMP domain; Region: HAMP; pfam00672 550540002502 dimerization interface [polypeptide binding]; other site 550540002503 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 550540002504 dimer interface [polypeptide binding]; other site 550540002505 phosphorylation site [posttranslational modification] 550540002506 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 550540002507 ATP binding site [chemical binding]; other site 550540002508 Mg2+ binding site [ion binding]; other site 550540002509 G-X-G motif; other site 550540002510 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540002511 active site 550540002512 phosphorylation site [posttranslational modification] 550540002513 intermolecular recognition site; other site 550540002514 dimerization interface [polypeptide binding]; other site 550540002515 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 550540002516 putative binding surface; other site 550540002517 active site 550540002518 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 550540002519 TRAM domain; Region: TRAM; pfam01938 550540002520 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 550540002521 S-adenosylmethionine binding site [chemical binding]; other site 550540002522 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 550540002523 HD domain; Region: HD_4; pfam13328 550540002524 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 550540002525 synthetase active site [active] 550540002526 NTP binding site [chemical binding]; other site 550540002527 metal binding site [ion binding]; metal-binding site 550540002528 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 550540002529 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 550540002530 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 550540002531 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 550540002532 homodimer interface [polypeptide binding]; other site 550540002533 metal binding site [ion binding]; metal-binding site 550540002534 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 550540002535 homodimer interface [polypeptide binding]; other site 550540002536 active site 550540002537 putative chemical substrate binding site [chemical binding]; other site 550540002538 metal binding site [ion binding]; metal-binding site 550540002539 CTP synthetase; Validated; Region: pyrG; PRK05380 550540002540 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 550540002541 Catalytic site [active] 550540002542 active site 550540002543 UTP binding site [chemical binding]; other site 550540002544 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 550540002545 active site 550540002546 putative oxyanion hole; other site 550540002547 catalytic triad [active] 550540002548 enolase; Provisional; Region: eno; PRK00077 550540002549 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 550540002550 dimer interface [polypeptide binding]; other site 550540002551 metal binding site [ion binding]; metal-binding site 550540002552 substrate binding pocket [chemical binding]; other site 550540002553 Septum formation initiator; Region: DivIC; cl17659 550540002554 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 550540002555 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 550540002556 substrate binding site; other site 550540002557 dimer interface; other site 550540002558 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 550540002559 homotrimer interaction site [polypeptide binding]; other site 550540002560 zinc binding site [ion binding]; other site 550540002561 CDP-binding sites; other site 550540002562 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 550540002563 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 550540002564 Permutation of conserved domain; other site 550540002565 active site 550540002566 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 550540002567 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 550540002568 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 550540002569 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 550540002570 Methyltransferase domain; Region: Methyltransf_18; pfam12847 550540002571 S-adenosylmethionine binding site [chemical binding]; other site 550540002572 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 550540002573 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550540002574 Peptidase family M23; Region: Peptidase_M23; pfam01551 550540002575 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 550540002576 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 550540002577 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 550540002578 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 550540002579 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 550540002580 DNA binding residues [nucleotide binding] 550540002581 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 550540002582 MutS domain I; Region: MutS_I; pfam01624 550540002583 MutS domain II; Region: MutS_II; pfam05188 550540002584 MutS domain III; Region: MutS_III; pfam05192 550540002585 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 550540002586 Walker A/P-loop; other site 550540002587 ATP binding site [chemical binding]; other site 550540002588 Q-loop/lid; other site 550540002589 ABC transporter signature motif; other site 550540002590 Walker B; other site 550540002591 D-loop; other site 550540002592 H-loop/switch region; other site 550540002593 recombinase A; Provisional; Region: recA; PRK09354 550540002594 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 550540002595 hexamer interface [polypeptide binding]; other site 550540002596 Walker A motif; other site 550540002597 ATP binding site [chemical binding]; other site 550540002598 Walker B motif; other site 550540002599 recombination regulator RecX; Reviewed; Region: recX; PRK00117 550540002600 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 550540002601 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 550540002602 motif 1; other site 550540002603 active site 550540002604 motif 2; other site 550540002605 motif 3; other site 550540002606 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 550540002607 DHHA1 domain; Region: DHHA1; pfam02272 550540002608 aspartate kinase; Reviewed; Region: PRK06635 550540002609 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 550540002610 putative nucleotide binding site [chemical binding]; other site 550540002611 putative catalytic residues [active] 550540002612 putative Mg ion binding site [ion binding]; other site 550540002613 putative aspartate binding site [chemical binding]; other site 550540002614 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 550540002615 putative allosteric regulatory site; other site 550540002616 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 550540002617 carbon storage regulator; Provisional; Region: PRK01712 550540002618 oxaloacetate decarboxylase; Provisional; Region: PRK14040 550540002619 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 550540002620 active site 550540002621 catalytic residues [active] 550540002622 metal binding site [ion binding]; metal-binding site 550540002623 homodimer binding site [polypeptide binding]; other site 550540002624 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 550540002625 carboxyltransferase (CT) interaction site; other site 550540002626 biotinylation site [posttranslational modification]; other site 550540002627 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 550540002628 transcriptional repressor NsrR; Provisional; Region: PRK11014 550540002629 Rrf2 family protein; Region: rrf2_super; TIGR00738 550540002630 Predicted membrane protein [Function unknown]; Region: COG1238 550540002631 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 550540002632 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 550540002633 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 550540002634 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 550540002635 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 550540002636 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 550540002637 glutamate--cysteine ligase; Provisional; Region: PRK02107 550540002638 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 550540002639 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 550540002640 N-acetyl-D-glucosamine binding site [chemical binding]; other site 550540002641 catalytic residue [active] 550540002642 Protein of unknown function (DUF952); Region: DUF952; cl01393 550540002643 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 550540002644 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 550540002645 TPP-binding site; other site 550540002646 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 550540002647 PYR/PP interface [polypeptide binding]; other site 550540002648 dimer interface [polypeptide binding]; other site 550540002649 TPP binding site [chemical binding]; other site 550540002650 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 550540002651 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 550540002652 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 550540002653 substrate binding pocket [chemical binding]; other site 550540002654 chain length determination region; other site 550540002655 substrate-Mg2+ binding site; other site 550540002656 catalytic residues [active] 550540002657 aspartate-rich region 1; other site 550540002658 active site lid residues [active] 550540002659 aspartate-rich region 2; other site 550540002660 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 550540002661 flagellar motor protein PomA; Reviewed; Region: PRK08990 550540002662 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 550540002663 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 550540002664 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 550540002665 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 550540002666 ligand binding site [chemical binding]; other site 550540002667 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 550540002668 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 550540002669 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 550540002670 Ligand Binding Site [chemical binding]; other site 550540002671 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 550540002672 active site residue [active] 550540002673 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 550540002674 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 550540002675 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 550540002676 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 550540002677 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 550540002678 Predicted integral membrane protein [Function unknown]; Region: COG5652 550540002679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 550540002680 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 550540002681 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 550540002682 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550540002683 dimer interface [polypeptide binding]; other site 550540002684 putative CheW interface [polypeptide binding]; other site 550540002685 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540002686 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540002687 metal binding site [ion binding]; metal-binding site 550540002688 active site 550540002689 I-site; other site 550540002690 Acetyl-coenzyme A transporter 1; Region: Acatn; pfam13000 550540002691 muropeptide transporter; Reviewed; Region: ampG; PRK11902 550540002692 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 550540002693 putative substrate translocation pore; other site 550540002694 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 550540002695 active site 550540002696 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 550540002697 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 550540002698 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 550540002699 S-adenosylmethionine binding site [chemical binding]; other site 550540002700 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; cl17321 550540002701 BolA-like protein; Region: BolA; cl00386 550540002702 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 550540002703 DctM-like transporters; Region: DctM; pfam06808 550540002704 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 550540002705 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 550540002706 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 550540002707 S-ribosylhomocysteinase; Provisional; Region: PRK02260 550540002708 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 550540002709 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 550540002710 E3 interaction surface; other site 550540002711 lipoyl attachment site [posttranslational modification]; other site 550540002712 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 550540002713 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 550540002714 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 550540002715 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 550540002716 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 550540002717 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 550540002718 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 550540002719 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 550540002720 catalytic loop [active] 550540002721 iron binding site [ion binding]; other site 550540002722 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 550540002723 FAD binding pocket [chemical binding]; other site 550540002724 FAD binding motif [chemical binding]; other site 550540002725 phosphate binding motif [ion binding]; other site 550540002726 beta-alpha-beta structure motif; other site 550540002727 NAD binding pocket [chemical binding]; other site 550540002728 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 550540002729 ApbE family; Region: ApbE; pfam02424 550540002730 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 550540002731 Cache domain; Region: Cache_1; pfam02743 550540002732 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 550540002733 dimerization interface [polypeptide binding]; other site 550540002734 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550540002735 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 550540002736 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550540002737 dimer interface [polypeptide binding]; other site 550540002738 putative CheW interface [polypeptide binding]; other site 550540002739 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 550540002740 active site 550540002741 DNA polymerase IV; Validated; Region: PRK02406 550540002742 DNA binding site [nucleotide binding] 550540002743 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 550540002744 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 550540002745 metal binding site [ion binding]; metal-binding site 550540002746 dimer interface [polypeptide binding]; other site 550540002747 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cl08294 550540002748 interface (dimer of trimers) [polypeptide binding]; other site 550540002749 Substrate-binding/catalytic site; other site 550540002750 Zn-binding sites [ion binding]; other site 550540002751 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 550540002752 gamma-glutamyl kinase; Provisional; Region: PRK05429 550540002753 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 550540002754 nucleotide binding site [chemical binding]; other site 550540002755 homotetrameric interface [polypeptide binding]; other site 550540002756 putative phosphate binding site [ion binding]; other site 550540002757 putative allosteric binding site; other site 550540002758 PUA domain; Region: PUA; pfam01472 550540002759 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 550540002760 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 550540002761 putative catalytic cysteine [active] 550540002762 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 550540002763 PAS domain; Region: PAS_9; pfam13426 550540002764 putative active site [active] 550540002765 heme pocket [chemical binding]; other site 550540002766 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 550540002767 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550540002768 dimer interface [polypeptide binding]; other site 550540002769 putative CheW interface [polypeptide binding]; other site 550540002770 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 550540002771 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 550540002772 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 550540002773 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 550540002774 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 550540002775 Peptidase family U32; Region: Peptidase_U32; cl03113 550540002776 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 550540002777 Peptidase family U32; Region: Peptidase_U32; pfam01136 550540002778 SCP-2 sterol transfer family; Region: SCP2; pfam02036 550540002779 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 550540002780 hypothetical protein; Provisional; Region: PRK09898 550540002781 4Fe-4S binding domain; Region: Fer4; pfam00037 550540002782 putative oxidoreductase; Provisional; Region: PRK09849 550540002783 Aldehyde ferredoxin oxidoreductase, N-terminal domain; Region: AFOR_N; pfam02730 550540002784 Aldehyde ferredoxin oxidoreductase, domains 2 & 3; Region: AFOR_C; pfam01314 550540002785 hypothetical protein; Provisional; Region: PRK09947 550540002786 MAPEG family; Region: MAPEG; cl09190 550540002787 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 550540002788 Mg binding site [ion binding]; other site 550540002789 nucleotide binding site [chemical binding]; other site 550540002790 putative protofilament interface [polypeptide binding]; other site 550540002791 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 550540002792 putative protease; Provisional; Region: PRK15452 550540002793 Peptidase family U32; Region: Peptidase_U32; pfam01136 550540002794 HDOD domain; Region: HDOD; pfam08668 550540002795 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 550540002796 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 550540002797 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 550540002798 Syd protein (SUKH-2); Region: Syd; cl06405 550540002799 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 550540002800 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 550540002801 NAD(P) binding site [chemical binding]; other site 550540002802 catalytic residues [active] 550540002803 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 550540002804 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 550540002805 Major Facilitator Superfamily; Region: MFS_1; pfam07690 550540002806 putative substrate translocation pore; other site 550540002807 hypothetical protein; Provisional; Region: PRK11239 550540002808 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 550540002809 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 550540002810 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550540002811 Coenzyme A binding pocket [chemical binding]; other site 550540002812 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 550540002813 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 550540002814 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 550540002815 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 550540002816 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 550540002817 probable active site [active] 550540002818 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 550540002819 PTS system glucose-specific transporter subunits IIBC; Provisional; Region: PRK11089 550540002820 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 550540002821 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 550540002822 active site turn [active] 550540002823 phosphorylation site [posttranslational modification] 550540002824 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 550540002825 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 550540002826 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 550540002827 trimer interface [polypeptide binding]; other site 550540002828 active site 550540002829 substrate binding site [chemical binding]; other site 550540002830 CoA binding site [chemical binding]; other site 550540002831 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 550540002832 PII uridylyl-transferase; Provisional; Region: PRK05007 550540002833 metal binding triad; other site 550540002834 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 550540002835 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550540002836 Zn2+ binding site [ion binding]; other site 550540002837 Mg2+ binding site [ion binding]; other site 550540002838 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 550540002839 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 550540002840 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 550540002841 active site 550540002842 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 550540002843 rRNA interaction site [nucleotide binding]; other site 550540002844 S8 interaction site; other site 550540002845 putative laminin-1 binding site; other site 550540002846 elongation factor Ts; Provisional; Region: tsf; PRK09377 550540002847 UBA/TS-N domain; Region: UBA; pfam00627 550540002848 Elongation factor TS; Region: EF_TS; pfam00889 550540002849 Elongation factor TS; Region: EF_TS; pfam00889 550540002850 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 550540002851 putative nucleotide binding site [chemical binding]; other site 550540002852 uridine monophosphate binding site [chemical binding]; other site 550540002853 homohexameric interface [polypeptide binding]; other site 550540002854 ribosome recycling factor; Reviewed; Region: frr; PRK00083 550540002855 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 550540002856 hinge region; other site 550540002857 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 550540002858 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 550540002859 catalytic residue [active] 550540002860 putative FPP diphosphate binding site; other site 550540002861 putative FPP binding hydrophobic cleft; other site 550540002862 dimer interface [polypeptide binding]; other site 550540002863 putative IPP diphosphate binding site; other site 550540002864 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 550540002865 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 550540002866 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 550540002867 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 550540002868 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 550540002869 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 550540002870 zinc metallopeptidase RseP; Provisional; Region: PRK10779 550540002871 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 550540002872 active site 550540002873 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 550540002874 protein binding site [polypeptide binding]; other site 550540002875 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 550540002876 protein binding site [polypeptide binding]; other site 550540002877 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 550540002878 putative substrate binding region [chemical binding]; other site 550540002879 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 550540002880 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 550540002881 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 550540002882 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 550540002883 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 550540002884 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 550540002885 Surface antigen; Region: Bac_surface_Ag; pfam01103 550540002886 periplasmic chaperone; Provisional; Region: PRK10780 550540002887 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 550540002888 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 550540002889 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 550540002890 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 550540002891 trimer interface [polypeptide binding]; other site 550540002892 active site 550540002893 UDP-GlcNAc binding site [chemical binding]; other site 550540002894 lipid binding site [chemical binding]; lipid-binding site 550540002895 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 550540002896 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 550540002897 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 550540002898 active site 550540002899 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 550540002900 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 550540002901 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 550540002902 RNA/DNA hybrid binding site [nucleotide binding]; other site 550540002903 active site 550540002904 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 550540002905 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 550540002906 putative active site [active] 550540002907 putative PHP Thumb interface [polypeptide binding]; other site 550540002908 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 550540002909 generic binding surface II; other site 550540002910 generic binding surface I; other site 550540002911 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 550540002912 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 550540002913 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 550540002914 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 550540002915 Ligand Binding Site [chemical binding]; other site 550540002916 TilS substrate binding domain; Region: TilS; pfam09179 550540002917 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 550540002918 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 550540002919 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 550540002920 TrkA-N domain; Region: TrkA_N; pfam02254 550540002921 TrkA-C domain; Region: TrkA_C; pfam02080 550540002922 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 550540002923 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 550540002924 active site 550540002925 nucleophile elbow; other site 550540002926 prolyl-tRNA synthetase; Provisional; Region: PRK09194 550540002927 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 550540002928 dimer interface [polypeptide binding]; other site 550540002929 motif 1; other site 550540002930 active site 550540002931 motif 2; other site 550540002932 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 550540002933 putative deacylase active site [active] 550540002934 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 550540002935 active site 550540002936 motif 3; other site 550540002937 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 550540002938 anticodon binding site; other site 550540002939 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 550540002940 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540002941 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540002942 metal binding site [ion binding]; metal-binding site 550540002943 active site 550540002944 I-site; other site 550540002945 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 550540002946 putative trimer interface [polypeptide binding]; other site 550540002947 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 550540002948 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 550540002949 trimer interface [polypeptide binding]; other site 550540002950 active site 550540002951 substrate binding site [chemical binding]; other site 550540002952 putative CoA binding site [chemical binding]; other site 550540002953 CoA binding site [chemical binding]; other site 550540002954 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 550540002955 homodimer interaction site [polypeptide binding]; other site 550540002956 cofactor binding site; other site 550540002957 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 550540002958 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 550540002959 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 550540002960 active site 550540002961 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 550540002962 Amidohydrolase; Region: Amidohydro_4; pfam13147 550540002963 active site 550540002964 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 550540002965 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 550540002966 active site 550540002967 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 550540002968 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 550540002969 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 550540002970 Ligand binding site [chemical binding]; other site 550540002971 Electron transfer flavoprotein domain; Region: ETF; pfam01012 550540002972 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 550540002973 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 550540002974 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 550540002975 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 550540002976 thymidine kinase; Provisional; Region: PRK04296 550540002977 peptidase T; Region: peptidase-T; TIGR01882 550540002978 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 550540002979 metal binding site [ion binding]; metal-binding site 550540002980 dimer interface [polypeptide binding]; other site 550540002981 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 550540002982 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 550540002983 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 550540002984 active site 550540002985 catalytic residues [active] 550540002986 metal binding site [ion binding]; metal-binding site 550540002987 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 550540002988 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 550540002989 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 550540002990 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 550540002991 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 550540002992 carboxyltransferase (CT) interaction site; other site 550540002993 biotinylation site [posttranslational modification]; other site 550540002994 enoyl-CoA hydratase; Provisional; Region: PRK05995 550540002995 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 550540002996 substrate binding site [chemical binding]; other site 550540002997 oxyanion hole (OAH) forming residues; other site 550540002998 trimer interface [polypeptide binding]; other site 550540002999 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl15762 550540003000 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 550540003001 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 550540003002 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 550540003003 isovaleryl-CoA dehydrogenase; Region: PLN02519 550540003004 substrate binding site [chemical binding]; other site 550540003005 FAD binding site [chemical binding]; other site 550540003006 catalytic base [active] 550540003007 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 550540003008 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 550540003009 DNA binding residues [nucleotide binding] 550540003010 putative dimer interface [polypeptide binding]; other site 550540003011 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 550540003012 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 550540003013 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540003014 Walker A/P-loop; other site 550540003015 ATP binding site [chemical binding]; other site 550540003016 Q-loop/lid; other site 550540003017 ABC transporter signature motif; other site 550540003018 Walker B; other site 550540003019 D-loop; other site 550540003020 H-loop/switch region; other site 550540003021 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 550540003022 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 550540003023 FeS/SAM binding site; other site 550540003024 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 550540003025 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 550540003026 acyl-activating enzyme (AAE) consensus motif; other site 550540003027 putative AMP binding site [chemical binding]; other site 550540003028 putative active site [active] 550540003029 putative CoA binding site [chemical binding]; other site 550540003030 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 550540003031 UbiA prenyltransferase family; Region: UbiA; pfam01040 550540003032 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550540003033 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 550540003034 NAD(P) binding site [chemical binding]; other site 550540003035 active site 550540003036 acyl-CoA thioesterase II; Provisional; Region: PRK10526 550540003037 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 550540003038 active site 550540003039 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 550540003040 catalytic triad [active] 550540003041 dimer interface [polypeptide binding]; other site 550540003042 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 550540003043 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 550540003044 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 550540003045 methanogenesis imperfect marker protein 11; Region: methan_mark_11; TIGR03280 550540003046 Cobalt transport protein; Region: CbiQ; cl00463 550540003047 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 550540003048 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 550540003049 Walker A/P-loop; other site 550540003050 ATP binding site [chemical binding]; other site 550540003051 Q-loop/lid; other site 550540003052 ABC transporter signature motif; other site 550540003053 Walker B; other site 550540003054 D-loop; other site 550540003055 H-loop/switch region; other site 550540003056 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540003057 Walker A/P-loop; other site 550540003058 ATP binding site [chemical binding]; other site 550540003059 Q-loop/lid; other site 550540003060 ABC transporter signature motif; other site 550540003061 Walker B; other site 550540003062 D-loop; other site 550540003063 H-loop/switch region; other site 550540003064 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 550540003065 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 550540003066 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 550540003067 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 550540003068 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 550540003069 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 550540003070 active site 550540003071 catalytic tetrad [active] 550540003072 outer membrane protein W; Provisional; Region: PRK10959 550540003073 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550540003074 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 550540003075 NAD(P) binding site [chemical binding]; other site 550540003076 active site 550540003077 homoserine O-succinyltransferase; Provisional; Region: PRK05368 550540003078 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 550540003079 proposed active site lysine [active] 550540003080 conserved cys residue [active] 550540003081 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 550540003082 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 550540003083 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 550540003084 Predicted flavoprotein [General function prediction only]; Region: COG0431 550540003085 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 550540003086 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 550540003087 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 550540003088 active site 550540003089 FMN binding site [chemical binding]; other site 550540003090 substrate binding site [chemical binding]; other site 550540003091 3Fe-4S cluster binding site [ion binding]; other site 550540003092 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 550540003093 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 550540003094 dimer interface [polypeptide binding]; other site 550540003095 active site 550540003096 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 550540003097 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 550540003098 tetrameric interface [polypeptide binding]; other site 550540003099 NAD binding site [chemical binding]; other site 550540003100 catalytic residues [active] 550540003101 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 550540003102 Isobutyryl-CoA dehydrogenase; Region: IBD; cd01162 550540003103 substrate binding pocket [chemical binding]; other site 550540003104 FAD binding site [chemical binding]; other site 550540003105 catalytic base [active] 550540003106 enoyl-CoA hydratase; Provisional; Region: PRK09076 550540003107 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 550540003108 substrate binding site [chemical binding]; other site 550540003109 oxyanion hole (OAH) forming residues; other site 550540003110 trimer interface [polypeptide binding]; other site 550540003111 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 550540003112 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 550540003113 substrate binding site [chemical binding]; other site 550540003114 oxyanion hole (OAH) forming residues; other site 550540003115 trimer interface [polypeptide binding]; other site 550540003116 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 550540003117 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 550540003118 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 550540003119 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 550540003120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550540003121 NAD(P) binding site [chemical binding]; other site 550540003122 active site 550540003123 flagellin; Provisional; Region: PRK12806 550540003124 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 550540003125 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 550540003126 flagellin; Provisional; Region: PRK12806 550540003127 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 550540003128 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 550540003129 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 550540003130 FlaG protein; Region: FlaG; pfam03646 550540003131 flagellar capping protein; Reviewed; Region: fliD; PRK08032 550540003132 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 550540003133 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 550540003134 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 550540003135 flagellar protein FliS; Validated; Region: fliS; PRK05685 550540003136 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 550540003137 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 550540003138 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 550540003139 Walker A motif; other site 550540003140 ATP binding site [chemical binding]; other site 550540003141 Walker B motif; other site 550540003142 arginine finger; other site 550540003143 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 550540003144 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 550540003145 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 550540003146 dimer interface [polypeptide binding]; other site 550540003147 phosphorylation site [posttranslational modification] 550540003148 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 550540003149 ATP binding site [chemical binding]; other site 550540003150 Mg2+ binding site [ion binding]; other site 550540003151 G-X-G motif; other site 550540003152 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 550540003153 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540003154 active site 550540003155 phosphorylation site [posttranslational modification] 550540003156 intermolecular recognition site; other site 550540003157 dimerization interface [polypeptide binding]; other site 550540003158 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 550540003159 Walker A motif; other site 550540003160 ATP binding site [chemical binding]; other site 550540003161 Walker B motif; other site 550540003162 arginine finger; other site 550540003163 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 550540003164 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 550540003165 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 550540003166 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 550540003167 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 550540003168 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 550540003169 MgtE intracellular N domain; Region: MgtE_N; smart00924 550540003170 FliG C-terminal domain; Region: FliG_C; pfam01706 550540003171 Flagellar assembly protein FliH; Region: FliH; pfam02108 550540003172 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 550540003173 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 550540003174 Walker A motif/ATP binding site; other site 550540003175 Walker B motif; other site 550540003176 Flagellar FliJ protein; Region: FliJ; pfam02050 550540003177 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 550540003178 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 550540003179 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 550540003180 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 550540003181 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 550540003182 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 550540003183 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 550540003184 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 550540003185 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 550540003186 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 550540003187 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 550540003188 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 550540003189 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 550540003190 FHIPEP family; Region: FHIPEP; pfam00771 550540003191 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK06995 550540003192 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 550540003193 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 550540003194 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 550540003195 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 550540003196 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 550540003197 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 550540003198 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 550540003199 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 550540003200 DNA binding residues [nucleotide binding] 550540003201 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 550540003202 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540003203 active site 550540003204 phosphorylation site [posttranslational modification] 550540003205 intermolecular recognition site; other site 550540003206 dimerization interface [polypeptide binding]; other site 550540003207 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 550540003208 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 550540003209 putative binding surface; other site 550540003210 active site 550540003211 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 550540003212 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 550540003213 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 550540003214 ATP binding site [chemical binding]; other site 550540003215 Mg2+ binding site [ion binding]; other site 550540003216 G-X-G motif; other site 550540003217 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 550540003218 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 550540003219 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540003220 active site 550540003221 phosphorylation site [posttranslational modification] 550540003222 intermolecular recognition site; other site 550540003223 dimerization interface [polypeptide binding]; other site 550540003224 CheB methylesterase; Region: CheB_methylest; pfam01339 550540003225 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 550540003226 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 550540003227 P-loop; other site 550540003228 Magnesium ion binding site [ion binding]; other site 550540003229 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 550540003230 Magnesium ion binding site [ion binding]; other site 550540003231 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 550540003232 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 550540003233 putative CheA interaction surface; other site 550540003234 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 550540003235 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 550540003236 VacJ like lipoprotein; Region: VacJ; cl01073 550540003237 Response regulator receiver domain; Region: Response_reg; pfam00072 550540003238 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540003239 active site 550540003240 phosphorylation site [posttranslational modification] 550540003241 intermolecular recognition site; other site 550540003242 dimerization interface [polypeptide binding]; other site 550540003243 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 550540003244 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 550540003245 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 550540003246 putative substrate translocation pore; other site 550540003247 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 550540003248 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 550540003249 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 550540003250 heterodimer interface [polypeptide binding]; other site 550540003251 homodimer interface [polypeptide binding]; other site 550540003252 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 550540003253 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 550540003254 SLBB domain; Region: SLBB; pfam10531 550540003255 SLBB domain; Region: SLBB; pfam10531 550540003256 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 550540003257 Chain length determinant protein; Region: Wzz; pfam02706 550540003258 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 550540003259 undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphatetransferase; Region: ECA_wecA; TIGR02380 550540003260 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 550540003261 Mg++ binding site [ion binding]; other site 550540003262 putative catalytic motif [active] 550540003263 substrate binding site [chemical binding]; other site 550540003264 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 550540003265 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 550540003266 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 550540003267 active site 550540003268 ATP binding site [chemical binding]; other site 550540003269 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 550540003270 active site 550540003271 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 550540003272 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 550540003273 active site 550540003274 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 550540003275 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 550540003276 substrate binding site; other site 550540003277 tetramer interface; other site 550540003278 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 550540003279 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 550540003280 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 550540003281 NADP binding site [chemical binding]; other site 550540003282 active site 550540003283 putative substrate binding site [chemical binding]; other site 550540003284 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 550540003285 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 550540003286 NAD binding site [chemical binding]; other site 550540003287 substrate binding site [chemical binding]; other site 550540003288 homodimer interface [polypeptide binding]; other site 550540003289 active site 550540003290 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 550540003291 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 550540003292 active site 550540003293 Right handed beta helix region; Region: Beta_helix; pfam13229 550540003294 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 550540003295 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 550540003296 active site 550540003297 tetramer interface; other site 550540003298 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 550540003299 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 550540003300 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 550540003301 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 550540003302 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 550540003303 UDP-glucose 4-epimerase; Region: PLN02240 550540003304 NAD binding site [chemical binding]; other site 550540003305 homodimer interface [polypeptide binding]; other site 550540003306 active site 550540003307 substrate binding site [chemical binding]; other site 550540003308 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 550540003309 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 550540003310 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 550540003311 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 550540003312 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 550540003313 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 550540003314 synthetase active site [active] 550540003315 metal binding site [ion binding]; metal-binding site 550540003316 NTP binding site [chemical binding]; other site 550540003317 Surface antigen; Region: Bac_surface_Ag; pfam01103 550540003318 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 550540003319 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 550540003320 active site 550540003321 catalytic site [active] 550540003322 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 550540003323 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 550540003324 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 550540003325 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 550540003326 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 550540003327 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 550540003328 active site 550540003329 catalytic site [active] 550540003330 Alpha-glucosidases, family 31 of glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: COG1501 550540003331 Galactose mutarotase-like; Region: Gal_mutarotas_2; pfam13802 550540003332 CtsZ (cyclic tetrasaccharide-synthesizing enzyme Z) is a bacterial 6-alpha-glucosyltransferase, first identified in Arthrobacter globiformis, that produces cyclic tetrasaccharides together with a closely related enzyme CtsY. CtsZ and CtsY both have a...; Region: GH31_transferase_CtsZ; cd06598 550540003333 putative active site [active] 550540003334 putative catalytic site [active] 550540003335 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 550540003336 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 550540003337 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 550540003338 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 550540003339 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 550540003340 Protein of unknown function (DUF3233); Region: DUF3233; pfam11557 550540003341 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 550540003342 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_2; cd11339 550540003343 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 550540003344 active site 550540003345 catalytic site [active] 550540003346 Transcriptional regulators [Transcription]; Region: PurR; COG1609 550540003347 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 550540003348 DNA binding site [nucleotide binding] 550540003349 domain linker motif; other site 550540003350 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 550540003351 putative dimerization interface [polypeptide binding]; other site 550540003352 putative ligand binding site [chemical binding]; other site 550540003353 glucokinase, proteobacterial type; Region: glk; TIGR00749 550540003354 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 550540003355 nucleotide binding site [chemical binding]; other site 550540003356 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 550540003357 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 550540003358 Active Sites [active] 550540003359 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 550540003360 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 550540003361 CysD dimerization site [polypeptide binding]; other site 550540003362 G1 box; other site 550540003363 putative GEF interaction site [polypeptide binding]; other site 550540003364 GTP/Mg2+ binding site [chemical binding]; other site 550540003365 Switch I region; other site 550540003366 G2 box; other site 550540003367 G3 box; other site 550540003368 Switch II region; other site 550540003369 G4 box; other site 550540003370 G5 box; other site 550540003371 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 550540003372 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 550540003373 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 550540003374 TrkA-C domain; Region: TrkA_C; pfam02080 550540003375 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 550540003376 TrkA-C domain; Region: TrkA_C; pfam02080 550540003377 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 550540003378 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 550540003379 ligand-binding site [chemical binding]; other site 550540003380 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 550540003381 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 550540003382 active site 550540003383 substrate binding site [chemical binding]; other site 550540003384 metal binding site [ion binding]; metal-binding site 550540003385 fructokinase; Reviewed; Region: PRK09557 550540003386 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 550540003387 nucleotide binding site [chemical binding]; other site 550540003388 butyrate kinase; Provisional; Region: PRK03011 550540003389 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 550540003390 putative active site [active] 550540003391 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 550540003392 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 550540003393 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 550540003394 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 550540003395 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 550540003396 active site 550540003397 tetramer interface; other site 550540003398 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 550540003399 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 550540003400 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 550540003401 transmembrane helices; other site 550540003402 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 550540003403 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 550540003404 Int/Topo IB signature motif; other site 550540003405 KilA-N domain; Region: KilA-N; pfam04383 550540003406 Prophage antirepressor [Transcription]; Region: COG3617 550540003407 BRO family, N-terminal domain; Region: Bro-N; smart01040 550540003408 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 550540003409 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 550540003410 catalytic residues [active] 550540003411 catalytic nucleophile [active] 550540003412 Presynaptic Site I dimer interface [polypeptide binding]; other site 550540003413 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 550540003414 Synaptic Flat tetramer interface [polypeptide binding]; other site 550540003415 Synaptic Site I dimer interface [polypeptide binding]; other site 550540003416 DNA binding site [nucleotide binding] 550540003417 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 550540003418 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 550540003419 Outer membrane protein V [Cell envelope biogenesis, outer membrane]; Region: OmpV; COG3713 550540003420 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 550540003421 active site 550540003422 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 550540003423 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 550540003424 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 550540003425 heme-binding site [chemical binding]; other site 550540003426 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 550540003427 FAD binding pocket [chemical binding]; other site 550540003428 FAD binding motif [chemical binding]; other site 550540003429 phosphate binding motif [ion binding]; other site 550540003430 beta-alpha-beta structure motif; other site 550540003431 NAD binding pocket [chemical binding]; other site 550540003432 Heme binding pocket [chemical binding]; other site 550540003433 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 550540003434 TPR repeat; Region: TPR_11; pfam13414 550540003435 binding surface 550540003436 TPR motif; other site 550540003437 TPR repeat; Region: TPR_11; pfam13414 550540003438 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 550540003439 binding surface 550540003440 TPR motif; other site 550540003441 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 550540003442 TPR motif; other site 550540003443 Tetratricopeptide repeat; Region: TPR_16; pfam13432 550540003444 binding surface 550540003445 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 550540003446 TPR motif; other site 550540003447 binding surface 550540003448 Sulfotransferase domain; Region: Sulfotransfer_1; pfam00685 550540003449 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 550540003450 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 550540003451 N-terminal plug; other site 550540003452 ligand-binding site [chemical binding]; other site 550540003453 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 550540003454 Flagellar protein YcgR; Region: YcgR_2; pfam12945 550540003455 PilZ domain; Region: PilZ; pfam07238 550540003456 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 550540003457 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 550540003458 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 550540003459 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 550540003460 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 550540003461 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 550540003462 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 550540003463 putative aminotransferase; Validated; Region: PRK07480 550540003464 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 550540003465 inhibitor-cofactor binding pocket; inhibition site 550540003466 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540003467 catalytic residue [active] 550540003468 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 550540003469 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 550540003470 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 550540003471 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540003472 Walker A/P-loop; other site 550540003473 ATP binding site [chemical binding]; other site 550540003474 Q-loop/lid; other site 550540003475 ABC transporter signature motif; other site 550540003476 Walker B; other site 550540003477 D-loop; other site 550540003478 H-loop/switch region; other site 550540003479 TOBE domain; Region: TOBE_2; pfam08402 550540003480 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 550540003481 dimer interface [polypeptide binding]; other site 550540003482 conserved gate region; other site 550540003483 putative PBP binding loops; other site 550540003484 ABC-ATPase subunit interface; other site 550540003485 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 550540003486 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 550540003487 dimer interface [polypeptide binding]; other site 550540003488 conserved gate region; other site 550540003489 putative PBP binding loops; other site 550540003490 ABC-ATPase subunit interface; other site 550540003491 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540003492 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540003493 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 550540003494 dimerization interface [polypeptide binding]; other site 550540003495 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 550540003496 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 550540003497 FAD binding site [chemical binding]; other site 550540003498 substrate binding pocket [chemical binding]; other site 550540003499 catalytic base [active] 550540003500 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 550540003501 CoA-transferase family III; Region: CoA_transf_3; pfam02515 550540003502 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 550540003503 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 550540003504 NAD(P) binding site [chemical binding]; other site 550540003505 catalytic residues [active] 550540003506 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 550540003507 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 550540003508 non-specific DNA binding site [nucleotide binding]; other site 550540003509 salt bridge; other site 550540003510 sequence-specific DNA binding site [nucleotide binding]; other site 550540003511 Cupin domain; Region: Cupin_2; pfam07883 550540003512 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 550540003513 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 550540003514 inhibitor-cofactor binding pocket; inhibition site 550540003515 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540003516 catalytic residue [active] 550540003517 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 550540003518 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 550540003519 tetrameric interface [polypeptide binding]; other site 550540003520 NAD binding site [chemical binding]; other site 550540003521 catalytic residues [active] 550540003522 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 550540003523 catalytic triad [active] 550540003524 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 550540003525 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 550540003526 Late competence development protein ComFB; Region: ComFB; pfam10719 550540003527 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 550540003528 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 550540003529 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 550540003530 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 550540003531 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 550540003532 putative active site [active] 550540003533 Zn binding site [ion binding]; other site 550540003534 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 550540003535 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 550540003536 hypothetical protein; Provisional; Region: PRK10621 550540003537 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 550540003538 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 550540003539 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 550540003540 DNA polymerase II; Reviewed; Region: PRK05762 550540003541 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 550540003542 active site 550540003543 catalytic site [active] 550540003544 substrate binding site [chemical binding]; other site 550540003545 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 550540003546 active site 550540003547 metal-binding site 550540003548 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 550540003549 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 550540003550 trimer interface [polypeptide binding]; other site 550540003551 eyelet of channel; other site 550540003552 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 550540003553 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 550540003554 trimer interface [polypeptide binding]; other site 550540003555 eyelet of channel; other site 550540003556 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 550540003557 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 550540003558 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 550540003559 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 550540003560 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 550540003561 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 550540003562 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 550540003563 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 550540003564 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 550540003565 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 550540003566 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 550540003567 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 550540003568 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 550540003569 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 550540003570 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 550540003571 TPR motif; other site 550540003572 binding surface 550540003573 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 550540003574 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 550540003575 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 550540003576 N-terminal plug; other site 550540003577 ligand-binding site [chemical binding]; other site 550540003578 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 550540003579 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 550540003580 N-terminal plug; other site 550540003581 ligand-binding site [chemical binding]; other site 550540003582 META domain; Region: META; pfam03724 550540003583 META domain; Region: META; pfam03724 550540003584 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 550540003585 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 550540003586 FMN binding site [chemical binding]; other site 550540003587 active site 550540003588 catalytic residues [active] 550540003589 substrate binding site [chemical binding]; other site 550540003590 hypothetical protein; Provisional; Region: PRK05409 550540003591 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 550540003592 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 550540003593 active site 550540003594 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 550540003595 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 550540003596 Walker A motif; other site 550540003597 ATP binding site [chemical binding]; other site 550540003598 Walker B motif; other site 550540003599 arginine finger; other site 550540003600 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 550540003601 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 550540003602 hypothetical protein; Validated; Region: PRK00153 550540003603 recombination protein RecR; Reviewed; Region: recR; PRK00076 550540003604 RecR protein; Region: RecR; pfam02132 550540003605 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 550540003606 putative active site [active] 550540003607 putative metal-binding site [ion binding]; other site 550540003608 tetramer interface [polypeptide binding]; other site 550540003609 heat shock protein 90; Provisional; Region: PRK05218 550540003610 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 550540003611 ATP binding site [chemical binding]; other site 550540003612 Mg2+ binding site [ion binding]; other site 550540003613 G-X-G motif; other site 550540003614 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 550540003615 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 550540003616 adenylate kinase; Reviewed; Region: adk; PRK00279 550540003617 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 550540003618 AMP-binding site [chemical binding]; other site 550540003619 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 550540003620 ferrochelatase; Reviewed; Region: hemH; PRK00035 550540003621 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 550540003622 C-terminal domain interface [polypeptide binding]; other site 550540003623 active site 550540003624 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 550540003625 active site 550540003626 N-terminal domain interface [polypeptide binding]; other site 550540003627 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 550540003628 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 550540003629 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 550540003630 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540003631 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540003632 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540003633 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540003634 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 550540003635 dimerization interface [polypeptide binding]; other site 550540003636 putative effector binding pocket; other site 550540003637 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 550540003638 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 550540003639 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 550540003640 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 550540003641 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 550540003642 dimer interface [polypeptide binding]; other site 550540003643 conserved gate region; other site 550540003644 putative PBP binding loops; other site 550540003645 ABC-ATPase subunit interface; other site 550540003646 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 550540003647 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 550540003648 dimer interface [polypeptide binding]; other site 550540003649 conserved gate region; other site 550540003650 ABC-ATPase subunit interface; other site 550540003651 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 550540003652 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540003653 Walker A/P-loop; other site 550540003654 ATP binding site [chemical binding]; other site 550540003655 Q-loop/lid; other site 550540003656 ABC transporter signature motif; other site 550540003657 Walker B; other site 550540003658 D-loop; other site 550540003659 H-loop/switch region; other site 550540003660 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 550540003661 putative active site [active] 550540003662 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 550540003663 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 550540003664 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 550540003665 inosine/guanosine kinase; Provisional; Region: PRK15074 550540003666 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 550540003667 substrate binding site [chemical binding]; other site 550540003668 ATP binding site [chemical binding]; other site 550540003669 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 550540003670 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 550540003671 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 550540003672 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540003673 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 550540003674 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550540003675 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550540003676 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 550540003677 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 550540003678 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540003679 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540003680 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 550540003681 putative effector binding pocket; other site 550540003682 dimerization interface [polypeptide binding]; other site 550540003683 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 550540003684 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 550540003685 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 550540003686 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 550540003687 N-terminal plug; other site 550540003688 ligand-binding site [chemical binding]; other site 550540003689 Imelysin; Region: Peptidase_M75; pfam09375 550540003690 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 550540003691 Ca2+ binding site [ion binding]; other site 550540003692 putative beta-lysine N-acetyltransferase; Region: GNAT_ablB; TIGR03827 550540003693 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550540003694 Coenzyme A binding pocket [chemical binding]; other site 550540003695 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 550540003696 Na binding site [ion binding]; other site 550540003697 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 550540003698 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 550540003699 FeS/SAM binding site; other site 550540003700 Lysine-2,3-aminomutase; Region: LAM_C; pfam12544 550540003701 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 550540003702 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 550540003703 putative oligomer interface [polypeptide binding]; other site 550540003704 putative active site [active] 550540003705 metal binding site [ion binding]; metal-binding site 550540003706 GNAT-family acetyltransferase TIGR03103; Region: trio_acet_GNAT 550540003707 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 550540003708 ATP-grasp domain; Region: ATP-grasp_4; cl17255 550540003709 ATP-grasp domain; Region: ATP-grasp_4; cl17255 550540003710 asparagine synthase family amidotransferase; Region: trio_amidotrans; TIGR03104 550540003711 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 550540003712 active site 550540003713 dimer interface [polypeptide binding]; other site 550540003714 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 550540003715 Ligand Binding Site [chemical binding]; other site 550540003716 Molecular Tunnel; other site 550540003717 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 550540003718 MarR family; Region: MarR; pfam01047 550540003719 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 550540003720 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540003721 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 550540003722 dimerization interface [polypeptide binding]; other site 550540003723 purine nucleoside phosphorylase; Provisional; Region: PRK08202 550540003724 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 550540003725 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 550540003726 Nucleoside recognition; Region: Gate; pfam07670 550540003727 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 550540003728 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 550540003729 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 550540003730 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 550540003731 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 550540003732 Walker A/P-loop; other site 550540003733 ATP binding site [chemical binding]; other site 550540003734 Q-loop/lid; other site 550540003735 ABC transporter signature motif; other site 550540003736 Walker B; other site 550540003737 D-loop; other site 550540003738 H-loop/switch region; other site 550540003739 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 550540003740 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 550540003741 ABC-ATPase subunit interface; other site 550540003742 dimer interface [polypeptide binding]; other site 550540003743 putative PBP binding regions; other site 550540003744 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 550540003745 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 550540003746 intersubunit interface [polypeptide binding]; other site 550540003747 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 550540003748 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 550540003749 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 550540003750 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 550540003751 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 550540003752 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 550540003753 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 550540003754 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 550540003755 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 550540003756 N-terminal plug; other site 550540003757 ligand-binding site [chemical binding]; other site 550540003758 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 550540003759 fructuronate transporter; Provisional; Region: PRK10034; cl15264 550540003760 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 550540003761 putative aldolase; Validated; Region: PRK08130 550540003762 intersubunit interface [polypeptide binding]; other site 550540003763 active site 550540003764 Zn2+ binding site [ion binding]; other site 550540003765 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 550540003766 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 550540003767 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 550540003768 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 550540003769 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 550540003770 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 550540003771 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 550540003772 putative deacylase active site [active] 550540003773 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 550540003774 asparagine synthetase B; Provisional; Region: asnB; PRK09431 550540003775 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 550540003776 active site 550540003777 dimer interface [polypeptide binding]; other site 550540003778 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 550540003779 Ligand Binding Site [chemical binding]; other site 550540003780 Molecular Tunnel; other site 550540003781 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 550540003782 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 550540003783 PA/protease or protease-like domain interface [polypeptide binding]; other site 550540003784 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 550540003785 Peptidase family M28; Region: Peptidase_M28; pfam04389 550540003786 metal binding site [ion binding]; metal-binding site 550540003787 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 550540003788 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 550540003789 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 550540003790 Alkaline phosphatase homologues; Region: alkPPc; smart00098 550540003791 active site 550540003792 dimer interface [polypeptide binding]; other site 550540003793 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 550540003794 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 550540003795 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 550540003796 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 550540003797 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 550540003798 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 550540003799 DNA binding site [nucleotide binding] 550540003800 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 550540003801 UMP phosphatase; Provisional; Region: PRK10444 550540003802 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 550540003803 active site 550540003804 motif I; other site 550540003805 motif II; other site 550540003806 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 550540003807 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 550540003808 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 550540003809 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 550540003810 active site 550540003811 substrate binding site [chemical binding]; other site 550540003812 cosubstrate binding site; other site 550540003813 catalytic site [active] 550540003814 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 550540003815 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 550540003816 dimerization interface [polypeptide binding]; other site 550540003817 putative ATP binding site [chemical binding]; other site 550540003818 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 550540003819 active site 550540003820 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 550540003821 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 550540003822 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 550540003823 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 550540003824 Chagasin family peptidase inhibitor I42; Region: Inhibitor_I42; pfam09394 550540003825 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 550540003826 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 550540003827 putative active site [active] 550540003828 catalytic site [active] 550540003829 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 550540003830 putative active site [active] 550540003831 catalytic site [active] 550540003832 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 550540003833 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 550540003834 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 550540003835 ArsC family; Region: ArsC; pfam03960 550540003836 catalytic residues [active] 550540003837 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 550540003838 Peptidase family M48; Region: Peptidase_M48; pfam01435 550540003839 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 550540003840 binding surface 550540003841 TPR motif; other site 550540003842 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 550540003843 binding surface 550540003844 TPR motif; other site 550540003845 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 550540003846 CPxP motif; other site 550540003847 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 550540003848 Domain of unknown function DUF20; Region: UPF0118; pfam01594 550540003849 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 550540003850 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 550540003851 DNA binding residues [nucleotide binding] 550540003852 dimerization interface [polypeptide binding]; other site 550540003853 Domain of unknown function (DUF4332); Region: DUF4332; pfam14229 550540003854 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 550540003855 putative active site [active] 550540003856 Zn binding site [ion binding]; other site 550540003857 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 550540003858 dimer interface [polypeptide binding]; other site 550540003859 FMN binding site [chemical binding]; other site 550540003860 Cytochrome c552; Region: Cytochrom_C552; pfam02335 550540003861 CS1 type fimbrial major subunit; Region: Fimbrial_CS1; cl04524 550540003862 putative fimbrial protein TcfA; Provisional; Region: PRK15308 550540003863 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 550540003864 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 550540003865 FtsX-like permease family; Region: FtsX; pfam02687 550540003866 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 550540003867 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 550540003868 Walker A/P-loop; other site 550540003869 ATP binding site [chemical binding]; other site 550540003870 Q-loop/lid; other site 550540003871 ABC transporter signature motif; other site 550540003872 Walker B; other site 550540003873 D-loop; other site 550540003874 H-loop/switch region; other site 550540003875 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 550540003876 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 550540003877 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 550540003878 catalytic triad [active] 550540003879 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 550540003880 ACT domain; Region: ACT_6; pfam13740 550540003881 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 550540003882 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 550540003883 dihydrodipicolinate synthase; Region: dapA; TIGR00674 550540003884 dimer interface [polypeptide binding]; other site 550540003885 active site 550540003886 catalytic residue [active] 550540003887 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 550540003888 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 550540003889 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 550540003890 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540003891 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540003892 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 550540003893 putative arabinose transporter; Provisional; Region: PRK03545 550540003894 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; cl17904 550540003895 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 550540003896 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 550540003897 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 550540003898 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 550540003899 substrate binding pocket [chemical binding]; other site 550540003900 membrane-bound complex binding site; other site 550540003901 hinge residues; other site 550540003902 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 550540003903 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 550540003904 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 550540003905 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540003906 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540003907 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 550540003908 Protein export membrane protein; Region: SecD_SecF; cl14618 550540003909 Bor protein; Region: Lambda_Bor; pfam06291 550540003910 Bor protein; Region: Lambda_Bor; pfam06291 550540003911 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 550540003912 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 550540003913 Isochorismatase family; Region: Isochorismatase; pfam00857 550540003914 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cd00431 550540003915 catalytic triad [active] 550540003916 conserved cis-peptide bond; other site 550540003917 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 550540003918 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 550540003919 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 550540003920 Part of AAA domain; Region: AAA_19; pfam13245 550540003921 Family description; Region: UvrD_C_2; pfam13538 550540003922 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 550540003923 AAA domain; Region: AAA_30; pfam13604 550540003924 Family description; Region: UvrD_C_2; pfam13538 550540003925 dUMP phosphatase; Provisional; Region: PRK09449 550540003926 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 550540003927 motif II; other site 550540003928 Domain of unknown function (DUF4092); Region: DUF4092; pfam13322 550540003929 Peptidase M60-like family; Region: M60-like; pfam13402 550540003930 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 550540003931 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 550540003932 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540003933 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540003934 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 550540003935 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 550540003936 Walker A/P-loop; other site 550540003937 ATP binding site [chemical binding]; other site 550540003938 Q-loop/lid; other site 550540003939 ABC transporter signature motif; other site 550540003940 Walker B; other site 550540003941 D-loop; other site 550540003942 H-loop/switch region; other site 550540003943 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 550540003944 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 550540003945 FtsX-like permease family; Region: FtsX; pfam02687 550540003946 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 550540003947 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 550540003948 active site 550540003949 Zn binding site [ion binding]; other site 550540003950 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 550540003951 MAPEG family; Region: MAPEG; pfam01124 550540003952 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 550540003953 guanine deaminase; Region: guan_deamin; TIGR02967 550540003954 active site 550540003955 BCCT family transporter; Region: BCCT; pfam02028 550540003956 excinuclease ABC subunit B; Provisional; Region: PRK05298 550540003957 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 550540003958 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 550540003959 ATP-binding site [chemical binding]; other site 550540003960 ATP binding site [chemical binding]; other site 550540003961 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 550540003962 nucleotide binding region [chemical binding]; other site 550540003963 ATP-binding site [chemical binding]; other site 550540003964 Ultra-violet resistance protein B; Region: UvrB; pfam12344 550540003965 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 550540003966 MPT binding site; other site 550540003967 trimer interface [polypeptide binding]; other site 550540003968 PBP superfamily domain; Region: PBP_like_2; pfam12849 550540003969 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 550540003970 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 550540003971 molybdate ABC transporter periplasmic molybdate-binding protein; Provisional; Region: PRK03537 550540003972 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 550540003973 trimer interface [polypeptide binding]; other site 550540003974 eyelet of channel; other site 550540003975 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 550540003976 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 550540003977 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 550540003978 putative active site [active] 550540003979 Zn binding site [ion binding]; other site 550540003980 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 550540003981 RimK-like ATP-grasp domain; Region: RimK; pfam08443 550540003982 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 550540003983 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 550540003984 MgtE intracellular N domain; Region: MgtE_N; pfam03448 550540003985 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 550540003986 Divalent cation transporter; Region: MgtE; cl00786 550540003987 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 550540003988 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 550540003989 Predicted permeases [General function prediction only]; Region: RarD; COG2962 550540003990 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 550540003991 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 550540003992 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 550540003993 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540003994 Walker A/P-loop; other site 550540003995 ATP binding site [chemical binding]; other site 550540003996 ABC transporter signature motif; other site 550540003997 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 550540003998 Walker B; other site 550540003999 ABC transporter; Region: ABC_tran_2; pfam12848 550540004000 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 550540004001 hypothetical protein; Provisional; Region: PRK05208 550540004002 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 550540004003 MarR family; Region: MarR_2; cl17246 550540004004 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 550540004005 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 550540004006 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540004007 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540004008 bifunctional 2',3'-cyclic nucleotide 2'-phosphodiesterase/3'-nucleotidase periplasmic precursor protein; Reviewed; Region: cpdB; PRK09420 550540004009 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 550540004010 active site 550540004011 metal binding site [ion binding]; metal-binding site 550540004012 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 550540004013 YhhN-like protein; Region: YhhN; pfam07947 550540004014 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 550540004015 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 550540004016 acyl-activating enzyme (AAE) consensus motif; other site 550540004017 putative AMP binding site [chemical binding]; other site 550540004018 putative active site [active] 550540004019 putative CoA binding site [chemical binding]; other site 550540004020 formate--tetrahydrofolate ligase; Provisional; Region: PRK13506 550540004021 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 550540004022 Potassium binding sites [ion binding]; other site 550540004023 Cesium cation binding sites [ion binding]; other site 550540004024 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 550540004025 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 550540004026 Beta-Casp domain; Region: Beta-Casp; smart01027 550540004027 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 550540004028 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 550540004029 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 550540004030 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 550540004031 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 550540004032 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 550540004033 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 550540004034 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 550540004035 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 550540004036 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 550540004037 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 550540004038 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 550540004039 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 550540004040 heme-binding residues [chemical binding]; other site 550540004041 Protein of unknown function (DUF3374); Region: DUF3374; cl11904 550540004042 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 550540004043 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 550540004044 heme-binding residues [chemical binding]; other site 550540004045 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 550540004046 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 550540004047 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 550540004048 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 550540004049 FeoA domain; Region: FeoA; pfam04023 550540004050 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 550540004051 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 550540004052 G1 box; other site 550540004053 GTP/Mg2+ binding site [chemical binding]; other site 550540004054 Switch I region; other site 550540004055 G2 box; other site 550540004056 G3 box; other site 550540004057 Switch II region; other site 550540004058 G4 box; other site 550540004059 G5 box; other site 550540004060 Nucleoside recognition; Region: Gate; pfam07670 550540004061 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 550540004062 Nucleoside recognition; Region: Gate; pfam07670 550540004063 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 550540004064 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 550540004065 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 550540004066 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 550540004067 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 550540004068 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 550540004069 active site 550540004070 HIGH motif; other site 550540004071 nucleotide binding site [chemical binding]; other site 550540004072 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 550540004073 KMSKS motif; other site 550540004074 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 550540004075 ferric uptake regulator; Provisional; Region: fur; PRK09462 550540004076 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 550540004077 metal binding site 2 [ion binding]; metal-binding site 550540004078 putative DNA binding helix; other site 550540004079 metal binding site 1 [ion binding]; metal-binding site 550540004080 dimer interface [polypeptide binding]; other site 550540004081 structural Zn2+ binding site [ion binding]; other site 550540004082 NAD-dependent deacetylase; Provisional; Region: PRK00481 550540004083 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 550540004084 NAD+ binding site [chemical binding]; other site 550540004085 substrate binding site [chemical binding]; other site 550540004086 Zn binding site [ion binding]; other site 550540004087 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 550540004088 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 550540004089 inhibitor-cofactor binding pocket; inhibition site 550540004090 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540004091 catalytic residue [active] 550540004092 biotin synthase; Provisional; Region: PRK15108 550540004093 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 550540004094 FeS/SAM binding site; other site 550540004095 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 550540004096 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 550540004097 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 550540004098 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 550540004099 catalytic residue [active] 550540004100 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 550540004101 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 550540004102 S-adenosylmethionine binding site [chemical binding]; other site 550540004103 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 550540004104 AAA domain; Region: AAA_26; pfam13500 550540004105 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 550540004106 active site pocket [active] 550540004107 oxyanion hole [active] 550540004108 catalytic triad [active] 550540004109 active site nucleophile [active] 550540004110 heat shock protein HtpX; Provisional; Region: PRK05457 550540004111 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 550540004112 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 550540004113 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 550540004114 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 550540004115 active site 550540004116 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 550540004117 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 550540004118 methionine sulfoxide reductase A; Provisional; Region: PRK14054 550540004119 Low molecular weight phosphatase family; Region: LMWPc; cd00115 550540004120 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 550540004121 active site 550540004122 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 550540004123 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 550540004124 homodimer interface [polypeptide binding]; other site 550540004125 oligonucleotide binding site [chemical binding]; other site 550540004126 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 550540004127 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 550540004128 RNA binding surface [nucleotide binding]; other site 550540004129 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 550540004130 active site 550540004131 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 550540004132 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 550540004133 motif II; other site 550540004134 Protein of unknown function (DUF962); Region: DUF962; pfam06127 550540004135 Maf-like protein; Region: Maf; pfam02545 550540004136 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 550540004137 active site 550540004138 dimer interface [polypeptide binding]; other site 550540004139 hypothetical protein; Provisional; Region: PRK11193 550540004140 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 550540004141 putative phosphate acyltransferase; Provisional; Region: PRK05331 550540004142 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 550540004143 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 550540004144 dimer interface [polypeptide binding]; other site 550540004145 active site 550540004146 CoA binding pocket [chemical binding]; other site 550540004147 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 550540004148 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 550540004149 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 550540004150 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 550540004151 NAD(P) binding site [chemical binding]; other site 550540004152 homotetramer interface [polypeptide binding]; other site 550540004153 homodimer interface [polypeptide binding]; other site 550540004154 active site 550540004155 acyl carrier protein; Provisional; Region: acpP; PRK00982 550540004156 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 550540004157 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 550540004158 dimer interface [polypeptide binding]; other site 550540004159 active site 550540004160 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 550540004161 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 550540004162 cytidine deaminase, homodimeric; Region: cyt_deam_dimer; TIGR01355 550540004163 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 550540004164 active site 550540004165 catalytic motif [active] 550540004166 Zn binding site [ion binding]; other site 550540004167 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 550540004168 exonuclease I; Provisional; Region: sbcB; PRK11779 550540004169 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 550540004170 active site 550540004171 catalytic site [active] 550540004172 substrate binding site [chemical binding]; other site 550540004173 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 550540004174 Protein of unknown function (DUF465); Region: DUF465; pfam04325 550540004175 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 550540004176 FeS/SAM binding site; other site 550540004177 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 550540004178 ATP-grasp domain; Region: ATP-grasp_4; cl17255 550540004179 hypothetical protein; Provisional; Region: PRK11027 550540004180 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 550540004181 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 550540004182 substrate binding pocket [chemical binding]; other site 550540004183 membrane-bound complex binding site; other site 550540004184 hinge residues; other site 550540004185 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 550540004186 N-acetyl-D-glucosamine binding site [chemical binding]; other site 550540004187 catalytic residue [active] 550540004188 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 550540004189 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 550540004190 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 550540004191 Protein of unknown function DUF58; Region: DUF58; pfam01882 550540004192 MoxR-like ATPases [General function prediction only]; Region: COG0714 550540004193 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 550540004194 Walker A motif; other site 550540004195 ATP binding site [chemical binding]; other site 550540004196 Walker B motif; other site 550540004197 arginine finger; other site 550540004198 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 550540004199 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 550540004200 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 550540004201 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 550540004202 dimer interface [polypeptide binding]; other site 550540004203 active site residues [active] 550540004204 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 550540004205 lytic murein transglycosylase; Provisional; Region: PRK11619 550540004206 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 550540004207 N-acetyl-D-glucosamine binding site [chemical binding]; other site 550540004208 catalytic residue [active] 550540004209 RmuC family; Region: RmuC; pfam02646 550540004210 TMAO/DMSO reductase; Reviewed; Region: PRK05363 550540004211 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 550540004212 Moco binding site; other site 550540004213 metal coordination site [ion binding]; other site 550540004214 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 550540004215 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 550540004216 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 550540004217 catalytic triad [active] 550540004218 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 550540004219 IHF dimer interface [polypeptide binding]; other site 550540004220 IHF - DNA interface [nucleotide binding]; other site 550540004221 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 550540004222 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 550540004223 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 550540004224 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 550540004225 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 550540004226 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 550540004227 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 550540004228 Tetratricopeptide repeat; Region: TPR_9; pfam13371 550540004229 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 550540004230 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 550540004231 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 550540004232 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 550540004233 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 550540004234 Peptidase M15; Region: Peptidase_M15_3; cl01194 550540004235 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 550540004236 5S rRNA interface [nucleotide binding]; other site 550540004237 CTC domain interface [polypeptide binding]; other site 550540004238 L16 interface [polypeptide binding]; other site 550540004239 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 550540004240 putative metal binding site [ion binding]; other site 550540004241 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 550540004242 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 550540004243 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 550540004244 MAPEG family; Region: MAPEG; cl09190 550540004245 Response regulator receiver domain; Region: Response_reg; pfam00072 550540004246 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540004247 active site 550540004248 phosphorylation site [posttranslational modification] 550540004249 intermolecular recognition site; other site 550540004250 dimerization interface [polypeptide binding]; other site 550540004251 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540004252 Response regulator receiver domain; Region: Response_reg; pfam00072 550540004253 active site 550540004254 phosphorylation site [posttranslational modification] 550540004255 intermolecular recognition site; other site 550540004256 dimerization interface [polypeptide binding]; other site 550540004257 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 550540004258 dimer interface [polypeptide binding]; other site 550540004259 phosphorylation site [posttranslational modification] 550540004260 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 550540004261 ATP binding site [chemical binding]; other site 550540004262 Mg2+ binding site [ion binding]; other site 550540004263 G-X-G motif; other site 550540004264 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 550540004265 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540004266 active site 550540004267 phosphorylation site [posttranslational modification] 550540004268 intermolecular recognition site; other site 550540004269 dimerization interface [polypeptide binding]; other site 550540004270 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 550540004271 putative binding surface; other site 550540004272 active site 550540004273 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 550540004274 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540004275 active site 550540004276 phosphorylation site [posttranslational modification] 550540004277 intermolecular recognition site; other site 550540004278 dimerization interface [polypeptide binding]; other site 550540004279 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550540004280 Zn2+ binding site [ion binding]; other site 550540004281 Mg2+ binding site [ion binding]; other site 550540004282 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 550540004283 Family of unknown function (DUF490); Region: DUF490; pfam04357 550540004284 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 550540004285 Surface antigen; Region: Bac_surface_Ag; pfam01103 550540004286 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 550540004287 catalytic nucleophile [active] 550540004288 FOG: CBS domain [General function prediction only]; Region: COG0517 550540004289 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 550540004290 serine acetyltransferase; Provisional; Region: cysE; PRK11132 550540004291 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 550540004292 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 550540004293 trimer interface [polypeptide binding]; other site 550540004294 active site 550540004295 substrate binding site [chemical binding]; other site 550540004296 CoA binding site [chemical binding]; other site 550540004297 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 550540004298 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 550540004299 active site 550540004300 Zn binding site [ion binding]; other site 550540004301 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 550540004302 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 550540004303 active site 550540004304 Zn binding site [ion binding]; other site 550540004305 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 550540004306 CoenzymeA binding site [chemical binding]; other site 550540004307 subunit interaction site [polypeptide binding]; other site 550540004308 PHB binding site; other site 550540004309 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 550540004310 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 550540004311 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540004312 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 550540004313 putative dimerization interface [polypeptide binding]; other site 550540004314 formate transporter FocA; Region: formate_focA; TIGR04060 550540004315 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 550540004316 Ribosome modulation factor; Region: RMF; cl01207 550540004317 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 550540004318 Domain of unknown function DUF21; Region: DUF21; pfam01595 550540004319 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 550540004320 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 550540004321 Domain of unknown function DUF21; Region: DUF21; pfam01595 550540004322 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 550540004323 Transporter associated domain; Region: CorC_HlyC; pfam03471 550540004324 SnoaL-like domain; Region: SnoaL_2; pfam12680 550540004325 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 550540004326 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 550540004327 dimer interface [polypeptide binding]; other site 550540004328 active site 550540004329 metal binding site [ion binding]; metal-binding site 550540004330 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 550540004331 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550540004332 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 550540004333 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550540004334 enterobactin receptor protein; Provisional; Region: PRK13483 550540004335 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 550540004336 N-terminal plug; other site 550540004337 ligand-binding site [chemical binding]; other site 550540004338 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 550540004339 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 550540004340 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 550540004341 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 550540004342 dimer interface [polypeptide binding]; other site 550540004343 active site 550540004344 heme binding site [chemical binding]; other site 550540004345 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 550540004346 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 550540004347 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 550540004348 N-acetyl-D-glucosamine binding site [chemical binding]; other site 550540004349 catalytic residue [active] 550540004350 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550540004351 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550540004352 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 550540004353 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550540004354 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 550540004355 Methyltransferase domain; Region: Methyltransf_11; pfam08241 550540004356 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 550540004357 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 550540004358 RNA/DNA hybrid binding site [nucleotide binding]; other site 550540004359 active site 550540004360 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 550540004361 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 550540004362 active site 550540004363 catalytic site [active] 550540004364 substrate binding site [chemical binding]; other site 550540004365 TIGR03503 family protein; Region: TIGR03503 550540004366 CHASE3 domain; Region: CHASE3; pfam05227 550540004367 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540004368 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540004369 metal binding site [ion binding]; metal-binding site 550540004370 active site 550540004371 I-site; other site 550540004372 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 550540004373 Aspartase; Region: Aspartase; cd01357 550540004374 active sites [active] 550540004375 tetramer interface [polypeptide binding]; other site 550540004376 Tryptophan-rich protein (DUF2389); Region: DUF2389; cl09726 550540004377 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 550540004378 SnoaL-like domain; Region: SnoaL_2; pfam12680 550540004379 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 550540004380 DNA photolyase; Region: DNA_photolyase; pfam00875 550540004381 Protein of unknown function (DUF523); Region: DUF523; pfam04463 550540004382 Uncharacterized conserved protein [Function unknown]; Region: COG3272 550540004383 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 550540004384 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 550540004385 AsmA family; Region: AsmA; pfam05170 550540004386 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 550540004387 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 550540004388 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540004389 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 550540004390 Walker A/P-loop; other site 550540004391 ATP binding site [chemical binding]; other site 550540004392 Q-loop/lid; other site 550540004393 ABC transporter signature motif; other site 550540004394 Walker B; other site 550540004395 D-loop; other site 550540004396 H-loop/switch region; other site 550540004397 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 550540004398 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 550540004399 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 550540004400 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 550540004401 dimer interface [polypeptide binding]; other site 550540004402 active site 550540004403 metal binding site [ion binding]; metal-binding site 550540004404 Protein of unknown function (DUF962); Region: DUF962; cl01879 550540004405 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540004406 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540004407 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 550540004408 substrate binding pocket [chemical binding]; other site 550540004409 dimerization interface [polypeptide binding]; other site 550540004410 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 550540004411 homodimer interaction site [polypeptide binding]; other site 550540004412 cofactor binding site; other site 550540004413 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 550540004414 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 550540004415 putative catalytic cysteine [active] 550540004416 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 550540004417 putative active site [active] 550540004418 metal binding site [ion binding]; metal-binding site 550540004419 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 550540004420 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 550540004421 PhnA protein; Region: PhnA; pfam03831 550540004422 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 550540004423 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540004424 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 550540004425 dimerization interface [polypeptide binding]; other site 550540004426 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 550540004427 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 550540004428 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 550540004429 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 550540004430 putative [4Fe-4S] binding site [ion binding]; other site 550540004431 putative molybdopterin cofactor binding site [chemical binding]; other site 550540004432 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 550540004433 molybdopterin cofactor binding site; other site 550540004434 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 550540004435 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 550540004436 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 550540004437 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 550540004438 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 550540004439 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 550540004440 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 550540004441 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550540004442 Coenzyme A binding pocket [chemical binding]; other site 550540004443 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 550540004444 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540004445 active site 550540004446 phosphorylation site [posttranslational modification] 550540004447 intermolecular recognition site; other site 550540004448 dimerization interface [polypeptide binding]; other site 550540004449 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 550540004450 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 550540004451 ATP binding site [chemical binding]; other site 550540004452 Mg2+ binding site [ion binding]; other site 550540004453 G-X-G motif; other site 550540004454 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 550540004455 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 550540004456 C factor cell-cell signaling protein; Provisional; Region: PRK09009 550540004457 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550540004458 NAD(P) binding site [chemical binding]; other site 550540004459 active site 550540004460 Protein of unknown function, DUF393; Region: DUF393; pfam04134 550540004461 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 550540004462 GTP cyclohydrolase I; Provisional; Region: PLN03044 550540004463 active site 550540004464 dihydromonapterin reductase; Provisional; Region: PRK06483 550540004465 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550540004466 NAD(P) binding site [chemical binding]; other site 550540004467 active site 550540004468 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550540004469 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550540004470 Putative phosphatase (DUF442); Region: DUF442; cl17385 550540004471 nickel responsive regulator; Provisional; Region: PRK02967 550540004472 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 550540004473 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 550540004474 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 550540004475 intersubunit interface [polypeptide binding]; other site 550540004476 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 550540004477 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 550540004478 ABC-ATPase subunit interface; other site 550540004479 dimer interface [polypeptide binding]; other site 550540004480 putative PBP binding regions; other site 550540004481 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 550540004482 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 550540004483 Walker A/P-loop; other site 550540004484 ATP binding site [chemical binding]; other site 550540004485 Q-loop/lid; other site 550540004486 ABC transporter signature motif; other site 550540004487 Walker B; other site 550540004488 D-loop; other site 550540004489 H-loop/switch region; other site 550540004490 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 550540004491 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 550540004492 N-terminal plug; other site 550540004493 ligand-binding site [chemical binding]; other site 550540004494 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 550540004495 Surface antigen; Region: Bac_surface_Ag; pfam01103 550540004496 CpXC protein; Region: CpXC; pfam14353 550540004497 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 550540004498 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 550540004499 NAD(P) binding site [chemical binding]; other site 550540004500 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 550540004501 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 550540004502 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 550540004503 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 550540004504 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 550540004505 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12507 550540004506 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 550540004507 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12508 550540004508 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 550540004509 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 550540004510 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 550540004511 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 550540004512 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 550540004513 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 550540004514 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 550540004515 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 550540004516 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 550540004517 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 550540004518 Helix-turn-helix domain; Region: HTH_18; pfam12833 550540004519 elongation factor G; Reviewed; Region: PRK00007 550540004520 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 550540004521 G1 box; other site 550540004522 putative GEF interaction site [polypeptide binding]; other site 550540004523 GTP/Mg2+ binding site [chemical binding]; other site 550540004524 Switch I region; other site 550540004525 G2 box; other site 550540004526 G3 box; other site 550540004527 Switch II region; other site 550540004528 G4 box; other site 550540004529 G5 box; other site 550540004530 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 550540004531 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 550540004532 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 550540004533 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 550540004534 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 550540004535 Walker A/P-loop; other site 550540004536 ATP binding site [chemical binding]; other site 550540004537 Q-loop/lid; other site 550540004538 ABC transporter signature motif; other site 550540004539 Walker B; other site 550540004540 D-loop; other site 550540004541 H-loop/switch region; other site 550540004542 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 550540004543 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 550540004544 FtsX-like permease family; Region: FtsX; pfam02687 550540004545 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 550540004546 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 550540004547 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 550540004548 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 550540004549 MgtC family; Region: MgtC; pfam02308 550540004550 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 550540004551 Kynurenine formamidase [Amino acid transport and metabolism]; Region: COG1878 550540004552 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 550540004553 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 550540004554 ATP binding site [chemical binding]; other site 550540004555 putative Mg++ binding site [ion binding]; other site 550540004556 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 550540004557 nucleotide binding region [chemical binding]; other site 550540004558 ATP-binding site [chemical binding]; other site 550540004559 Helicase associated domain (HA2); Region: HA2; pfam04408 550540004560 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 550540004561 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 550540004562 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 550540004563 heme-binding residues [chemical binding]; other site 550540004564 Predicted oxidoreductase [General function prediction only]; Region: COG3573 550540004565 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 550540004566 Predicted oxidoreductase [General function prediction only]; Region: COG3573 550540004567 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550540004568 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 550540004569 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 550540004570 motif II; other site 550540004571 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 550540004572 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 550540004573 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 550540004574 active site 550540004575 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 550540004576 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 550540004577 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 550540004578 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550540004579 Nitronate monooxygenase; Region: NMO; pfam03060 550540004580 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 550540004581 FMN binding site [chemical binding]; other site 550540004582 substrate binding site [chemical binding]; other site 550540004583 putative catalytic residue [active] 550540004584 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 550540004585 homotrimer interaction site [polypeptide binding]; other site 550540004586 putative active site [active] 550540004587 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 550540004588 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 550540004589 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 550540004590 catalytic residue [active] 550540004591 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 550540004592 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 550540004593 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 550540004594 putative active site [active] 550540004595 catalytic site [active] 550540004596 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 550540004597 putative active site [active] 550540004598 catalytic site [active] 550540004599 hypothetical protein; Provisional; Region: PRK05421 550540004600 putative catalytic site [active] 550540004601 putative metal binding site [ion binding]; other site 550540004602 putative phosphate binding site [ion binding]; other site 550540004603 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 550540004604 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 550540004605 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 550540004606 DNA binding site [nucleotide binding] 550540004607 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 550540004608 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 550540004609 active site 550540004610 Zn binding site [ion binding]; other site 550540004611 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 550540004612 EamA-like transporter family; Region: EamA; pfam00892 550540004613 EamA-like transporter family; Region: EamA; pfam00892 550540004614 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 550540004615 Helix-turn-helix domain; Region: HTH_18; pfam12833 550540004616 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550540004617 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 550540004618 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 550540004619 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 550540004620 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 550540004621 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550540004622 Coenzyme A binding pocket [chemical binding]; other site 550540004623 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540004624 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540004625 metal binding site [ion binding]; metal-binding site 550540004626 active site 550540004627 I-site; other site 550540004628 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 550540004629 active site clefts [active] 550540004630 zinc binding site [ion binding]; other site 550540004631 dimer interface [polypeptide binding]; other site 550540004632 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 550540004633 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 550540004634 active site 550540004635 DNA binding site [nucleotide binding] 550540004636 Int/Topo IB signature motif; other site 550540004637 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 550540004638 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 550540004639 PDZ domain; Region: PDZ_2; pfam13180 550540004640 protein binding site [polypeptide binding]; other site 550540004641 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 550540004642 nucleotide binding site/active site [active] 550540004643 HIT family signature motif; other site 550540004644 catalytic residue [active] 550540004645 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 550540004646 CoenzymeA binding site [chemical binding]; other site 550540004647 subunit interaction site [polypeptide binding]; other site 550540004648 PHB binding site; other site 550540004649 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 550540004650 CoenzymeA binding site [chemical binding]; other site 550540004651 subunit interaction site [polypeptide binding]; other site 550540004652 PHB binding site; other site 550540004653 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 550540004654 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 550540004655 putative dimer interface [polypeptide binding]; other site 550540004656 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 550540004657 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 550540004658 N-terminal plug; other site 550540004659 ligand-binding site [chemical binding]; other site 550540004660 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 550540004661 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 550540004662 active site 550540004663 substrate binding site [chemical binding]; other site 550540004664 ATP binding site [chemical binding]; other site 550540004665 VIP2; A family of actin-ADP-ribosylating toxin. A member of the Bacillus-prodiced vegetative insecticidal proteins (VIPs) possesses high specificity against the major insect pest, corn rootworms, and belongs to a classs of binary toxins and regulators of...; Region: VIP2; cl00173 550540004666 DoxX; Region: DoxX; pfam07681 550540004667 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 550540004668 putative FMN binding site [chemical binding]; other site 550540004669 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 550540004670 Strictosidine synthase; Region: Str_synth; pfam03088 550540004671 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 550540004672 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 550540004673 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 550540004674 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 550540004675 Ligand Binding Site [chemical binding]; other site 550540004676 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 550540004677 DNA binding site [nucleotide binding] 550540004678 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 550540004679 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 550540004680 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 550540004681 active site 550540004682 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 550540004683 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 550540004684 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 550540004685 Sulfatase; Region: Sulfatase; cl17466 550540004686 Protein of unknown function (DUF1414); Region: DUF1414; cl01175 550540004687 Nucleoid-associated protein [General function prediction only]; Region: COG3081 550540004688 nucleoid-associated protein NdpA; Validated; Region: PRK00378 550540004689 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 550540004690 Nucleoside recognition; Region: Gate; pfam07670 550540004691 hypothetical protein; Provisional; Region: PRK00967 550540004692 Uncharacterized conserved protein [Function unknown]; Region: COG0393 550540004693 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 550540004694 LytTr DNA-binding domain; Region: LytTR; pfam04397 550540004695 dihydroorotase; Reviewed; Region: PRK09236 550540004696 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 550540004697 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 550540004698 active site 550540004699 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 550540004700 Peptidase family M23; Region: Peptidase_M23; pfam01551 550540004701 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 550540004702 putative C-S lyase; Region: C_S_lyase_PatB; TIGR04350 550540004703 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 550540004704 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540004705 homodimer interface [polypeptide binding]; other site 550540004706 catalytic residue [active] 550540004707 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 550540004708 active site 550540004709 metal binding site [ion binding]; metal-binding site 550540004710 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 550540004711 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 550540004712 active site 550540004713 metal binding site [ion binding]; metal-binding site 550540004714 homotetramer interface [polypeptide binding]; other site 550540004715 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 550540004716 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 550540004717 DNA-binding site [nucleotide binding]; DNA binding site 550540004718 RNA-binding motif; other site 550540004719 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 550540004720 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 550540004721 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 550540004722 putative RNA binding site [nucleotide binding]; other site 550540004723 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 550540004724 S-adenosylmethionine binding site [chemical binding]; other site 550540004725 Methyltransferase domain; Region: Methyltransf_23; pfam13489 550540004726 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 550540004727 S-adenosylmethionine binding site [chemical binding]; other site 550540004728 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 550540004729 putative peptidase; Provisional; Region: PRK11649 550540004730 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 550540004731 Peptidase family M23; Region: Peptidase_M23; pfam01551 550540004732 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 550540004733 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 550540004734 active site 550540004735 Zn binding site [ion binding]; other site 550540004736 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 550540004737 active site 550540004738 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 550540004739 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550540004740 Coenzyme A binding pocket [chemical binding]; other site 550540004741 acetyl-CoA synthetase; Provisional; Region: PRK00174 550540004742 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 550540004743 active site 550540004744 CoA binding site [chemical binding]; other site 550540004745 acyl-activating enzyme (AAE) consensus motif; other site 550540004746 AMP binding site [chemical binding]; other site 550540004747 acetate binding site [chemical binding]; other site 550540004748 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 550540004749 PAS fold; Region: PAS_7; pfam12860 550540004750 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 550540004751 putative active site [active] 550540004752 heme pocket [chemical binding]; other site 550540004753 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 550540004754 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 550540004755 dimer interface [polypeptide binding]; other site 550540004756 phosphorylation site [posttranslational modification] 550540004757 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 550540004758 ATP binding site [chemical binding]; other site 550540004759 Mg2+ binding site [ion binding]; other site 550540004760 G-X-G motif; other site 550540004761 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 550540004762 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540004763 active site 550540004764 phosphorylation site [posttranslational modification] 550540004765 intermolecular recognition site; other site 550540004766 dimerization interface [polypeptide binding]; other site 550540004767 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 550540004768 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 550540004769 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 550540004770 Bacterial Ig-like domain (group 2); Region: Big_2; pfam02368 550540004771 outer membrane protein A; Reviewed; Region: PRK10808 550540004772 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 550540004773 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 550540004774 ligand binding site [chemical binding]; other site 550540004775 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 550540004776 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 550540004777 carboxyltransferase (CT) interaction site; other site 550540004778 biotinylation site [posttranslational modification]; other site 550540004779 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540004780 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 550540004781 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 550540004782 dimer interface [polypeptide binding]; other site 550540004783 phosphorylation site [posttranslational modification] 550540004784 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 550540004785 ATP binding site [chemical binding]; other site 550540004786 Mg2+ binding site [ion binding]; other site 550540004787 G-X-G motif; other site 550540004788 Response regulator receiver domain; Region: Response_reg; pfam00072 550540004789 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540004790 active site 550540004791 phosphorylation site [posttranslational modification] 550540004792 intermolecular recognition site; other site 550540004793 dimerization interface [polypeptide binding]; other site 550540004794 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 550540004795 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540004796 active site 550540004797 phosphorylation site [posttranslational modification] 550540004798 intermolecular recognition site; other site 550540004799 dimerization interface [polypeptide binding]; other site 550540004800 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 550540004801 DNA binding site [nucleotide binding] 550540004802 Response regulator receiver domain; Region: Response_reg; pfam00072 550540004803 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 550540004804 active site 550540004805 phosphorylation site [posttranslational modification] 550540004806 intermolecular recognition site; other site 550540004807 dimerization interface [polypeptide binding]; other site 550540004808 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 550540004809 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 550540004810 Cysteine-rich CPCC; Region: Cys_rich_CPCC; pfam14206 550540004811 Uncharacterized conserved protein [Function unknown]; Region: COG3791 550540004812 Pirin-related protein [General function prediction only]; Region: COG1741 550540004813 Pirin; Region: Pirin; pfam02678 550540004814 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 550540004815 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540004816 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540004817 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 550540004818 dimerization interface [polypeptide binding]; other site 550540004819 DNA topoisomerase III; Provisional; Region: PRK07726 550540004820 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 550540004821 active site 550540004822 putative interdomain interaction site [polypeptide binding]; other site 550540004823 putative metal-binding site [ion binding]; other site 550540004824 putative nucleotide binding site [chemical binding]; other site 550540004825 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 550540004826 domain I; other site 550540004827 DNA binding groove [nucleotide binding] 550540004828 phosphate binding site [ion binding]; other site 550540004829 domain II; other site 550540004830 domain III; other site 550540004831 nucleotide binding site [chemical binding]; other site 550540004832 catalytic site [active] 550540004833 domain IV; other site 550540004834 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 550540004835 catalytic core [active] 550540004836 pyridoxamine kinase; Validated; Region: PRK05756 550540004837 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 550540004838 dimer interface [polypeptide binding]; other site 550540004839 pyridoxal binding site [chemical binding]; other site 550540004840 ATP binding site [chemical binding]; other site 550540004841 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 550540004842 putative catalytic site [active] 550540004843 putative phosphate binding site [ion binding]; other site 550540004844 putative metal binding site [ion binding]; other site 550540004845 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; cl17355 550540004846 DNA binding site [nucleotide binding] 550540004847 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 550540004848 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 550540004849 catalytic residues [active] 550540004850 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 550540004851 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 550540004852 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 550540004853 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 550540004854 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 550540004855 active site residue [active] 550540004856 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 550540004857 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 550540004858 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 550540004859 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 550540004860 binding surface 550540004861 TPR motif; other site 550540004862 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 550540004863 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 550540004864 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 550540004865 NosL; Region: NosL; pfam05573 550540004866 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 550540004867 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 550540004868 active site residue [active] 550540004869 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 550540004870 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 550540004871 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 550540004872 TPR repeat; Region: TPR_11; pfam13414 550540004873 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 550540004874 binding surface 550540004875 TPR motif; other site 550540004876 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 550540004877 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 550540004878 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 550540004879 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 550540004880 NosL; Region: NosL; pfam05573 550540004881 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 550540004882 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 550540004883 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 550540004884 Walker A/P-loop; other site 550540004885 ATP binding site [chemical binding]; other site 550540004886 Q-loop/lid; other site 550540004887 ABC transporter signature motif; other site 550540004888 Walker B; other site 550540004889 D-loop; other site 550540004890 H-loop/switch region; other site 550540004891 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 550540004892 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 550540004893 Flavodoxin domain; Region: Flavodoxin_5; cl17428 550540004894 Cytochrome b562; Region: Cytochrom_B562; cl01546 550540004895 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 550540004896 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 550540004897 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 550540004898 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 550540004899 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 550540004900 active site 550540004901 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 550540004902 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 550540004903 heme binding site [chemical binding]; other site 550540004904 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 550540004905 Mechanosensitive ion channel; Region: MS_channel; pfam00924 550540004906 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 550540004907 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 550540004908 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 550540004909 TrkA-N domain; Region: TrkA_N; pfam02254 550540004910 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 550540004911 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 550540004912 Mechanosensitive ion channel; Region: MS_channel; pfam00924 550540004913 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 550540004914 Acyltransferase family; Region: Acyl_transf_3; pfam01757 550540004915 Predicted O-acyltransferase [General function prediction only]; Region: COG3274 550540004916 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 550540004917 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550540004918 dimer interface [polypeptide binding]; other site 550540004919 putative CheW interface [polypeptide binding]; other site 550540004920 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 550540004921 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 550540004922 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 550540004923 dimer interface [polypeptide binding]; other site 550540004924 motif 1; other site 550540004925 active site 550540004926 motif 2; other site 550540004927 motif 3; other site 550540004928 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 550540004929 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 550540004930 putative tRNA-binding site [nucleotide binding]; other site 550540004931 B3/4 domain; Region: B3_4; pfam03483 550540004932 tRNA synthetase B5 domain; Region: B5; smart00874 550540004933 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 550540004934 dimer interface [polypeptide binding]; other site 550540004935 motif 1; other site 550540004936 motif 3; other site 550540004937 motif 2; other site 550540004938 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 550540004939 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 550540004940 IHF dimer interface [polypeptide binding]; other site 550540004941 IHF - DNA interface [nucleotide binding]; other site 550540004942 polar chromosome segregation protein; Reviewed; Region: racA; PRK13182 550540004943 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 550540004944 peptidase T-like protein; Region: PepT-like; TIGR01883 550540004945 metal binding site [ion binding]; metal-binding site 550540004946 putative dimer interface [polypeptide binding]; other site 550540004947 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 550540004948 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 550540004949 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 550540004950 metal binding site [ion binding]; metal-binding site 550540004951 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 550540004952 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 550540004953 substrate binding site [chemical binding]; other site 550540004954 glutamase interaction surface [polypeptide binding]; other site 550540004955 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 550540004956 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 550540004957 catalytic residues [active] 550540004958 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 550540004959 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 550540004960 putative active site [active] 550540004961 oxyanion strand; other site 550540004962 catalytic triad [active] 550540004963 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 550540004964 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 550540004965 active site 550540004966 motif I; other site 550540004967 motif II; other site 550540004968 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 550540004969 putative active site pocket [active] 550540004970 4-fold oligomerization interface [polypeptide binding]; other site 550540004971 metal binding residues [ion binding]; metal-binding site 550540004972 3-fold/trimer interface [polypeptide binding]; other site 550540004973 histidinol-phosphate aminotransferase; Provisional; Region: PRK04635 550540004974 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 550540004975 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540004976 homodimer interface [polypeptide binding]; other site 550540004977 catalytic residue [active] 550540004978 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 550540004979 histidinol dehydrogenase; Region: hisD; TIGR00069 550540004980 NAD binding site [chemical binding]; other site 550540004981 dimerization interface [polypeptide binding]; other site 550540004982 product binding site; other site 550540004983 substrate binding site [chemical binding]; other site 550540004984 zinc binding site [ion binding]; other site 550540004985 catalytic residues [active] 550540004986 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 550540004987 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 550540004988 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 550540004989 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 550540004990 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 550540004991 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 550540004992 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 550540004993 Glycoprotease family; Region: Peptidase_M22; pfam00814 550540004994 Predicted methyltransferase [General function prediction only]; Region: COG4798 550540004995 Methyltransferase domain; Region: Methyltransf_23; pfam13489 550540004996 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 550540004997 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 550540004998 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 550540004999 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 550540005000 acyl-activating enzyme (AAE) consensus motif; other site 550540005001 putative AMP binding site [chemical binding]; other site 550540005002 putative active site [active] 550540005003 putative CoA binding site [chemical binding]; other site 550540005004 ribonuclease D; Region: rnd; TIGR01388 550540005005 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 550540005006 catalytic site [active] 550540005007 putative active site [active] 550540005008 putative substrate binding site [chemical binding]; other site 550540005009 HRDC domain; Region: HRDC; pfam00570 550540005010 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 550540005011 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 550540005012 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 550540005013 acyl-activating enzyme (AAE) consensus motif; other site 550540005014 putative AMP binding site [chemical binding]; other site 550540005015 putative active site [active] 550540005016 putative CoA binding site [chemical binding]; other site 550540005017 Septum formation topological specificity factor MinE; Region: MinE; cl00538 550540005018 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 550540005019 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 550540005020 Switch I; other site 550540005021 Switch II; other site 550540005022 septum formation inhibitor; Reviewed; Region: minC; PRK04804 550540005023 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 550540005024 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 550540005025 YcgL domain; Region: YcgL; pfam05166 550540005026 Transglycosylase SLT domain; Region: SLT_2; pfam13406 550540005027 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 550540005028 N-acetyl-D-glucosamine binding site [chemical binding]; other site 550540005029 hypothetical protein; Provisional; Region: PRK05170 550540005030 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 550540005031 sodium/proton antiporter; Reviewed; Region: nhaB; PRK09547 550540005032 fatty acid metabolism regulator; Provisional; Region: PRK04984 550540005033 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 550540005034 DNA-binding site [nucleotide binding]; DNA binding site 550540005035 FadR C-terminal domain; Region: FadR_C; pfam07840 550540005036 SpoVR family protein; Provisional; Region: PRK11767 550540005037 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 550540005038 hypothetical protein; Provisional; Region: PRK05325 550540005039 PrkA family serine protein kinase; Provisional; Region: PRK15455 550540005040 AAA ATPase domain; Region: AAA_16; pfam13191 550540005041 Walker A motif; other site 550540005042 ATP binding site [chemical binding]; other site 550540005043 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 550540005044 superoxide dismutase; Provisional; Region: PRK10543 550540005045 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 550540005046 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 550540005047 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 550540005048 putative GSH binding site [chemical binding]; other site 550540005049 catalytic residues [active] 550540005050 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 550540005051 agmatinase; Region: agmatinase; TIGR01230 550540005052 oligomer interface [polypeptide binding]; other site 550540005053 putative active site [active] 550540005054 Mn binding site [ion binding]; other site 550540005055 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 550540005056 Predicted membrane protein [Function unknown]; Region: COG3650 550540005057 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 550540005058 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 550540005059 putative dimer interface [polypeptide binding]; other site 550540005060 putative anticodon binding site; other site 550540005061 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 550540005062 homodimer interface [polypeptide binding]; other site 550540005063 motif 1; other site 550540005064 motif 2; other site 550540005065 active site 550540005066 motif 3; other site 550540005067 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 550540005068 putative active site [active] 550540005069 putative CoA binding site [chemical binding]; other site 550540005070 nudix motif; other site 550540005071 metal binding site [ion binding]; metal-binding site 550540005072 hypothetical protein; Provisional; Region: PRK10318 550540005073 Protein of unknown function (DUF406); Region: DUF406; cl11449 550540005074 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 550540005075 ApbE family; Region: ApbE; pfam02424 550540005076 Protein of unknown function (DUF3570); Region: DUF3570; pfam12094 550540005077 Domain of unknown function (DUF4266); Region: DUF4266; pfam14086 550540005078 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 550540005079 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 550540005080 catalytic residues [active] 550540005081 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 550540005082 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 550540005083 chorismate binding enzyme; Region: Chorismate_bind; cl10555 550540005084 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 550540005085 putative metal binding site [ion binding]; other site 550540005086 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; pfam03372 550540005087 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 550540005088 putative catalytic site [active] 550540005089 putative phosphate binding site [ion binding]; other site 550540005090 putative metal binding site [ion binding]; other site 550540005091 malate dehydrogenase; Provisional; Region: PRK13529 550540005092 Malic enzyme, N-terminal domain; Region: malic; pfam00390 550540005093 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 550540005094 NAD(P) binding site [chemical binding]; other site 550540005095 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 550540005096 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 550540005097 ATP binding site [chemical binding]; other site 550540005098 putative Mg++ binding site [ion binding]; other site 550540005099 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 550540005100 nucleotide binding region [chemical binding]; other site 550540005101 ATP-binding site [chemical binding]; other site 550540005102 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 550540005103 RNA binding site [nucleotide binding]; other site 550540005104 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 550540005105 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 550540005106 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 550540005107 Ferritin-like domain; Region: Ferritin; pfam00210 550540005108 binuclear metal center [ion binding]; other site 550540005109 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 550540005110 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 550540005111 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 550540005112 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540005113 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540005114 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 550540005115 copper/silver efflux system outer membrane protein CusC; Provisional; Region: PRK09837 550540005116 Superoxide reductase-like (SORL) domain; present in a family of mononuclear non-heme iron proteins that includes superoxide reductase and desulfoferrodoxin. Superoxide reductase-like proteins scavenge superoxide anion radicals as a defense mechanism...; Region: SORL; cl00014 550540005117 non-heme iron binding site [ion binding]; other site 550540005118 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 550540005119 Fumarase C-terminus; Region: Fumerase_C; pfam05683 550540005120 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 550540005121 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 550540005122 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 550540005123 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 550540005124 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 550540005125 Cupin domain; Region: Cupin_2; cl17218 550540005126 Helix-turn-helix domain; Region: HTH_18; pfam12833 550540005127 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550540005128 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 550540005129 Ligand Binding Site [chemical binding]; other site 550540005130 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 550540005131 Ligand Binding Site [chemical binding]; other site 550540005132 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 550540005133 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 550540005134 active site 550540005135 catalytic site [active] 550540005136 substrate binding site [chemical binding]; other site 550540005137 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 550540005138 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 550540005139 ligand binding site [chemical binding]; other site 550540005140 flexible hinge region; other site 550540005141 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 550540005142 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 550540005143 metal binding triad; other site 550540005144 BCCT family transporter; Region: BCCT; pfam02028 550540005145 Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator; Region: HTH_Cfa; cd04789 550540005146 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 550540005147 DNA binding residues [nucleotide binding] 550540005148 Methyltransferase domain; Region: Methyltransf_31; pfam13847 550540005149 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 550540005150 S-adenosylmethionine binding site [chemical binding]; other site 550540005151 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 550540005152 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 550540005153 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 550540005154 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 550540005155 ABC-ATPase subunit interface; other site 550540005156 dimer interface [polypeptide binding]; other site 550540005157 putative PBP binding regions; other site 550540005158 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 550540005159 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 550540005160 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 550540005161 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 550540005162 intersubunit interface [polypeptide binding]; other site 550540005163 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 550540005164 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 550540005165 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 550540005166 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 550540005167 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 550540005168 N-terminal plug; other site 550540005169 ligand-binding site [chemical binding]; other site 550540005170 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 550540005171 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 550540005172 FAD binding domain; Region: FAD_binding_4; pfam01565 550540005173 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 550540005174 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 550540005175 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 550540005176 N-acetyl-D-glucosamine binding site [chemical binding]; other site 550540005177 catalytic residue [active] 550540005178 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 550540005179 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550540005180 dimer interface [polypeptide binding]; other site 550540005181 putative CheW interface [polypeptide binding]; other site 550540005182 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 550540005183 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 550540005184 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 550540005185 Walker A motif; other site 550540005186 ATP binding site [chemical binding]; other site 550540005187 Walker B motif; other site 550540005188 arginine finger; other site 550540005189 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 550540005190 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 550540005191 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 550540005192 catalytic loop [active] 550540005193 iron binding site [ion binding]; other site 550540005194 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 550540005195 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 550540005196 4Fe-4S binding domain; Region: Fer4; pfam00037 550540005197 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 550540005198 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 550540005199 [4Fe-4S] binding site [ion binding]; other site 550540005200 molybdopterin cofactor binding site; other site 550540005201 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 550540005202 molybdopterin cofactor binding site; other site 550540005203 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 550540005204 Transposase; Region: DEDD_Tnp_IS110; pfam01548 550540005205 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 550540005206 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 550540005207 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 550540005208 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 550540005209 active site 550540005210 catalytic tetrad [active] 550540005211 Rhomboid family; Region: Rhomboid; pfam01694 550540005212 PhoD-like phosphatase; Region: PhoD; pfam09423 550540005213 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 550540005214 putative active site [active] 550540005215 putative metal binding site [ion binding]; other site 550540005216 putative transporter; Provisional; Region: PRK11660 550540005217 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 550540005218 Sulfate transporter family; Region: Sulfate_transp; pfam00916 550540005219 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 550540005220 Response regulator receiver domain; Region: Response_reg; pfam00072 550540005221 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540005222 active site 550540005223 phosphorylation site [posttranslational modification] 550540005224 intermolecular recognition site; other site 550540005225 dimerization interface [polypeptide binding]; other site 550540005226 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 550540005227 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 550540005228 Walker A motif; other site 550540005229 ATP binding site [chemical binding]; other site 550540005230 Walker B motif; other site 550540005231 arginine finger; other site 550540005232 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 550540005233 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 550540005234 substrate binding pocket [chemical binding]; other site 550540005235 membrane-bound complex binding site; other site 550540005236 hinge residues; other site 550540005237 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 550540005238 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 550540005239 ATP binding site [chemical binding]; other site 550540005240 Mg2+ binding site [ion binding]; other site 550540005241 G-X-G motif; other site 550540005242 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 550540005243 eyelet of channel; other site 550540005244 trimer interface [polypeptide binding]; other site 550540005245 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 550540005246 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 550540005247 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 550540005248 heme-binding residues [chemical binding]; other site 550540005249 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 550540005250 L-aspartate oxidase; Provisional; Region: PRK06175 550540005251 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 550540005252 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 550540005253 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550540005254 Coenzyme A binding pocket [chemical binding]; other site 550540005255 L,D-transpeptidase; Provisional; Region: PRK10190 550540005256 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 550540005257 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 550540005258 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 550540005259 Haemolysin-III related; Region: HlyIII; cl03831 550540005260 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 550540005261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4246 550540005262 Esterase-like activity of phytase; Region: Phytase-like; pfam13449 550540005263 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 550540005264 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 550540005265 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 550540005266 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 550540005267 active site 550540005268 metal binding site [ion binding]; metal-binding site 550540005269 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 550540005270 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 550540005271 dimer interface [polypeptide binding]; other site 550540005272 Alkaline phosphatase homologues; Region: alkPPc; smart00098 550540005273 active site 550540005274 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 550540005275 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 550540005276 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; cl01267 550540005277 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 550540005278 ATP cone domain; Region: ATP-cone; pfam03477 550540005279 Class III ribonucleotide reductase; Region: RNR_III; cd01675 550540005280 effector binding site; other site 550540005281 active site 550540005282 Zn binding site [ion binding]; other site 550540005283 glycine loop; other site 550540005284 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 550540005285 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 550540005286 FeS/SAM binding site; other site 550540005287 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 550540005288 NADH(P)-binding; Region: NAD_binding_10; pfam13460 550540005289 NAD binding site [chemical binding]; other site 550540005290 active site 550540005291 Nuclease-related domain; Region: NERD; pfam08378 550540005292 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 550540005293 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 550540005294 active site 550540005295 ATP binding site [chemical binding]; other site 550540005296 substrate binding site [chemical binding]; other site 550540005297 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 550540005298 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 550540005299 DsrH like protein; Region: DsrH; cl17347 550540005300 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 550540005301 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 550540005302 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 550540005303 YccA-like proteins; Region: YccA_like; cd10433 550540005304 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 550540005305 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 550540005306 ATP-binding cassette domain of iron-sulfur clusters transporter, subfamily C; Region: ABCC_ATM1_transporter; cd03253 550540005307 Walker A/P-loop; other site 550540005308 ATP binding site [chemical binding]; other site 550540005309 Q-loop/lid; other site 550540005310 ABC transporter signature motif; other site 550540005311 Walker B; other site 550540005312 D-loop; other site 550540005313 H-loop/switch region; other site 550540005314 RNA polymerase sigma factor, TIGR02999 family; Region: Sig-70_X6 550540005315 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 550540005316 Catalytic domain of Protein Kinases; Region: PKc; cd00180 550540005317 active site 550540005318 ATP binding site [chemical binding]; other site 550540005319 substrate binding site [chemical binding]; other site 550540005320 activation loop (A-loop); other site 550540005321 FOG: TPR repeat [General function prediction only]; Region: NrfG; COG0457 550540005322 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 550540005323 binding surface 550540005324 TPR motif; other site 550540005325 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 550540005326 binding surface 550540005327 TPR motif; other site 550540005328 LytTr DNA-binding domain; Region: LytTR; smart00850 550540005329 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 550540005330 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 550540005331 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 550540005332 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 550540005333 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 550540005334 active site 550540005335 Int/Topo IB signature motif; other site 550540005336 DNA binding site [nucleotide binding] 550540005337 Protein of unknown function (DUF3069); Region: DUF3069; pfam11269 550540005338 putative chaperone; Provisional; Region: PRK11678 550540005339 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 550540005340 nucleotide binding site [chemical binding]; other site 550540005341 putative NEF/HSP70 interaction site [polypeptide binding]; other site 550540005342 SBD interface [polypeptide binding]; other site 550540005343 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 550540005344 multidrug efflux protein; Reviewed; Region: PRK01766 550540005345 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 550540005346 cation binding site [ion binding]; other site 550540005347 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 550540005348 Lumazine binding domain; Region: Lum_binding; pfam00677 550540005349 Lumazine binding domain; Region: Lum_binding; pfam00677 550540005350 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 550540005351 pteridine reductase; Provisional; Region: PRK09135 550540005352 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 550540005353 NADP binding site [chemical binding]; other site 550540005354 substrate binding pocket [chemical binding]; other site 550540005355 active site 550540005356 Fructosamine kinase; Region: Fructosamin_kin; pfam03881 550540005357 Phosphotransferase enzyme family; Region: APH; pfam01636 550540005358 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 550540005359 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 550540005360 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 550540005361 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 550540005362 active site 550540005363 dimer interface [polypeptide binding]; other site 550540005364 motif 1; other site 550540005365 motif 2; other site 550540005366 motif 3; other site 550540005367 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 550540005368 anticodon binding site; other site 550540005369 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 550540005370 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 550540005371 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 550540005372 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 550540005373 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 550540005374 23S rRNA binding site [nucleotide binding]; other site 550540005375 L21 binding site [polypeptide binding]; other site 550540005376 L13 binding site [polypeptide binding]; other site 550540005377 Domain of unknown function (DUF1853); Region: DUF1853; pfam08907 550540005378 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 550540005379 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 550540005380 putative ligand binding site [chemical binding]; other site 550540005381 putative NAD binding site [chemical binding]; other site 550540005382 catalytic site [active] 550540005383 Uncharacterized conserved protein [Function unknown]; Region: COG0327 550540005384 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 550540005385 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 550540005386 TrkA-N domain; Region: TrkA_N; pfam02254 550540005387 Domain of unknown function (DUF4384); Region: DUF4384; pfam14326 550540005388 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 550540005389 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 550540005390 active site 550540005391 HIGH motif; other site 550540005392 KMSKS motif; other site 550540005393 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 550540005394 tRNA binding surface [nucleotide binding]; other site 550540005395 anticodon binding site; other site 550540005396 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 550540005397 dimer interface [polypeptide binding]; other site 550540005398 putative tRNA-binding site [nucleotide binding]; other site 550540005399 antiporter inner membrane protein; Provisional; Region: PRK11670 550540005400 Domain of unknown function DUF59; Region: DUF59; pfam01883 550540005401 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 550540005402 Walker A motif; other site 550540005403 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 550540005404 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 550540005405 ATP-binding site [chemical binding]; other site 550540005406 Sugar specificity; other site 550540005407 Pyrimidine base specificity; other site 550540005408 2'-deoxycytidine 5'-triphosphate deaminase (DCD); Region: DCD; pfam06559 550540005409 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 550540005410 trimer interface [polypeptide binding]; other site 550540005411 active site 550540005412 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 550540005413 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 550540005414 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540005415 catalytic residue [active] 550540005416 YceG-like family; Region: YceG; pfam02618 550540005417 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 550540005418 dimerization interface [polypeptide binding]; other site 550540005419 thymidylate kinase; Validated; Region: tmk; PRK00698 550540005420 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 550540005421 TMP-binding site; other site 550540005422 ATP-binding site [chemical binding]; other site 550540005423 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 550540005424 PilZ domain; Region: PilZ; cl01260 550540005425 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 550540005426 active site 550540005427 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 550540005428 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 550540005429 S-adenosylmethionine binding site [chemical binding]; other site 550540005430 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 550540005431 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 550540005432 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 550540005433 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 550540005434 mce related protein; Region: MCE; pfam02470 550540005435 mce related protein; Region: MCE; pfam02470 550540005436 mce related protein; Region: MCE; pfam02470 550540005437 mce related protein; Region: MCE; pfam02470 550540005438 mce related protein; Region: MCE; pfam02470 550540005439 mce related protein; Region: MCE; pfam02470 550540005440 mce related protein; Region: MCE; pfam02470 550540005441 Paraquat-inducible protein A; Region: PqiA; pfam04403 550540005442 Paraquat-inducible protein A; Region: PqiA; pfam04403 550540005443 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 550540005444 GAF domain; Region: GAF_2; pfam13185 550540005445 ProP expression regulator; Provisional; Region: PRK04950 550540005446 ProQ/FINO family; Region: ProQ; pfam04352 550540005447 carboxy-terminal protease; Provisional; Region: PRK11186 550540005448 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 550540005449 protein binding site [polypeptide binding]; other site 550540005450 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 550540005451 Catalytic dyad [active] 550540005452 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 550540005453 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 550540005454 Na2 binding site [ion binding]; other site 550540005455 putative substrate binding site 1 [chemical binding]; other site 550540005456 Na binding site 1 [ion binding]; other site 550540005457 putative substrate binding site 2 [chemical binding]; other site 550540005458 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 550540005459 aminopeptidase N; Provisional; Region: pepN; PRK14015 550540005460 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 550540005461 active site 550540005462 Zn binding site [ion binding]; other site 550540005463 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 550540005464 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 550540005465 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 550540005466 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 550540005467 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 550540005468 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 550540005469 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 550540005470 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 550540005471 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 550540005472 quinone interaction residues [chemical binding]; other site 550540005473 active site 550540005474 catalytic residues [active] 550540005475 FMN binding site [chemical binding]; other site 550540005476 substrate binding site [chemical binding]; other site 550540005477 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 550540005478 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 550540005479 active site 550540005480 nucleophile elbow; other site 550540005481 multidrug resistance protein MdtN; Provisional; Region: PRK10476 550540005482 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540005483 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540005484 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 550540005485 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 550540005486 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 550540005487 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 550540005488 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 550540005489 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 550540005490 ABC transporter ATPase component; Reviewed; Region: PRK11147 550540005491 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540005492 Walker A/P-loop; other site 550540005493 ATP binding site [chemical binding]; other site 550540005494 Q-loop/lid; other site 550540005495 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 550540005496 ABC transporter; Region: ABC_tran_2; pfam12848 550540005497 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 550540005498 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 550540005499 Ribosome modulation factor; Region: RMF; pfam04957 550540005500 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 550540005501 catalytic residues [active] 550540005502 dimer interface [polypeptide binding]; other site 550540005503 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 550540005504 active site 1 [active] 550540005505 dimer interface [polypeptide binding]; other site 550540005506 active site 2 [active] 550540005507 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 550540005508 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 550540005509 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 550540005510 Int/Topo IB signature motif; other site 550540005511 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 550540005512 active site 550540005513 DNA binding site [nucleotide binding] 550540005514 Int/Topo IB signature motif; other site 550540005515 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 550540005516 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 550540005517 Low-spin heme binding site [chemical binding]; other site 550540005518 Putative water exit pathway; other site 550540005519 Binuclear center (active site) [active] 550540005520 Putative proton exit pathway; other site 550540005521 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 550540005522 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 550540005523 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 550540005524 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 550540005525 Cytochrome c; Region: Cytochrom_C; pfam00034 550540005526 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 550540005527 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 550540005528 FixH; Region: FixH; pfam05751 550540005529 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 550540005530 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 550540005531 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 550540005532 metal-binding site [ion binding] 550540005533 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 550540005534 Soluble P-type ATPase [General function prediction only]; Region: COG4087 550540005535 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 550540005536 Family description; Region: DsbD_2; pfam13386 550540005537 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 550540005538 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 550540005539 ligand binding site [chemical binding]; other site 550540005540 flexible hinge region; other site 550540005541 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 550540005542 putative switch regulator; other site 550540005543 non-specific DNA interactions [nucleotide binding]; other site 550540005544 DNA binding site [nucleotide binding] 550540005545 sequence specific DNA binding site [nucleotide binding]; other site 550540005546 putative cAMP binding site [chemical binding]; other site 550540005547 universal stress protein UspE; Provisional; Region: PRK11175 550540005548 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 550540005549 Ligand Binding Site [chemical binding]; other site 550540005550 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 550540005551 Ligand Binding Site [chemical binding]; other site 550540005552 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 550540005553 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 550540005554 Ligand Binding Site [chemical binding]; other site 550540005555 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 550540005556 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 550540005557 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 550540005558 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 550540005559 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540005560 homodimer interface [polypeptide binding]; other site 550540005561 catalytic residue [active] 550540005562 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 550540005563 FtsX-like permease family; Region: FtsX; pfam02687 550540005564 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 550540005565 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 550540005566 Walker A/P-loop; other site 550540005567 ATP binding site [chemical binding]; other site 550540005568 Q-loop/lid; other site 550540005569 ABC transporter signature motif; other site 550540005570 Walker B; other site 550540005571 D-loop; other site 550540005572 H-loop/switch region; other site 550540005573 Phosphotransferase enzyme family; Region: APH; pfam01636 550540005574 Ecdysteroid kinase; Region: EcKinase; cl17738 550540005575 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 550540005576 Methyltransferase domain; Region: Methyltransf_32; pfam13679 550540005577 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540005578 metal binding site [ion binding]; metal-binding site 550540005579 active site 550540005580 I-site; other site 550540005581 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 550540005582 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 550540005583 domain interface [polypeptide binding]; other site 550540005584 putative active site [active] 550540005585 catalytic site [active] 550540005586 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 550540005587 domain interface [polypeptide binding]; other site 550540005588 putative active site [active] 550540005589 catalytic site [active] 550540005590 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 550540005591 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 550540005592 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 550540005593 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 550540005594 PAS domain; Region: PAS_9; pfam13426 550540005595 putative active site [active] 550540005596 heme pocket [chemical binding]; other site 550540005597 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 550540005598 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 550540005599 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 550540005600 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 550540005601 active site 550540005602 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 550540005603 short chain dehydrogenase; Provisional; Region: PRK07576 550540005604 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550540005605 NAD(P) binding site [chemical binding]; other site 550540005606 active site 550540005607 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 550540005608 active site 550540005609 dimer interface [polypeptide binding]; other site 550540005610 tetratricopeptide repeat protein; Provisional; Region: PRK11788 550540005611 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 550540005612 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 550540005613 IHF dimer interface [polypeptide binding]; other site 550540005614 IHF - DNA interface [nucleotide binding]; other site 550540005615 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 550540005616 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 550540005617 RNA binding site [nucleotide binding]; other site 550540005618 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 550540005619 RNA binding site [nucleotide binding]; other site 550540005620 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 550540005621 RNA binding site [nucleotide binding]; other site 550540005622 S1_RPS1_repeat_ec4: 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_ec4; cd05689 550540005623 RNA binding site [nucleotide binding]; other site 550540005624 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec5; cd05690 550540005625 RNA binding site [nucleotide binding]; other site 550540005626 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 550540005627 RNA binding site [nucleotide binding]; other site 550540005628 cytidylate kinase; Provisional; Region: cmk; PRK00023 550540005629 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 550540005630 CMP-binding site; other site 550540005631 The sites determining sugar specificity; other site 550540005632 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 550540005633 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 550540005634 hinge; other site 550540005635 active site 550540005636 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 550540005637 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 550540005638 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540005639 homodimer interface [polypeptide binding]; other site 550540005640 catalytic residue [active] 550540005641 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 550540005642 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 550540005643 catalytic residue [active] 550540005644 DNA gyrase subunit A; Validated; Region: PRK05560 550540005645 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 550540005646 CAP-like domain; other site 550540005647 active site 550540005648 primary dimer interface [polypeptide binding]; other site 550540005649 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 550540005650 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 550540005651 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 550540005652 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 550540005653 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 550540005654 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 550540005655 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 550540005656 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 550540005657 phosphoglycolate phosphatase; Provisional; Region: PRK13222 550540005658 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 550540005659 motif II; other site 550540005660 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 550540005661 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 550540005662 ATP cone domain; Region: ATP-cone; pfam03477 550540005663 Class I ribonucleotide reductase; Region: RNR_I; cd01679 550540005664 active site 550540005665 dimer interface [polypeptide binding]; other site 550540005666 catalytic residues [active] 550540005667 effector binding site; other site 550540005668 R2 peptide binding site; other site 550540005669 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 550540005670 dimer interface [polypeptide binding]; other site 550540005671 putative radical transfer pathway; other site 550540005672 diiron center [ion binding]; other site 550540005673 tyrosyl radical; other site 550540005674 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 550540005675 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 550540005676 catalytic loop [active] 550540005677 iron binding site [ion binding]; other site 550540005678 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 550540005679 putative dimer interface [polypeptide binding]; other site 550540005680 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 550540005681 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 550540005682 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 550540005683 active site 550540005684 FMN binding site [chemical binding]; other site 550540005685 2,4-decadienoyl-CoA binding site; other site 550540005686 catalytic residue [active] 550540005687 4Fe-4S cluster binding site [ion binding]; other site 550540005688 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 550540005689 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 550540005690 protease 4; Provisional; Region: PRK10949 550540005691 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 550540005692 tandem repeat interface [polypeptide binding]; other site 550540005693 oligomer interface [polypeptide binding]; other site 550540005694 active site residues [active] 550540005695 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 550540005696 tandem repeat interface [polypeptide binding]; other site 550540005697 oligomer interface [polypeptide binding]; other site 550540005698 active site residues [active] 550540005699 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 550540005700 active site 550540005701 homodimer interface [polypeptide binding]; other site 550540005702 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 550540005703 zinc-ribbon domain; Region: zinc_ribbon_2; pfam13240 550540005704 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 550540005705 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 550540005706 catalytic residues [active] 550540005707 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 550540005708 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 550540005709 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 550540005710 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 550540005711 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 550540005712 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 550540005713 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 550540005714 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 550540005715 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 550540005716 molybdopterin cofactor binding site; other site 550540005717 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 550540005718 molybdopterin cofactor binding site; other site 550540005719 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 550540005720 WYL domain; Region: WYL; pfam13280 550540005721 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 550540005722 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 550540005723 active site 550540005724 intersubunit interface [polypeptide binding]; other site 550540005725 catalytic residue [active] 550540005726 phosphogluconate dehydratase; Validated; Region: PRK09054 550540005727 6-phosphogluconate dehydratase; Region: edd; TIGR01196 550540005728 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 550540005729 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 550540005730 putative active site [active] 550540005731 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 550540005732 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 550540005733 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 550540005734 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 550540005735 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 550540005736 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 550540005737 putative active site [active] 550540005738 pyruvate kinase; Provisional; Region: PRK05826 550540005739 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 550540005740 domain interfaces; other site 550540005741 active site 550540005742 seryl-tRNA synthetase; Provisional; Region: PRK05431 550540005743 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 550540005744 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 550540005745 dimer interface [polypeptide binding]; other site 550540005746 active site 550540005747 motif 1; other site 550540005748 motif 2; other site 550540005749 motif 3; other site 550540005750 Type II secretory pathway, component PulJ [Intracellular trafficking and secretion]; Region: PulJ; COG4795 550540005751 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 550540005752 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 550540005753 CrcB-like protein; Region: CRCB; cl09114 550540005754 recombination factor protein RarA; Reviewed; Region: PRK13342 550540005755 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 550540005756 Walker A motif; other site 550540005757 ATP binding site [chemical binding]; other site 550540005758 Walker B motif; other site 550540005759 arginine finger; other site 550540005760 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 550540005761 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 550540005762 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 550540005763 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 550540005764 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 550540005765 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 550540005766 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 550540005767 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 550540005768 dimerization interface [polypeptide binding]; other site 550540005769 putative DNA binding site [nucleotide binding]; other site 550540005770 putative Zn2+ binding site [ion binding]; other site 550540005771 AsnC family; Region: AsnC_trans_reg; pfam01037 550540005772 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 550540005773 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 550540005774 hexamer interface [polypeptide binding]; other site 550540005775 ligand binding site [chemical binding]; other site 550540005776 putative active site [active] 550540005777 NAD(P) binding site [chemical binding]; other site 550540005778 thioredoxin reductase; Provisional; Region: PRK10262 550540005779 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 550540005780 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 550540005781 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 550540005782 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 550540005783 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540005784 Walker A/P-loop; other site 550540005785 ATP binding site [chemical binding]; other site 550540005786 Q-loop/lid; other site 550540005787 ABC transporter signature motif; other site 550540005788 Walker B; other site 550540005789 D-loop; other site 550540005790 H-loop/switch region; other site 550540005791 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 550540005792 ATP-binding cassette domain of multidrug resistance protein-like transporters; Region: ABCC_MRP_Like; cd03228 550540005793 Walker A/P-loop; other site 550540005794 ATP binding site [chemical binding]; other site 550540005795 Q-loop/lid; other site 550540005796 Walker B; other site 550540005797 D-loop; other site 550540005798 H-loop/switch region; other site 550540005799 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 550540005800 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 550540005801 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 550540005802 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 550540005803 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 550540005804 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 550540005805 rRNA binding site [nucleotide binding]; other site 550540005806 predicted 30S ribosome binding site; other site 550540005807 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 550540005808 Clp amino terminal domain; Region: Clp_N; pfam02861 550540005809 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 550540005810 Walker A motif; other site 550540005811 ATP binding site [chemical binding]; other site 550540005812 Walker B motif; other site 550540005813 arginine finger; other site 550540005814 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 550540005815 Walker A motif; other site 550540005816 ATP binding site [chemical binding]; other site 550540005817 Walker B motif; other site 550540005818 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 550540005819 Uncharacterized conserved protein [Function unknown]; Region: COG2127 550540005820 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 550540005821 DNA-binding site [nucleotide binding]; DNA binding site 550540005822 RNA-binding motif; other site 550540005823 isocitrate dehydrogenase; Validated; Region: PRK07362 550540005824 isocitrate dehydrogenase; Reviewed; Region: PRK07006 550540005825 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 550540005826 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 550540005827 Pseudouridine synthase, Escherichia coli RluE; Region: PseudoU_synth_RluE; cd02566 550540005828 pseudouridine synthase; Region: TIGR00093 550540005829 probable active site [active] 550540005830 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 550540005831 nudix motif; other site 550540005832 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 550540005833 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 550540005834 putative lysogenization regulator; Reviewed; Region: PRK00218 550540005835 adenylosuccinate lyase; Provisional; Region: PRK09285 550540005836 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 550540005837 tetramer interface [polypeptide binding]; other site 550540005838 active site 550540005839 Uncharacterized conserved protein [Function unknown]; Region: COG2850 550540005840 Cupin domain; Region: Cupin_2; cl17218 550540005841 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 550540005842 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 550540005843 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 550540005844 NAD binding site [chemical binding]; other site 550540005845 Phe binding site; other site 550540005846 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 550540005847 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 550540005848 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 550540005849 dimer interface [polypeptide binding]; other site 550540005850 active site 550540005851 metal binding site [ion binding]; metal-binding site 550540005852 glutathione binding site [chemical binding]; other site 550540005853 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 550540005854 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 550540005855 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 550540005856 Walker A motif; other site 550540005857 ATP binding site [chemical binding]; other site 550540005858 Walker B motif; other site 550540005859 arginine finger; other site 550540005860 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 550540005861 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 550540005862 RuvA N terminal domain; Region: RuvA_N; pfam01330 550540005863 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 550540005864 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]; Region: COG1107 550540005865 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 550540005866 active site 550540005867 putative DNA-binding cleft [nucleotide binding]; other site 550540005868 dimer interface [polypeptide binding]; other site 550540005869 hypothetical protein; Validated; Region: PRK00110 550540005870 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 550540005871 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 550540005872 dimer interface [polypeptide binding]; other site 550540005873 anticodon binding site; other site 550540005874 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 550540005875 homodimer interface [polypeptide binding]; other site 550540005876 motif 1; other site 550540005877 active site 550540005878 motif 2; other site 550540005879 GAD domain; Region: GAD; pfam02938 550540005880 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 550540005881 active site 550540005882 motif 3; other site 550540005883 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 550540005884 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 550540005885 substrate binding pocket [chemical binding]; other site 550540005886 membrane-bound complex binding site; other site 550540005887 hinge residues; other site 550540005888 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 550540005889 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 550540005890 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540005891 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540005892 metal binding site [ion binding]; metal-binding site 550540005893 active site 550540005894 I-site; other site 550540005895 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 550540005896 S-adenosylmethionine binding site [chemical binding]; other site 550540005897 Methyltransferase domain; Region: Methyltransf_23; pfam13489 550540005898 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 550540005899 S-adenosylmethionine binding site [chemical binding]; other site 550540005900 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 550540005901 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 550540005902 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 550540005903 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 550540005904 Sugar-transfer associated ATP-grasp; Region: ATPgrasp_ST; pfam14397 550540005905 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 550540005906 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 550540005907 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540005908 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540005909 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 550540005910 dimerization interface [polypeptide binding]; other site 550540005911 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540005912 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540005913 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 550540005914 putative effector binding pocket; other site 550540005915 dimerization interface [polypeptide binding]; other site 550540005916 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 550540005917 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 550540005918 putative NAD(P) binding site [chemical binding]; other site 550540005919 homodimer interface [polypeptide binding]; other site 550540005920 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 550540005921 amino acid carrier protein; Region: agcS; TIGR00835 550540005922 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 550540005923 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 550540005924 active site 550540005925 metal binding site [ion binding]; metal-binding site 550540005926 Bacteroidetes-Associated Carbohydrate-binding Often N-terminal; Region: BACON; pfam13004 550540005927 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 550540005928 DNA photolyase; Region: DNA_photolyase; pfam00875 550540005929 DNA photolyase; Region: DNA_photolyase; pfam00875 550540005930 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 550540005931 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 550540005932 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 550540005933 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 550540005934 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 550540005935 synthetase active site [active] 550540005936 NTP binding site [chemical binding]; other site 550540005937 metal binding site [ion binding]; metal-binding site 550540005938 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 550540005939 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 550540005940 FeS/SAM binding site; other site 550540005941 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 550540005942 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 550540005943 ThiS interaction site; other site 550540005944 putative active site [active] 550540005945 tetramer interface [polypeptide binding]; other site 550540005946 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 550540005947 thiS-thiF/thiG interaction site; other site 550540005948 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 550540005949 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 550540005950 ATP binding site [chemical binding]; other site 550540005951 substrate interface [chemical binding]; other site 550540005952 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 550540005953 dimer interface [polypeptide binding]; other site 550540005954 substrate binding site [chemical binding]; other site 550540005955 ATP binding site [chemical binding]; other site 550540005956 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 550540005957 thiamine phosphate binding site [chemical binding]; other site 550540005958 active site 550540005959 pyrophosphate binding site [ion binding]; other site 550540005960 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 550540005961 ThiC-associated domain; Region: ThiC-associated; pfam13667 550540005962 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 550540005963 hypothetical protein; Provisional; Region: PRK10977 550540005964 Pyruvate formate lyase; Region: PFL; pfam02901 550540005965 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 550540005966 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 550540005967 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 550540005968 FeS/SAM binding site; other site 550540005969 pyrimidine 5'-nucleotidase; Region: Pyr-5-nucltdase; TIGR01993 550540005970 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 550540005971 motif II; other site 550540005972 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 550540005973 The Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_like_2; cd09320 550540005974 gating phenylalanine in ion channel; other site 550540005975 Predicted small integral membrane protein [Function unknown]; Region: COG5605 550540005976 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_1; cd02864 550540005977 Subunit I/III interface [polypeptide binding]; other site 550540005978 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 550540005979 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 550540005980 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 550540005981 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 550540005982 Cytochrome c; Region: Cytochrom_C; pfam00034 550540005983 Cytochrome c; Region: Cytochrom_C; cl11414 550540005984 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 550540005985 active site 550540005986 Eukaryotic Glutathione Synthetase (eu-GS); catalyses the production of glutathione from gamma-glutamylcysteine and glycine in an ATP-dependent manner. Belongs to the ATP-grasp superfamily; Region: eu-GS; cl00170 550540005987 dimerization unit; other site 550540005988 glutathione (GSH) binding pocket [chemical binding]; other site 550540005989 active site residues [active] 550540005990 ATP binding pocket [chemical binding]; other site 550540005991 magnesium binding site [ion binding]; other site 550540005992 glycine rich loop; other site 550540005993 alanine rich loop; other site 550540005994 [FeFe] hydrogenase H-cluster maturation GTPase HydF; Region: GTP_HydF; TIGR03918 550540005995 E. coli Ras-like protein (Era)-like GTPase; Region: Era_like; cd00880 550540005996 G1 box; other site 550540005997 GTP/Mg2+ binding site [chemical binding]; other site 550540005998 Switch I region; other site 550540005999 G2 box; other site 550540006000 Switch II region; other site 550540006001 G3 box; other site 550540006002 G4 box; other site 550540006003 G5 box; other site 550540006004 biotin synthase; Provisional; Region: PRK07094 550540006005 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09613 550540006006 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 550540006007 FeS/SAM binding site; other site 550540006008 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 550540006009 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 550540006010 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 550540006011 Iron hydrogenase small subunit; Region: Fe_hyd_SSU; pfam02256 550540006012 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 550540006013 4Fe-4S binding domain; Region: Fer4; pfam00037 550540006014 Iron only hydrogenase large subunit, C-terminal domain; Region: Fe_hyd_lg_C; pfam02906 550540006015 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540006016 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540006017 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 550540006018 dimerization interface [polypeptide binding]; other site 550540006019 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 550540006020 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 550540006021 substrate binding site [chemical binding]; other site 550540006022 catalytic Zn binding site [ion binding]; other site 550540006023 NAD binding site [chemical binding]; other site 550540006024 structural Zn binding site [ion binding]; other site 550540006025 dimer interface [polypeptide binding]; other site 550540006026 S-formylglutathione hydrolase; Region: PLN02442 550540006027 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 550540006028 hypothetical protein; Provisional; Region: PRK11019 550540006029 Predicted acetyltransferase [General function prediction only]; Region: COG5628 550540006030 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14188 550540006031 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 550540006032 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 550540006033 homodimer interface [polypeptide binding]; other site 550540006034 NADP binding site [chemical binding]; other site 550540006035 substrate binding site [chemical binding]; other site 550540006036 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 550540006037 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10789 550540006038 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540006039 Walker A/P-loop; other site 550540006040 ATP binding site [chemical binding]; other site 550540006041 Q-loop/lid; other site 550540006042 ABC transporter signature motif; other site 550540006043 Walker B; other site 550540006044 D-loop; other site 550540006045 H-loop/switch region; other site 550540006046 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 550540006047 putative multidrug transporter membrane\ATP-binding components; Provisional; Region: PRK10790 550540006048 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540006049 Walker A/P-loop; other site 550540006050 ATP binding site [chemical binding]; other site 550540006051 Q-loop/lid; other site 550540006052 ABC transporter signature motif; other site 550540006053 Walker B; other site 550540006054 D-loop; other site 550540006055 H-loop/switch region; other site 550540006056 EcsC protein family; Region: EcsC; pfam12787 550540006057 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540006058 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540006059 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 550540006060 putative effector binding pocket; other site 550540006061 dimerization interface [polypeptide binding]; other site 550540006062 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 550540006063 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 550540006064 putative NAD(P) binding site [chemical binding]; other site 550540006065 dimer interface [polypeptide binding]; other site 550540006066 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 550540006067 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 550540006068 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 550540006069 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 550540006070 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 550540006071 molybdopterin cofactor binding site; other site 550540006072 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 550540006073 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 550540006074 putative molybdopterin cofactor binding site; other site 550540006075 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 550540006076 dimerization interface [polypeptide binding]; other site 550540006077 putative DNA binding site [nucleotide binding]; other site 550540006078 putative Zn2+ binding site [ion binding]; other site 550540006079 GTPase RsgA; Reviewed; Region: PRK01889 550540006080 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 550540006081 GTPase/Zn-binding domain interface [polypeptide binding]; other site 550540006082 GTP/Mg2+ binding site [chemical binding]; other site 550540006083 G4 box; other site 550540006084 G5 box; other site 550540006085 G1 box; other site 550540006086 Switch I region; other site 550540006087 G2 box; other site 550540006088 G3 box; other site 550540006089 Switch II region; other site 550540006090 tyrosine decarboxylase; Region: PLN02880 550540006091 Glutamate decarboxylase and related PLP-dependent proteins [Amino acid transport and metabolism]; Region: GadB; COG0076 550540006092 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 550540006093 catalytic residue [active] 550540006094 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 550540006095 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 550540006096 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 550540006097 active site 550540006098 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 550540006099 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550540006100 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 550540006101 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 550540006102 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 550540006103 putative DNA binding site [nucleotide binding]; other site 550540006104 putative Zn2+ binding site [ion binding]; other site 550540006105 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 550540006106 putative dimerization interface [polypeptide binding]; other site 550540006107 Domain of unknown function (DUF897); Region: DUF897; cl01312 550540006108 AIR carboxylase; Region: AIRC; pfam00731 550540006109 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 550540006110 ATP-grasp domain; Region: ATP-grasp; pfam02222 550540006111 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 550540006112 putative active site [active] 550540006113 catalytic site [active] 550540006114 RDD family; Region: RDD; pfam06271 550540006115 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 550540006116 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540006117 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540006118 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 550540006119 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 550540006120 Walker A/P-loop; other site 550540006121 ATP binding site [chemical binding]; other site 550540006122 Q-loop/lid; other site 550540006123 ABC transporter signature motif; other site 550540006124 Walker B; other site 550540006125 D-loop; other site 550540006126 H-loop/switch region; other site 550540006127 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 550540006128 FtsX-like permease family; Region: FtsX; pfam02687 550540006129 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 550540006130 FtsX-like permease family; Region: FtsX; pfam02687 550540006131 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 550540006132 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540006133 active site 550540006134 phosphorylation site [posttranslational modification] 550540006135 intermolecular recognition site; other site 550540006136 dimerization interface [polypeptide binding]; other site 550540006137 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 550540006138 Walker A motif; other site 550540006139 ATP binding site [chemical binding]; other site 550540006140 Walker B motif; other site 550540006141 arginine finger; other site 550540006142 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 550540006143 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 550540006144 dimerization interface [polypeptide binding]; other site 550540006145 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 550540006146 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 550540006147 putative active site [active] 550540006148 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 550540006149 ATP binding site [chemical binding]; other site 550540006150 Mg2+ binding site [ion binding]; other site 550540006151 G-X-G motif; other site 550540006152 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 550540006153 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550540006154 NAD(P) binding site [chemical binding]; other site 550540006155 active site 550540006156 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 550540006157 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 550540006158 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 550540006159 Nucleoside recognition; Region: Gate; pfam07670 550540006160 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 550540006161 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 550540006162 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 550540006163 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 550540006164 trimer interface [polypeptide binding]; other site 550540006165 active site 550540006166 substrate binding site [chemical binding]; other site 550540006167 CoA binding site [chemical binding]; other site 550540006168 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins; Region: GAT1_Peptidase_E_like; cd03129 550540006169 catalytic triad [active] 550540006170 active site nucleophile [active] 550540006171 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 550540006172 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 550540006173 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 550540006174 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 550540006175 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 550540006176 Walker A/P-loop; other site 550540006177 ATP binding site [chemical binding]; other site 550540006178 Q-loop/lid; other site 550540006179 ABC transporter signature motif; other site 550540006180 Walker B; other site 550540006181 D-loop; other site 550540006182 H-loop/switch region; other site 550540006183 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540006184 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 550540006185 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540006186 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 550540006187 hypothetical protein; Provisional; Region: PHA03029 550540006188 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 550540006189 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 550540006190 active site 550540006191 outer membrane porin, OprD family; Region: OprD; pfam03573 550540006192 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 550540006193 heme-binding residues [chemical binding]; other site 550540006194 FAD binding domain; Region: FAD_binding_2; pfam00890 550540006195 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540006196 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540006197 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 550540006198 putative effector binding pocket; other site 550540006199 dimerization interface [polypeptide binding]; other site 550540006200 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 550540006201 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 550540006202 substrate binding pocket [chemical binding]; other site 550540006203 membrane-bound complex binding site; other site 550540006204 hinge residues; other site 550540006205 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 550540006206 dimerization interface [polypeptide binding]; other site 550540006207 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550540006208 Zn2+ binding site [ion binding]; other site 550540006209 Mg2+ binding site [ion binding]; other site 550540006210 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550540006211 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 550540006212 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 550540006213 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 550540006214 Uncharacterized conserved protein [Function unknown]; Region: COG5361 550540006215 Protein of unknown function (DUF1254); Region: DUF1254; pfam06863 550540006216 Protein of unknown function (DUF1214); Region: DUF1214; cl08447 550540006217 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 550540006218 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK12933 550540006219 SecD export protein N-terminal TM region; Region: SecD-TM1; cl08136 550540006220 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 550540006221 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 550540006222 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13021 550540006223 Protein export membrane protein; Region: SecD_SecF; pfam02355 550540006224 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 550540006225 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 550540006226 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 550540006227 YebG protein; Region: YebG; pfam07130 550540006228 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 550540006229 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 550540006230 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540006231 Walker A/P-loop; other site 550540006232 ATP binding site [chemical binding]; other site 550540006233 Q-loop/lid; other site 550540006234 ABC transporter signature motif; other site 550540006235 Walker B; other site 550540006236 D-loop; other site 550540006237 H-loop/switch region; other site 550540006238 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 550540006239 substrate binding pocket [chemical binding]; other site 550540006240 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 550540006241 membrane-bound complex binding site; other site 550540006242 hinge residues; other site 550540006243 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 550540006244 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540006245 active site 550540006246 phosphorylation site [posttranslational modification] 550540006247 intermolecular recognition site; other site 550540006248 dimerization interface [polypeptide binding]; other site 550540006249 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 550540006250 DNA binding site [nucleotide binding] 550540006251 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 550540006252 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 550540006253 ATP binding site [chemical binding]; other site 550540006254 Mg2+ binding site [ion binding]; other site 550540006255 G-X-G motif; other site 550540006256 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 550540006257 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 550540006258 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550540006259 Zn2+ binding site [ion binding]; other site 550540006260 Mg2+ binding site [ion binding]; other site 550540006261 Protein of unknown function (DUF3135); Region: DUF3135; pfam11333 550540006262 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 550540006263 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 550540006264 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 550540006265 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 550540006266 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 550540006267 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 550540006268 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 550540006269 Predicted metalloprotease [General function prediction only]; Region: COG2321 550540006270 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 550540006271 formate-dependent cytochrome c nitrite reductase, c552 subunit; Region: cyto_c552_HCOOH; TIGR03152 550540006272 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 550540006273 GIY-YIG motif/motif A; other site 550540006274 putative active site [active] 550540006275 putative metal binding site [ion binding]; other site 550540006276 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 550540006277 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 550540006278 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 550540006279 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 550540006280 putative acyl-acceptor binding pocket; other site 550540006281 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 550540006282 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 550540006283 putative acyl-acceptor binding pocket; other site 550540006284 OsmC-like protein; Region: OsmC; pfam02566 550540006285 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_19; cd04678 550540006286 nudix motif; other site 550540006287 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 550540006288 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 550540006289 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 550540006290 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; cl01553 550540006291 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 550540006292 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550540006293 Coenzyme A binding pocket [chemical binding]; other site 550540006294 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cl09098 550540006295 active site 550540006296 catalytic site [active] 550540006297 NlpC/P60 family; Region: NLPC_P60; pfam00877 550540006298 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 550540006299 active site 550540006300 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 550540006301 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; cd00161 550540006302 putative sugar binding sites [chemical binding]; other site 550540006303 Q-X-W motif; other site 550540006304 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; cd00161 550540006305 putative sugar binding sites [chemical binding]; other site 550540006306 Q-X-W motif; other site 550540006307 Ricin-type beta-trefoil lectin domain; Region: Ricin_B_lectin; pfam00652 550540006308 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; cd00161 550540006309 putative sugar binding sites [chemical binding]; other site 550540006310 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 550540006311 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 550540006312 nucleobase-cation-symport-1 (NCS1) transporter CobB-like; solute-binding domain; Region: SLC-NCS1sbd_CobB-like; cd11484 550540006313 Na binding site [ion binding]; other site 550540006314 putative substrate binding site [chemical binding]; other site 550540006315 cytosine deaminase; Provisional; Region: PRK09230 550540006316 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 550540006317 active site 550540006318 Acyltransferase family; Region: Acyl_transf_3; pfam01757 550540006319 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550540006320 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550540006321 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 550540006322 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540006323 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540006324 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 550540006325 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540006326 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540006327 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 550540006328 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 550540006329 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 550540006330 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 550540006331 active site 550540006332 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 550540006333 pentamer interface [polypeptide binding]; other site 550540006334 dodecaamer interface [polypeptide binding]; other site 550540006335 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 550540006336 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 550540006337 active site 550540006338 purine riboside binding site [chemical binding]; other site 550540006339 hypothetical protein; Validated; Region: PRK08238 550540006340 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 550540006341 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 550540006342 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 550540006343 FAD binding domain; Region: FAD_binding_4; pfam01565 550540006344 D-arabinono-1,4-lactone oxidase; Region: ALO; pfam04030 550540006345 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 550540006346 short chain dehydrogenase; Provisional; Region: PRK07102 550540006347 NAD(P) binding site [chemical binding]; other site 550540006348 active site 550540006349 4-amino-4-deoxy-L-arabinose-phosphoundecaprenol flippase subunit ArnE; Provisional; Region: PRK15051 550540006350 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 550540006351 extended (e) SDRs; Region: SDR_e; cd08946 550540006352 NAD(P) binding site [chemical binding]; other site 550540006353 active site 550540006354 substrate binding site [chemical binding]; other site 550540006355 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 550540006356 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 550540006357 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540006358 Walker A/P-loop; other site 550540006359 ATP binding site [chemical binding]; other site 550540006360 Q-loop/lid; other site 550540006361 ABC transporter signature motif; other site 550540006362 Walker B; other site 550540006363 D-loop; other site 550540006364 H-loop/switch region; other site 550540006365 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 550540006366 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 550540006367 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 550540006368 Cadherin repeat-like domain; Region: CA_like; cl15786 550540006369 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 550540006370 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 550540006371 Tat (twin-arginine translocation) pathway signal sequence; Region: TAT_signal_seq; TIGR01409 550540006372 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 550540006373 molybdopterin cofactor binding site [chemical binding]; other site 550540006374 substrate binding site [chemical binding]; other site 550540006375 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 550540006376 molybdopterin cofactor binding site; other site 550540006377 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 550540006378 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 550540006379 Dihaem cytochrome c; Region: DHC; pfam09626 550540006380 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 550540006381 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 550540006382 active site 2 [active] 550540006383 active site 1 [active] 550540006384 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 550540006385 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540006386 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 550540006387 dimerization interface [polypeptide binding]; other site 550540006388 substrate binding pocket [chemical binding]; other site 550540006389 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 550540006390 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 550540006391 FAD binding domain; Region: FAD_binding_4; pfam01565 550540006392 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 550540006393 phosphoenolpyruvate synthase; Validated; Region: PRK06464 550540006394 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 550540006395 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 550540006396 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 550540006397 PEP synthetase regulatory protein; Provisional; Region: PRK05339 550540006398 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 550540006399 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 550540006400 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 550540006401 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540006402 active site 550540006403 phosphorylation site [posttranslational modification] 550540006404 intermolecular recognition site; other site 550540006405 dimerization interface [polypeptide binding]; other site 550540006406 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 550540006407 DNA binding residues [nucleotide binding] 550540006408 dimerization interface [polypeptide binding]; other site 550540006409 Protein of unknown function (DUF3626); Region: DUF3626; pfam12294 550540006410 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 550540006411 Major Facilitator Superfamily; Region: MFS_1; pfam07690 550540006412 putative substrate translocation pore; other site 550540006413 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 550540006414 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 550540006415 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540006416 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540006417 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 550540006418 dimerization interface [polypeptide binding]; other site 550540006419 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 550540006420 MOSC domain; Region: MOSC; pfam03473 550540006421 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 550540006422 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540006423 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540006424 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 550540006425 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 550540006426 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 550540006427 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 550540006428 GIY-YIG motif/motif A; other site 550540006429 active site 550540006430 catalytic site [active] 550540006431 putative DNA binding site [nucleotide binding]; other site 550540006432 metal binding site [ion binding]; metal-binding site 550540006433 UvrB/uvrC motif; Region: UVR; pfam02151 550540006434 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 550540006435 Helix-hairpin-helix motif; Region: HHH; pfam00633 550540006436 response regulator; Provisional; Region: PRK09483 550540006437 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540006438 active site 550540006439 phosphorylation site [posttranslational modification] 550540006440 intermolecular recognition site; other site 550540006441 dimerization interface [polypeptide binding]; other site 550540006442 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 550540006443 DNA binding residues [nucleotide binding] 550540006444 dimerization interface [polypeptide binding]; other site 550540006445 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 550540006446 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 550540006447 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 550540006448 active site 550540006449 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 550540006450 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550540006451 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550540006452 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 550540006453 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 550540006454 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 550540006455 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 550540006456 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 550540006457 FeS/SAM binding site; other site 550540006458 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 550540006459 AbgT putative transporter family; Region: ABG_transport; pfam03806 550540006460 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 550540006461 Smr domain; Region: Smr; pfam01713 550540006462 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 550540006463 SnoaL-like domain; Region: SnoaL_3; pfam13474 550540006464 hypothetical protein; Provisional; Region: PRK01617 550540006465 SEC-C motif; Region: SEC-C; pfam02810 550540006466 GAF domain; Region: GAF; pfam01590 550540006467 PAS domain; Region: PAS_9; pfam13426 550540006468 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 550540006469 putative active site [active] 550540006470 heme pocket [chemical binding]; other site 550540006471 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540006472 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540006473 metal binding site [ion binding]; metal-binding site 550540006474 active site 550540006475 I-site; other site 550540006476 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 550540006477 Protein of unknown function (DUF406); Region: DUF406; cl11449 550540006478 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 550540006479 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 550540006480 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 550540006481 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 550540006482 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 550540006483 catalytic residue [active] 550540006484 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 550540006485 Ligand Binding Site [chemical binding]; other site 550540006486 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 550540006487 excinuclease ABC subunit B; Provisional; Region: PRK05298 550540006488 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 550540006489 ATP binding site [chemical binding]; other site 550540006490 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 550540006491 nucleotide binding region [chemical binding]; other site 550540006492 ATP-binding site [chemical binding]; other site 550540006493 Ultra-violet resistance protein B; Region: UvrB; pfam12344 550540006494 UvrB/uvrC motif; Region: UVR; pfam02151 550540006495 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 550540006496 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 550540006497 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540006498 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540006499 active site 550540006500 I-site; other site 550540006501 metal binding site [ion binding]; metal-binding site 550540006502 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 550540006503 electron transport complex protein RsxA; Provisional; Region: PRK05151 550540006504 ferredoxin; Provisional; Region: PRK08764 550540006505 Putative Fe-S cluster; Region: FeS; pfam04060 550540006506 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 550540006507 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 550540006508 SLBB domain; Region: SLBB; pfam10531 550540006509 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 550540006510 NQR2, RnfD, RnfE family; Region: NQR2_RnfD_RnfE; cl00779 550540006511 electron transport complex protein RnfG; Validated; Region: PRK01908 550540006512 electron transport complex RsxE subunit; Provisional; Region: PRK12405 550540006513 endonuclease III; Provisional; Region: PRK10702 550540006514 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 550540006515 minor groove reading motif; other site 550540006516 helix-hairpin-helix signature motif; other site 550540006517 substrate binding pocket [chemical binding]; other site 550540006518 active site 550540006519 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 550540006520 Uncharacterized conserved protein [Function unknown]; Region: COG3603 550540006521 Family description; Region: ACT_7; pfam13840 550540006522 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 550540006523 proposed catalytic triad [active] 550540006524 active site nucleophile [active] 550540006525 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 550540006526 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 550540006527 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 550540006528 Predicted membrane protein [Function unknown]; Region: COG1288; cl17886 550540006529 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 550540006530 isoaspartyl dipeptidase; Provisional; Region: PRK10657 550540006531 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 550540006532 active site 550540006533 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 550540006534 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 550540006535 active site 550540006536 metal binding site [ion binding]; metal-binding site 550540006537 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 550540006538 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 550540006539 Predicted membrane protein [Function unknown]; Region: COG3766 550540006540 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 550540006541 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 550540006542 Protein of unknown function (DUF1190); Region: DUF1190; cl10031 550540006543 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 550540006544 Protein of unknown function (DUF4238); Region: DUF4238; pfam14022 550540006545 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 550540006546 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 550540006547 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 550540006548 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 550540006549 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 550540006550 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 550540006551 trimer interface [polypeptide binding]; other site 550540006552 eyelet of channel; other site 550540006553 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 550540006554 heme-binding residues [chemical binding]; other site 550540006555 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 550540006556 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 550540006557 L-aspartate oxidase; Provisional; Region: PRK06175 550540006558 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540006559 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540006560 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 550540006561 putative dimerization interface [polypeptide binding]; other site 550540006562 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 550540006563 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 550540006564 putative active site [active] 550540006565 putative PHP Thumb interface [polypeptide binding]; other site 550540006566 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 550540006567 generic binding surface I; other site 550540006568 generic binding surface II; other site 550540006569 DNA Polymerase Y-family; Region: PolY_like; cd03468 550540006570 active site 550540006571 DNA binding site [nucleotide binding] 550540006572 Uncharacterized conserved protein [Function unknown]; Region: COG4544 550540006573 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 550540006574 trimer interface [polypeptide binding]; other site 550540006575 active site 550540006576 substrate binding site [chemical binding]; other site 550540006577 CoA binding site [chemical binding]; other site 550540006578 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 550540006579 S-formylglutathione hydrolase; Region: PLN02442 550540006580 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 550540006581 active site 550540006582 DNA binding site [nucleotide binding] 550540006583 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 550540006584 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 550540006585 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 550540006586 putative active site [active] 550540006587 putative dimer interface [polypeptide binding]; other site 550540006588 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 550540006589 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 550540006590 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 550540006591 active site 550540006592 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 550540006593 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 550540006594 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540006595 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 550540006596 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540006597 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 550540006598 S-adenosylmethionine binding site [chemical binding]; other site 550540006599 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 550540006600 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 550540006601 ligand binding site [chemical binding]; other site 550540006602 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 550540006603 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 550540006604 dimer interface [polypeptide binding]; other site 550540006605 catalytic site [active] 550540006606 putative active site [active] 550540006607 putative substrate binding site [chemical binding]; other site 550540006608 peroxidase; Provisional; Region: PRK15000 550540006609 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 550540006610 dimer interface [polypeptide binding]; other site 550540006611 decamer (pentamer of dimers) interface [polypeptide binding]; other site 550540006612 catalytic triad [active] 550540006613 peroxidatic and resolving cysteines [active] 550540006614 Predicted permease [General function prediction only]; Region: COG2056 550540006615 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 550540006616 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 550540006617 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 550540006618 ATP binding site [chemical binding]; other site 550540006619 putative Mg++ binding site [ion binding]; other site 550540006620 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 550540006621 nucleotide binding region [chemical binding]; other site 550540006622 ATP-binding site [chemical binding]; other site 550540006623 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 550540006624 GSH binding site [chemical binding]; other site 550540006625 catalytic residues [active] 550540006626 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 550540006627 Porin subfamily; Region: Porin_2; pfam02530 550540006628 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 550540006629 binding surface 550540006630 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 550540006631 TPR motif; other site 550540006632 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 550540006633 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 550540006634 ligand binding site [chemical binding]; other site 550540006635 translocation protein TolB; Provisional; Region: tolB; PRK04792 550540006636 TolB amino-terminal domain; Region: TolB_N; pfam04052 550540006637 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 550540006638 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 550540006639 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 550540006640 TolA C-terminal; Region: TolA; pfam06519 550540006641 TolA protein; Region: tolA_full; TIGR02794 550540006642 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 550540006643 TolR protein; Region: tolR; TIGR02801 550540006644 TolQ protein; Region: tolQ; TIGR02796 550540006645 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 550540006646 active site 550540006647 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 550540006648 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 550540006649 PilZ domain; Region: PilZ; pfam07238 550540006650 hypothetical protein; Validated; Region: PRK06778 550540006651 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 550540006652 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 550540006653 ligand binding site [chemical binding]; other site 550540006654 flagellar motor stator protein MotA; Region: MotA1; TIGR03818 550540006655 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 550540006656 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 550540006657 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 550540006658 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 550540006659 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 550540006660 DNA binding residues [nucleotide binding] 550540006661 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 550540006662 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 550540006663 Flagellar protein FliS; Region: FliS; cl00654 550540006664 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 550540006665 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 550540006666 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 550540006667 flagellin; Provisional; Region: PRK12802 550540006668 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 550540006669 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 550540006670 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 550540006671 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 550540006672 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 550540006673 S-AdoMet dependent tetrapyrrole methylases; Region: TP_methylase; cl00304 550540006674 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 550540006675 Rod binding protein; Region: Rod-binding; cl01626 550540006676 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 550540006677 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 550540006678 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12407 550540006679 Flagellar L-ring protein; Region: FlgH; pfam02107 550540006680 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 550540006681 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 550540006682 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 550540006683 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 550540006684 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 550540006685 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 550540006686 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 550540006687 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 550540006688 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 550540006689 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 550540006690 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 550540006691 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK09619 550540006692 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 550540006693 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 550540006694 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 550540006695 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 550540006696 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK12685 550540006697 SAF-like; Region: SAF_2; pfam13144 550540006698 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 550540006699 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 550540006700 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 550540006701 FlgN protein; Region: FlgN; pfam05130 550540006702 Pirin-related protein [General function prediction only]; Region: COG1741 550540006703 Pirin; Region: Pirin; pfam02678 550540006704 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 550540006705 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 550540006706 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 550540006707 Walker A motif; other site 550540006708 ATP binding site [chemical binding]; other site 550540006709 Walker B motif; other site 550540006710 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 550540006711 Flagellar assembly protein FliH; Region: FliH; pfam02108 550540006712 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 550540006713 FliG C-terminal domain; Region: FliG_C; pfam01706 550540006714 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 550540006715 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 550540006716 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 550540006717 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 550540006718 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), 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 550540006719 active site 550540006720 dimerization interface [polypeptide binding]; other site 550540006721 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 550540006722 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 550540006723 Walker A motif; other site 550540006724 ATP binding site [chemical binding]; other site 550540006725 Walker B motif; other site 550540006726 arginine finger; other site 550540006727 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 550540006728 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 550540006729 ligand binding site [chemical binding]; other site 550540006730 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 550540006731 flagellar motor switch protein FliM; Region: fliM_switch; TIGR01397 550540006732 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 550540006733 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 550540006734 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 550540006735 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 550540006736 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 550540006737 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 550540006738 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 550540006739 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 550540006740 FHIPEP family; Region: FHIPEP; pfam00771 550540006741 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 550540006742 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 550540006743 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 550540006744 active site 550540006745 CHAD domain; Region: CHAD; pfam05235 550540006746 quinolinate synthetase; Provisional; Region: PRK09375 550540006747 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 550540006748 binding surface 550540006749 TPR motif; other site 550540006750 TPR repeat; Region: TPR_11; pfam13414 550540006751 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 550540006752 binding surface 550540006753 TPR motif; other site 550540006754 Tetratricopeptide repeat; Region: TPR_12; pfam13424 550540006755 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 550540006756 binding surface 550540006757 TPR motif; other site 550540006758 Tetratricopeptide repeat; Region: TPR_12; pfam13424 550540006759 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 550540006760 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 550540006761 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 550540006762 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 550540006763 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 550540006764 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 550540006765 ATP binding site [chemical binding]; other site 550540006766 Walker A motif; other site 550540006767 hexamer interface [polypeptide binding]; other site 550540006768 Walker B motif; other site 550540006769 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 550540006770 AAA domain; Region: AAA_31; pfam13614 550540006771 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 550540006772 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 550540006773 TadE-like protein; Region: TadE; pfam07811 550540006774 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 550540006775 TadE-like protein; Region: TadE; pfam07811 550540006776 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 550540006777 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 550540006778 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 550540006779 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 550540006780 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 550540006781 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 550540006782 Walker A motif; other site 550540006783 ATP binding site [chemical binding]; other site 550540006784 Walker B motif; other site 550540006785 arginine finger; other site 550540006786 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 550540006787 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 550540006788 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 550540006789 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 550540006790 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 550540006791 E3 interaction surface; other site 550540006792 lipoyl attachment site [posttranslational modification]; other site 550540006793 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 550540006794 E3 interaction surface; other site 550540006795 lipoyl attachment site [posttranslational modification]; other site 550540006796 e3 binding domain; Region: E3_binding; pfam02817 550540006797 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 550540006798 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 550540006799 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 550540006800 alpha subunit interface [polypeptide binding]; other site 550540006801 TPP binding site [chemical binding]; other site 550540006802 heterodimer interface [polypeptide binding]; other site 550540006803 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 550540006804 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 550540006805 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 550540006806 tetramer interface [polypeptide binding]; other site 550540006807 TPP-binding site [chemical binding]; other site 550540006808 heterodimer interface [polypeptide binding]; other site 550540006809 phosphorylation loop region [posttranslational modification] 550540006810 succinylglutamate desuccinylase; Provisional; Region: PRK05324 550540006811 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 550540006812 active site 550540006813 Zn binding site [ion binding]; other site 550540006814 methionine sulfoxide reductase A; Provisional; Region: PRK14054 550540006815 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 550540006816 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 550540006817 GTP/Mg2+ binding site [chemical binding]; other site 550540006818 G4 box; other site 550540006819 G5 box; other site 550540006820 G1 box; other site 550540006821 Switch I region; other site 550540006822 G2 box; other site 550540006823 G3 box; other site 550540006824 Switch II region; other site 550540006825 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 550540006826 catalytic triad [active] 550540006827 dimer interface [polypeptide binding]; other site 550540006828 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 550540006829 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 550540006830 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 550540006831 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 550540006832 phosphoglucomutase; Validated; Region: PRK07564 550540006833 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 550540006834 active site 550540006835 substrate binding site [chemical binding]; other site 550540006836 metal binding site [ion binding]; metal-binding site 550540006837 SeqA protein; Region: SeqA; pfam03925 550540006838 PGAP1-like protein; Region: PGAP1; pfam07819 550540006839 acyl-CoA esterase; Provisional; Region: PRK10673 550540006840 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 550540006841 LexA regulated protein; Provisional; Region: PRK11675 550540006842 flavodoxin FldA; Validated; Region: PRK09267 550540006843 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 550540006844 CoenzymeA binding site [chemical binding]; other site 550540006845 subunit interaction site [polypeptide binding]; other site 550540006846 PHB binding site; other site 550540006847 aminotransferase AlaT; Validated; Region: PRK09265 550540006848 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 550540006849 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540006850 homodimer interface [polypeptide binding]; other site 550540006851 catalytic residue [active] 550540006852 5'-nucleotidase; Provisional; Region: PRK03826 550540006853 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 550540006854 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550540006855 Zn2+ binding site [ion binding]; other site 550540006856 Mg2+ binding site [ion binding]; other site 550540006857 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 550540006858 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 550540006859 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 550540006860 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 550540006861 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 550540006862 hypothetical protein; Provisional; Region: PRK11111 550540006863 Uncharacterized conserved protein [Function unknown]; Region: COG3268 550540006864 Shikimate / quinate 5-dehydrogenase; Region: Shikimate_DH; pfam01488 550540006865 Predicted membrane protein [Function unknown]; Region: XynA; COG2314 550540006866 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14253 550540006867 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 550540006868 Walker A/P-loop; other site 550540006869 ATP binding site [chemical binding]; other site 550540006870 Q-loop/lid; other site 550540006871 ABC transporter signature motif; other site 550540006872 Walker B; other site 550540006873 D-loop; other site 550540006874 H-loop/switch region; other site 550540006875 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 550540006876 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 550540006877 dimer interface [polypeptide binding]; other site 550540006878 conserved gate region; other site 550540006879 putative PBP binding loops; other site 550540006880 ABC-ATPase subunit interface; other site 550540006881 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 550540006882 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 550540006883 dimer interface [polypeptide binding]; other site 550540006884 conserved gate region; other site 550540006885 putative PBP binding loops; other site 550540006886 ABC-ATPase subunit interface; other site 550540006887 PBP superfamily domain; Region: PBP_like_2; cl17296 550540006888 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 550540006889 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 550540006890 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 550540006891 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 550540006892 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 550540006893 active site 550540006894 motif I; other site 550540006895 motif II; other site 550540006896 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 550540006897 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 550540006898 Walker A/P-loop; other site 550540006899 ATP binding site [chemical binding]; other site 550540006900 Q-loop/lid; other site 550540006901 ABC transporter signature motif; other site 550540006902 Walker B; other site 550540006903 D-loop; other site 550540006904 H-loop/switch region; other site 550540006905 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 550540006906 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 550540006907 dimer interface [polypeptide binding]; other site 550540006908 conserved gate region; other site 550540006909 ABC-ATPase subunit interface; other site 550540006910 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 550540006911 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 550540006912 Peptidase family M48; Region: Peptidase_M48; cl12018 550540006913 ornithine cyclodeaminase; Validated; Region: PRK06141 550540006914 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 550540006915 proline aminopeptidase P II; Provisional; Region: PRK10879 550540006916 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 550540006917 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 550540006918 active site 550540006919 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 550540006920 active site 550540006921 phosphate binding residues; other site 550540006922 catalytic residues [active] 550540006923 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 550540006924 hydroxyglutarate oxidase; Provisional; Region: PRK11728 550540006925 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 550540006926 Proline racemase; Region: Pro_racemase; pfam05544 550540006927 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 550540006928 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 550540006929 inhibitor site; inhibition site 550540006930 active site 550540006931 dimer interface [polypeptide binding]; other site 550540006932 catalytic residue [active] 550540006933 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 550540006934 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 550540006935 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 550540006936 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 550540006937 dimer interface [polypeptide binding]; other site 550540006938 NADP binding site [chemical binding]; other site 550540006939 catalytic residues [active] 550540006940 Transcriptional regulators [Transcription]; Region: GntR; COG1802 550540006941 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 550540006942 DNA-binding site [nucleotide binding]; DNA binding site 550540006943 FCD domain; Region: FCD; pfam07729 550540006944 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 550540006945 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 550540006946 dimer interface [polypeptide binding]; other site 550540006947 active site 550540006948 CoA binding pocket [chemical binding]; other site 550540006949 HDOD domain; Region: HDOD; pfam08668 550540006950 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl17215 550540006951 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 550540006952 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 550540006953 active site 550540006954 catalytic site [active] 550540006955 substrate binding site [chemical binding]; other site 550540006956 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 550540006957 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 550540006958 ligand binding site [chemical binding]; other site 550540006959 flexible hinge region; other site 550540006960 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 550540006961 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 550540006962 metal binding triad; other site 550540006963 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 550540006964 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 550540006965 Na binding site [ion binding]; other site 550540006966 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 550540006967 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 550540006968 Predicted transcriptional regulator [Transcription]; Region: COG2345 550540006969 Helix-turn-helix domain; Region: HTH_20; pfam12840 550540006970 putative DNA binding site [nucleotide binding]; other site 550540006971 putative Zn2+ binding site [ion binding]; other site 550540006972 Transcriptional regulator PadR-like family; Region: PadR; cl17335 550540006973 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 550540006974 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 550540006975 putative NAD(P) binding site [chemical binding]; other site 550540006976 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 550540006977 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 550540006978 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550540006979 Zn2+ binding site [ion binding]; other site 550540006980 Mg2+ binding site [ion binding]; other site 550540006981 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 550540006982 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 550540006983 nucleotide binding pocket [chemical binding]; other site 550540006984 K-X-D-G motif; other site 550540006985 catalytic site [active] 550540006986 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 550540006987 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 550540006988 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 550540006989 Dimer interface [polypeptide binding]; other site 550540006990 BRCT sequence motif; other site 550540006991 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 550540006992 FtsZ protein binding site [polypeptide binding]; other site 550540006993 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 550540006994 AAA domain; Region: AAA_23; pfam13476 550540006995 Walker A/P-loop; other site 550540006996 ATP binding site [chemical binding]; other site 550540006997 Q-loop/lid; other site 550540006998 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 550540006999 ABC transporter signature motif; other site 550540007000 Walker B; other site 550540007001 D-loop; other site 550540007002 H-loop/switch region; other site 550540007003 putative sulfate transport protein CysZ; Validated; Region: PRK04949 550540007004 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 550540007005 putative ligand binding site [chemical binding]; other site 550540007006 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 550540007007 putative active site pocket [active] 550540007008 dimerization interface [polypeptide binding]; other site 550540007009 putative catalytic residue [active] 550540007010 RDD family; Region: RDD; pfam06271 550540007011 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 550540007012 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 550540007013 dimer interface [polypeptide binding]; other site 550540007014 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540007015 catalytic residue [active] 550540007016 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 550540007017 dimerization interface [polypeptide binding]; other site 550540007018 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 550540007019 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550540007020 dimer interface [polypeptide binding]; other site 550540007021 putative CheW interface [polypeptide binding]; other site 550540007022 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 550540007023 dimerization domain swap beta strand [polypeptide binding]; other site 550540007024 regulatory protein interface [polypeptide binding]; other site 550540007025 active site 550540007026 regulatory phosphorylation site [posttranslational modification]; other site 550540007027 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 550540007028 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 550540007029 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 550540007030 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 550540007031 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 550540007032 HPr interaction site; other site 550540007033 glycerol kinase (GK) interaction site [polypeptide binding]; other site 550540007034 active site 550540007035 phosphorylation site [posttranslational modification] 550540007036 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 550540007037 This CD (MopB_DmsA-EC) includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_DmsA-EC; cd02770 550540007038 putative [Fe4-S4] binding site [ion binding]; other site 550540007039 putative molybdopterin cofactor binding site [chemical binding]; other site 550540007040 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 550540007041 putative molybdopterin cofactor binding site; other site 550540007042 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 550540007043 4Fe-4S binding domain; Region: Fer4; pfam00037 550540007044 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 550540007045 hybrid sensory histidine kinase TorS; Provisional; Region: PRK11466 550540007046 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 550540007047 dimer interface [polypeptide binding]; other site 550540007048 phosphorylation site [posttranslational modification] 550540007049 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 550540007050 ATP binding site [chemical binding]; other site 550540007051 Mg2+ binding site [ion binding]; other site 550540007052 G-X-G motif; other site 550540007053 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540007054 active site 550540007055 phosphorylation site [posttranslational modification] 550540007056 intermolecular recognition site; other site 550540007057 dimerization interface [polypeptide binding]; other site 550540007058 TMAO reductase system periplasmic protein TorT; Region: TMAO_TorT; TIGR02955 550540007059 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 550540007060 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 550540007061 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540007062 active site 550540007063 phosphorylation site [posttranslational modification] 550540007064 intermolecular recognition site; other site 550540007065 dimerization interface [polypeptide binding]; other site 550540007066 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 550540007067 DNA binding site [nucleotide binding] 550540007068 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 550540007069 Ligand Binding Site [chemical binding]; other site 550540007070 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 550540007071 ArsC family; Region: ArsC; pfam03960 550540007072 putative catalytic residues [active] 550540007073 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 550540007074 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 550540007075 metal binding site [ion binding]; metal-binding site 550540007076 dimer interface [polypeptide binding]; other site 550540007077 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 550540007078 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 550540007079 Isochorismatase family; Region: Isochorismatase; pfam00857 550540007080 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 550540007081 catalytic triad [active] 550540007082 dimer interface [polypeptide binding]; other site 550540007083 conserved cis-peptide bond; other site 550540007084 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 550540007085 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550540007086 dimer interface [polypeptide binding]; other site 550540007087 putative CheW interface [polypeptide binding]; other site 550540007088 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 550540007089 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; cd00531 550540007090 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540007091 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540007092 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 550540007093 putative effector binding pocket; other site 550540007094 dimerization interface [polypeptide binding]; other site 550540007095 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 550540007096 elongation factor P; Provisional; Region: PRK04542 550540007097 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 550540007098 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 550540007099 RNA binding site [nucleotide binding]; other site 550540007100 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 550540007101 RNA binding site [nucleotide binding]; other site 550540007102 Cupin domain; Region: Cupin_2; cl17218 550540007103 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 550540007104 Arsenical Resistance Operon Repressor and similar prokaryotic, metal regulated homodimeric repressors. ARSR subfamily of helix-turn-helix bacterial transcription regulatory proteins (winged helix topology). Includes several proteins that appear to...; Region: HTH_ARSR; cl17220 550540007105 putative DNA binding site [nucleotide binding]; other site 550540007106 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 550540007107 putative Zn2+ binding site [ion binding]; other site 550540007108 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550540007109 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 550540007110 FAD binding domain; Region: FAD_binding_4; pfam01565 550540007111 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 550540007112 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 550540007113 uncharacterized ygcE-like proteins; Region: FGGY_ygcE_like; cd07779 550540007114 putative N- and C-terminal domain interface [polypeptide binding]; other site 550540007115 putative active site [active] 550540007116 MgATP binding site [chemical binding]; other site 550540007117 catalytic site [active] 550540007118 metal binding site [ion binding]; metal-binding site 550540007119 putative carbohydrate binding site [chemical binding]; other site 550540007120 Phospholipase A1; Region: PLA1; pfam02253 550540007121 dimerization interface [polypeptide binding]; other site 550540007122 substrate binding site [chemical binding]; other site 550540007123 active site 550540007124 calcium binding site [ion binding]; other site 550540007125 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 550540007126 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 550540007127 Zn binding site [ion binding]; other site 550540007128 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 550540007129 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 550540007130 ATP binding site [chemical binding]; other site 550540007131 putative Mg++ binding site [ion binding]; other site 550540007132 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 550540007133 nucleotide binding region [chemical binding]; other site 550540007134 ATP-binding site [chemical binding]; other site 550540007135 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 550540007136 active site 550540007137 catalytic triad [active] 550540007138 oxyanion hole [active] 550540007139 aspartoacylase; Provisional; Region: PRK02259 550540007140 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 550540007141 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 550540007142 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 550540007143 Protein of unknown function, DUF482; Region: DUF482; pfam04339 550540007144 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 550540007145 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 550540007146 S-adenosylmethionine binding site [chemical binding]; other site 550540007147 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 550540007148 ACT domain; Region: ACT_6; pfam13740 550540007149 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 550540007150 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 550540007151 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 550540007152 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 550540007153 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 550540007154 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 550540007155 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 550540007156 molybdopterin cofactor binding site; other site 550540007157 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 550540007158 molybdopterin cofactor binding site; other site 550540007159 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 550540007160 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 550540007161 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 550540007162 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 550540007163 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 550540007164 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550540007165 Domain of unknown function (DUF368); Region: DUF368; pfam04018 550540007166 Ribbon-helix-helix domain; Region: RHH_3; pfam12651 550540007167 ParA-like protein; Provisional; Region: PHA02518 550540007168 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 550540007169 P-loop; other site 550540007170 Magnesium ion binding site [ion binding]; other site 550540007171 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 550540007172 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 550540007173 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 550540007174 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 550540007175 CoA binding domain; Region: CoA_binding; pfam02629 550540007176 CoA-ligase; Region: Ligase_CoA; pfam00549 550540007177 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 550540007178 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 550540007179 CoA-ligase; Region: Ligase_CoA; pfam00549 550540007180 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 550540007181 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 550540007182 E3 interaction surface; other site 550540007183 lipoyl attachment site [posttranslational modification]; other site 550540007184 e3 binding domain; Region: E3_binding; pfam02817 550540007185 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 550540007186 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 550540007187 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 550540007188 TPP-binding site [chemical binding]; other site 550540007189 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 550540007190 dimer interface [polypeptide binding]; other site 550540007191 PYR/PP interface [polypeptide binding]; other site 550540007192 TPP binding site [chemical binding]; other site 550540007193 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 550540007194 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 550540007195 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 550540007196 L-aspartate oxidase; Provisional; Region: PRK06175 550540007197 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 550540007198 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 550540007199 cardiolipin binding site; other site 550540007200 SdhC subunit interface [polypeptide binding]; other site 550540007201 proximal heme binding site [chemical binding]; other site 550540007202 Iron-sulfur protein interface; other site 550540007203 proximal quinone binding site [chemical binding]; other site 550540007204 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 550540007205 Iron-sulfur protein interface; other site 550540007206 proximal quinone binding site [chemical binding]; other site 550540007207 SdhD (CybS) interface [polypeptide binding]; other site 550540007208 proximal heme binding site [chemical binding]; other site 550540007209 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 550540007210 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 550540007211 dimer interface [polypeptide binding]; other site 550540007212 active site 550540007213 citrylCoA binding site [chemical binding]; other site 550540007214 NADH binding [chemical binding]; other site 550540007215 cationic pore residues; other site 550540007216 oxalacetate/citrate binding site [chemical binding]; other site 550540007217 coenzyme A binding site [chemical binding]; other site 550540007218 catalytic triad [active] 550540007219 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 550540007220 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540007221 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540007222 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 550540007223 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 550540007224 Protein export membrane protein; Region: SecD_SecF; cl14618 550540007225 Protein export membrane protein; Region: SecD_SecF; cl14618 550540007226 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 550540007227 N-terminal Early set domain associated with the catalytic domain of chitinase; Region: E_set_Chitinase_N; cd02848 550540007228 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 550540007229 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 550540007230 active site 550540007231 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 550540007232 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 550540007233 aromatic chitin/cellulose binding site residues [chemical binding]; other site 550540007234 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 550540007235 aromatic chitin/cellulose binding site residues [chemical binding]; other site 550540007236 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 550540007237 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 550540007238 Ligand binding site; other site 550540007239 oligomer interface; other site 550540007240 Uncharacterized conserved protein [Function unknown]; Region: COG2835 550540007241 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 550540007242 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 550540007243 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 550540007244 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 550540007245 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540007246 Walker A/P-loop; other site 550540007247 ATP binding site [chemical binding]; other site 550540007248 Q-loop/lid; other site 550540007249 ABC transporter signature motif; other site 550540007250 Walker B; other site 550540007251 D-loop; other site 550540007252 H-loop/switch region; other site 550540007253 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 550540007254 ComEC family competence protein; Provisional; Region: PRK11539 550540007255 Competence protein; Region: Competence; pfam03772 550540007256 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 550540007257 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 550540007258 maltose O-acetyltransferase; Provisional; Region: PRK10092 550540007259 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 550540007260 active site 550540007261 substrate binding site [chemical binding]; other site 550540007262 trimer interface [polypeptide binding]; other site 550540007263 CoA binding site [chemical binding]; other site 550540007264 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 550540007265 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 550540007266 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 550540007267 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550540007268 Coenzyme A binding pocket [chemical binding]; other site 550540007269 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 550540007270 FtsX-like permease family; Region: FtsX; pfam02687 550540007271 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 550540007272 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 550540007273 Walker A/P-loop; other site 550540007274 ATP binding site [chemical binding]; other site 550540007275 Q-loop/lid; other site 550540007276 ABC transporter signature motif; other site 550540007277 Walker B; other site 550540007278 D-loop; other site 550540007279 H-loop/switch region; other site 550540007280 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 550540007281 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 550540007282 FtsX-like permease family; Region: FtsX; pfam02687 550540007283 PilZ domain; Region: PilZ; pfam07238 550540007284 transcription-repair coupling factor; Provisional; Region: PRK10689 550540007285 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 550540007286 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 550540007287 ATP binding site [chemical binding]; other site 550540007288 putative Mg++ binding site [ion binding]; other site 550540007289 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 550540007290 nucleotide binding region [chemical binding]; other site 550540007291 ATP-binding site [chemical binding]; other site 550540007292 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 550540007293 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 550540007294 Acylphosphatase; Region: Acylphosphatase; cl00551 550540007295 hypothetical protein; Provisional; Region: PRK04940 550540007296 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 550540007297 beta-hexosaminidase; Provisional; Region: PRK05337 550540007298 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 550540007299 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 550540007300 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 550540007301 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 550540007302 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540007303 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 550540007304 substrate binding site [chemical binding]; other site 550540007305 dimerization interface [polypeptide binding]; other site 550540007306 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 550540007307 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 550540007308 active site 550540007309 catalytic residues [active] 550540007310 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 550540007311 PA/protease or protease-like domain interface [polypeptide binding]; other site 550540007312 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 550540007313 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 550540007314 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 550540007315 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 550540007316 active site 550540007317 interdomain interaction site; other site 550540007318 putative metal-binding site [ion binding]; other site 550540007319 nucleotide binding site [chemical binding]; other site 550540007320 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 550540007321 domain I; other site 550540007322 DNA binding groove [nucleotide binding] 550540007323 phosphate binding site [ion binding]; other site 550540007324 domain II; other site 550540007325 domain III; other site 550540007326 nucleotide binding site [chemical binding]; other site 550540007327 catalytic site [active] 550540007328 domain IV; other site 550540007329 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 550540007330 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 550540007331 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 550540007332 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 550540007333 succinylarginine dihydrolase; Provisional; Region: PRK13281 550540007334 Tetratricopeptide repeat; Region: TPR_12; pfam13424 550540007335 CHAT domain; Region: CHAT; pfam12770 550540007336 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 550540007337 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 550540007338 ligand binding site [chemical binding]; other site 550540007339 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 550540007340 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 550540007341 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 550540007342 putative inner membrane peptidase; Provisional; Region: PRK11778 550540007343 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 550540007344 tandem repeat interface [polypeptide binding]; other site 550540007345 oligomer interface [polypeptide binding]; other site 550540007346 active site residues [active] 550540007347 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 550540007348 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 550540007349 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 550540007350 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550540007351 NAD(P) binding site [chemical binding]; other site 550540007352 active site 550540007353 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 550540007354 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 550540007355 RNA binding surface [nucleotide binding]; other site 550540007356 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 550540007357 probable active site [active] 550540007358 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 550540007359 ScpA/B protein; Region: ScpA_ScpB; cl00598 550540007360 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 550540007361 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 550540007362 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 550540007363 active site 550540007364 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 550540007365 3-deoxy-7-phosphoheptulonate synthase; Reviewed; Region: PRK08673 550540007366 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 550540007367 anthranilate synthase component I; Provisional; Region: PRK13564 550540007368 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 550540007369 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 550540007370 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 550540007371 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 550540007372 glutamine binding [chemical binding]; other site 550540007373 catalytic triad [active] 550540007374 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 550540007375 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 550540007376 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 550540007377 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 550540007378 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 550540007379 active site 550540007380 ribulose/triose binding site [chemical binding]; other site 550540007381 phosphate binding site [ion binding]; other site 550540007382 substrate (anthranilate) binding pocket [chemical binding]; other site 550540007383 product (indole) binding pocket [chemical binding]; other site 550540007384 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 550540007385 active site 550540007386 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 550540007387 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 550540007388 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540007389 catalytic residue [active] 550540007390 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 550540007391 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 550540007392 substrate binding site [chemical binding]; other site 550540007393 active site 550540007394 catalytic residues [active] 550540007395 heterodimer interface [polypeptide binding]; other site 550540007396 intracellular septation protein A; Reviewed; Region: PRK00259 550540007397 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 550540007398 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 550540007399 putative substrate translocation pore; other site 550540007400 YciI-like protein; Reviewed; Region: PRK11370 550540007401 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 550540007402 putative catalytic site [active] 550540007403 putative phosphate binding site [ion binding]; other site 550540007404 active site 550540007405 metal binding site A [ion binding]; metal-binding site 550540007406 DNA binding site [nucleotide binding] 550540007407 putative AP binding site [nucleotide binding]; other site 550540007408 putative metal binding site B [ion binding]; other site 550540007409 MarR family; Region: MarR_2; cl17246 550540007410 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 550540007411 Na binding site [ion binding]; other site 550540007412 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 550540007413 Pyruvate formate lyase 1; Region: PFL1; cd01678 550540007414 coenzyme A binding site [chemical binding]; other site 550540007415 active site 550540007416 catalytic residues [active] 550540007417 glycine loop; other site 550540007418 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 550540007419 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 550540007420 FeS/SAM binding site; other site 550540007421 Predicted membrane protein [Function unknown]; Region: COG3235 550540007422 Protein of unknown function, DUF412; Region: DUF412; cl01183 550540007423 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 550540007424 propionate/acetate kinase; Provisional; Region: PRK12379 550540007425 phosphate acetyltransferase; Reviewed; Region: PRK05632 550540007426 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 550540007427 DRTGG domain; Region: DRTGG; pfam07085 550540007428 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 550540007429 FOG: CBS domain [General function prediction only]; Region: COG0517 550540007430 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_17; cd04630 550540007431 Nitrogen regulatory protein P-II; Region: P-II; smart00938 550540007432 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 550540007433 Domain of unknown function (DUF1992); Region: DUF1992; cl08096 550540007434 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 550540007435 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 550540007436 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 550540007437 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 550540007438 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 550540007439 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 550540007440 S-adenosylmethionine binding site [chemical binding]; other site 550540007441 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 550540007442 Domain of unknown function DUF20; Region: UPF0118; pfam01594 550540007443 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 550540007444 homooctamer interface [polypeptide binding]; other site 550540007445 active site 550540007446 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550540007447 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 550540007448 NAD(P) binding site [chemical binding]; other site 550540007449 active site 550540007450 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 550540007451 FtsX-like permease family; Region: FtsX; pfam02687 550540007452 FtsX-like permease family; Region: FtsX; pfam02687 550540007453 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 550540007454 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 550540007455 Walker A/P-loop; other site 550540007456 ATP binding site [chemical binding]; other site 550540007457 Q-loop/lid; other site 550540007458 ABC transporter signature motif; other site 550540007459 Walker B; other site 550540007460 D-loop; other site 550540007461 H-loop/switch region; other site 550540007462 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 550540007463 active site 550540007464 catalytic triad [active] 550540007465 oxyanion hole [active] 550540007466 switch loop; other site 550540007467 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 550540007468 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 550540007469 active site 550540007470 HIGH motif; other site 550540007471 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 550540007472 active site 550540007473 KMSKS motif; other site 550540007474 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 550540007475 Major Facilitator Superfamily; Region: MFS_1; pfam07690 550540007476 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540007477 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540007478 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 550540007479 dimerization interface [polypeptide binding]; other site 550540007480 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 550540007481 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 550540007482 maleylacetoacetate isomerase; Region: maiA; TIGR01262 550540007483 C-terminal domain interface [polypeptide binding]; other site 550540007484 GSH binding site (G-site) [chemical binding]; other site 550540007485 putative dimer interface [polypeptide binding]; other site 550540007486 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 550540007487 dimer interface [polypeptide binding]; other site 550540007488 N-terminal domain interface [polypeptide binding]; other site 550540007489 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 550540007490 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 550540007491 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 550540007492 dimer interface [polypeptide binding]; other site 550540007493 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 550540007494 active site 550540007495 Fe binding site [ion binding]; other site 550540007496 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 550540007497 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 550540007498 putative aromatic amino acid binding site; other site 550540007499 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 550540007500 putative active site [active] 550540007501 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 550540007502 Walker A motif; other site 550540007503 ATP binding site [chemical binding]; other site 550540007504 Walker B motif; other site 550540007505 arginine finger; other site 550540007506 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 550540007507 aromatic arch; other site 550540007508 DCoH dimer interaction site [polypeptide binding]; other site 550540007509 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 550540007510 DCoH tetramer interaction site [polypeptide binding]; other site 550540007511 substrate binding site [chemical binding]; other site 550540007512 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 550540007513 cofactor binding site; other site 550540007514 metal binding site [ion binding]; metal-binding site 550540007515 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 550540007516 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 550540007517 homodimer interface [polypeptide binding]; other site 550540007518 substrate-cofactor binding pocket; other site 550540007519 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540007520 catalytic residue [active] 550540007521 hypothetical protein; Provisional; Region: PRK05415 550540007522 Domain of unknown function (DUF697); Region: DUF697; pfam05128 550540007523 YcjX-like family, DUF463; Region: DUF463; pfam04317 550540007524 PspC domain; Region: PspC; cl00864 550540007525 phage shock protein C; Region: phageshock_pspC; TIGR02978 550540007526 phage shock protein B; Provisional; Region: pspB; PRK09458 550540007527 phage shock protein A; Region: phageshock_pspA; TIGR02977 550540007528 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 550540007529 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 550540007530 Walker A motif; other site 550540007531 ATP binding site [chemical binding]; other site 550540007532 Walker B motif; other site 550540007533 arginine finger; other site 550540007534 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 550540007535 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 550540007536 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 550540007537 peptide binding site [polypeptide binding]; other site 550540007538 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 550540007539 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 550540007540 dimer interface [polypeptide binding]; other site 550540007541 conserved gate region; other site 550540007542 putative PBP binding loops; other site 550540007543 ABC-ATPase subunit interface; other site 550540007544 antimicrobial peptide ABC transporter permease SapC; Provisional; Region: PRK15111 550540007545 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 550540007546 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 550540007547 dimer interface [polypeptide binding]; other site 550540007548 ABC-ATPase subunit interface; other site 550540007549 putative PBP binding loops; other site 550540007550 antimicrobial peptide ABC transporter ATP-binding protein; Provisional; Region: PRK15093 550540007551 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 550540007552 Walker A/P-loop; other site 550540007553 ATP binding site [chemical binding]; other site 550540007554 Q-loop/lid; other site 550540007555 ABC transporter signature motif; other site 550540007556 Walker B; other site 550540007557 D-loop; other site 550540007558 H-loop/switch region; other site 550540007559 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 550540007560 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 550540007561 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 550540007562 Walker A/P-loop; other site 550540007563 ATP binding site [chemical binding]; other site 550540007564 Q-loop/lid; other site 550540007565 ABC transporter signature motif; other site 550540007566 Walker B; other site 550540007567 D-loop; other site 550540007568 H-loop/switch region; other site 550540007569 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 550540007570 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 550540007571 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 550540007572 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 550540007573 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 550540007574 periplasmic folding chaperone; Provisional; Region: PRK10788 550540007575 SurA N-terminal domain; Region: SurA_N_3; cl07813 550540007576 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 550540007577 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 550540007578 IHF dimer interface [polypeptide binding]; other site 550540007579 IHF - DNA interface [nucleotide binding]; other site 550540007580 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 550540007581 Found in ATP-dependent protease La (LON); Region: LON; smart00464 550540007582 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 550540007583 Walker A motif; other site 550540007584 ATP binding site [chemical binding]; other site 550540007585 Walker B motif; other site 550540007586 arginine finger; other site 550540007587 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 550540007588 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 550540007589 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 550540007590 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 550540007591 Walker A motif; other site 550540007592 ATP binding site [chemical binding]; other site 550540007593 Walker B motif; other site 550540007594 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 550540007595 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 550540007596 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 550540007597 oligomer interface [polypeptide binding]; other site 550540007598 active site residues [active] 550540007599 trigger factor; Provisional; Region: tig; PRK01490 550540007600 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 550540007601 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 550540007602 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 550540007603 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 550540007604 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 550540007605 homodimer interface [polypeptide binding]; other site 550540007606 NADP binding site [chemical binding]; other site 550540007607 substrate binding site [chemical binding]; other site 550540007608 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 550540007609 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 550540007610 active site 550540007611 HIGH motif; other site 550540007612 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 550540007613 KMSKS motif; other site 550540007614 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 550540007615 tRNA binding surface [nucleotide binding]; other site 550540007616 anticodon binding site; other site 550540007617 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 550540007618 substrate binding site [chemical binding]; other site 550540007619 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 550540007620 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 550540007621 putative active site [active] 550540007622 putative metal binding site [ion binding]; other site 550540007623 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 550540007624 active site 550540007625 dinuclear metal binding site [ion binding]; other site 550540007626 dimerization interface [polypeptide binding]; other site 550540007627 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 550540007628 amidophosphoribosyltransferase; Provisional; Region: PRK09246 550540007629 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 550540007630 active site 550540007631 tetramer interface [polypeptide binding]; other site 550540007632 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 550540007633 active site 550540007634 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 550540007635 Colicin V production protein; Region: Colicin_V; cl00567 550540007636 cell division protein DedD; Provisional; Region: PRK11633 550540007637 Sporulation related domain; Region: SPOR; pfam05036 550540007638 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 550540007639 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 550540007640 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 550540007641 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 550540007642 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 550540007643 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 550540007644 dimerization interface 3.5A [polypeptide binding]; other site 550540007645 active site 550540007646 FimV N-terminal domain; Region: FimV_core; TIGR03505 550540007647 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 550540007648 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 550540007649 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 550540007650 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 550540007651 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 550540007652 ligand binding site [chemical binding]; other site 550540007653 NAD binding site [chemical binding]; other site 550540007654 catalytic site [active] 550540007655 homodimer interface [polypeptide binding]; other site 550540007656 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 550540007657 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 550540007658 dimer interface [polypeptide binding]; other site 550540007659 active site 550540007660 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 550540007661 Uncharacterized conserved protein [Function unknown]; Region: COG4121 550540007662 YfcL protein; Region: YfcL; pfam08891 550540007663 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 550540007664 ATP-NAD kinase; Region: NAD_kinase; pfam01513 550540007665 Protein of unknown function, DUF462; Region: DUF462; pfam04315 550540007666 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 550540007667 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 550540007668 putative substrate translocation pore; other site 550540007669 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 550540007670 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 550540007671 Tetramer interface [polypeptide binding]; other site 550540007672 active site 550540007673 FMN-binding site [chemical binding]; other site 550540007674 HemK family putative methylases; Region: hemK_fam; TIGR00536 550540007675 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 550540007676 S-adenosylmethionine binding site [chemical binding]; other site 550540007677 hypothetical protein; Provisional; Region: PRK04946 550540007678 Smr domain; Region: Smr; pfam01713 550540007679 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 550540007680 catalytic core [active] 550540007681 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 550540007682 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 550540007683 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 550540007684 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 550540007685 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 550540007686 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 550540007687 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 550540007688 PAS domain; Region: PAS_9; pfam13426 550540007689 putative active site [active] 550540007690 heme pocket [chemical binding]; other site 550540007691 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540007692 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540007693 metal binding site [ion binding]; metal-binding site 550540007694 active site 550540007695 I-site; other site 550540007696 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 550540007697 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 550540007698 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 550540007699 substrate binding site [chemical binding]; other site 550540007700 oxyanion hole (OAH) forming residues; other site 550540007701 trimer interface [polypeptide binding]; other site 550540007702 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 550540007703 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 550540007704 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 550540007705 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 550540007706 dimer interface [polypeptide binding]; other site 550540007707 active site 550540007708 MoxR-like ATPases [General function prediction only]; Region: COG0714 550540007709 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 550540007710 Walker A motif; other site 550540007711 ATP binding site [chemical binding]; other site 550540007712 Walker B motif; other site 550540007713 arginine finger; other site 550540007714 Protein of unknown function DUF58; Region: DUF58; pfam01882 550540007715 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 550540007716 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 550540007717 metal ion-dependent adhesion site (MIDAS); other site 550540007718 von Willebrand factor type A domain; Region: VWA_2; pfam13519 550540007719 metal ion-dependent adhesion site (MIDAS); other site 550540007720 Tetratricopeptide repeats; Region: TPR; smart00028 550540007721 TPR repeat; Region: TPR_11; pfam13414 550540007722 Oxygen tolerance; Region: BatD; pfam13584 550540007723 RNA polymerase sigma factor; Provisional; Region: PRK12517 550540007724 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 550540007725 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 550540007726 DNA binding residues [nucleotide binding] 550540007727 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 550540007728 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 550540007729 Coenzyme A binding pocket [chemical binding]; other site 550540007730 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 550540007731 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 550540007732 Na binding site [ion binding]; other site 550540007733 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 550540007734 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 550540007735 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 550540007736 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 550540007737 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 550540007738 active site residue [active] 550540007739 hypothetical protein; Provisional; Region: PRK10279 550540007740 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 550540007741 active site 550540007742 nucleophile elbow; other site 550540007743 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 550540007744 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 550540007745 Sulfate transporter family; Region: Sulfate_transp; pfam00916 550540007746 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 550540007747 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 550540007748 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 550540007749 conserved cys residue [active] 550540007750 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550540007751 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550540007752 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 550540007753 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 550540007754 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 550540007755 transmembrane helices; other site 550540007756 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 550540007757 TrkA-C domain; Region: TrkA_C; pfam02080 550540007758 TrkA-C domain; Region: TrkA_C; pfam02080 550540007759 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 550540007760 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 550540007761 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 550540007762 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08871 550540007763 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 550540007764 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 550540007765 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 550540007766 Rod binding protein; Region: Rod-binding; cl01626 550540007767 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 550540007768 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 550540007769 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 550540007770 Flagellar L-ring protein; Region: FlgH; pfam02107 550540007771 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 550540007772 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 550540007773 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 550540007774 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 550540007775 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 550540007776 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 550540007777 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 550540007778 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 550540007779 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 550540007780 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 550540007781 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 550540007782 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 550540007783 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 550540007784 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 550540007785 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12625 550540007786 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 550540007787 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 550540007788 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 550540007789 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 550540007790 S-adenosylmethionine binding site [chemical binding]; other site 550540007791 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 550540007792 Response regulator receiver domain; Region: Response_reg; pfam00072 550540007793 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540007794 active site 550540007795 phosphorylation site [posttranslational modification] 550540007796 intermolecular recognition site; other site 550540007797 dimerization interface [polypeptide binding]; other site 550540007798 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 550540007799 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 550540007800 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 550540007801 FlgN protein; Region: FlgN; pfam05130 550540007802 LPP20 lipoprotein; Region: LPP20; cl15824 550540007803 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 550540007804 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 550540007805 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550540007806 dimer interface [polypeptide binding]; other site 550540007807 putative CheW interface [polypeptide binding]; other site 550540007808 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 550540007809 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 550540007810 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550540007811 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 550540007812 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 550540007813 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540007814 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540007815 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 550540007816 Protein of unknown function (DUF465); Region: DUF465; cl01070 550540007817 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 550540007818 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 550540007819 dimerization interface [polypeptide binding]; other site 550540007820 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 550540007821 dimer interface [polypeptide binding]; other site 550540007822 phosphorylation site [posttranslational modification] 550540007823 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 550540007824 ATP binding site [chemical binding]; other site 550540007825 Mg2+ binding site [ion binding]; other site 550540007826 G-X-G motif; other site 550540007827 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 550540007828 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540007829 active site 550540007830 phosphorylation site [posttranslational modification] 550540007831 intermolecular recognition site; other site 550540007832 dimerization interface [polypeptide binding]; other site 550540007833 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 550540007834 Walker A motif; other site 550540007835 ATP binding site [chemical binding]; other site 550540007836 Walker B motif; other site 550540007837 arginine finger; other site 550540007838 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 550540007839 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 550540007840 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; cl00208 550540007841 CAS motifs; other site 550540007842 active site 550540007843 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 550540007844 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 550540007845 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 550540007846 Cache domain; Region: Cache_1; pfam02743 550540007847 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 550540007848 dimerization interface [polypeptide binding]; other site 550540007849 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 550540007850 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550540007851 dimer interface [polypeptide binding]; other site 550540007852 putative CheW interface [polypeptide binding]; other site 550540007853 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 550540007854 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550540007855 dimer interface [polypeptide binding]; other site 550540007856 putative CheW interface [polypeptide binding]; other site 550540007857 Membrane bound YbgT-like protein; Region: YbgT_YccB; pfam08173 550540007858 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 550540007859 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 550540007860 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 550540007861 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 550540007862 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 550540007863 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 550540007864 active site 550540007865 Zn binding site [ion binding]; other site 550540007866 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 550540007867 active site 550540007868 catalytic triad [active] 550540007869 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 550540007870 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 550540007871 DNA methylase; Region: N6_N4_Mtase; cl17433 550540007872 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 550540007873 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 550540007874 dimerization interface [polypeptide binding]; other site 550540007875 ATP binding site [chemical binding]; other site 550540007876 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 550540007877 dimerization interface [polypeptide binding]; other site 550540007878 ATP binding site [chemical binding]; other site 550540007879 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 550540007880 putative active site [active] 550540007881 catalytic triad [active] 550540007882 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 550540007883 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 550540007884 substrate binding pocket [chemical binding]; other site 550540007885 membrane-bound complex binding site; other site 550540007886 hinge residues; other site 550540007887 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 550540007888 N-acetyl-D-glucosamine binding site [chemical binding]; other site 550540007889 catalytic residue [active] 550540007890 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 550540007891 nucleoside/Zn binding site; other site 550540007892 dimer interface [polypeptide binding]; other site 550540007893 catalytic motif [active] 550540007894 LPP20 lipoprotein; Region: LPP20; pfam02169 550540007895 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 550540007896 N-acetyl-D-glucosamine binding site [chemical binding]; other site 550540007897 catalytic residue [active] 550540007898 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 550540007899 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540007900 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 550540007901 dimerization interface [polypeptide binding]; other site 550540007902 putative transporter; Provisional; Region: PRK11043 550540007903 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 550540007904 putative substrate translocation pore; other site 550540007905 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 550540007906 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 550540007907 FAD binding pocket [chemical binding]; other site 550540007908 FAD binding motif [chemical binding]; other site 550540007909 phosphate binding motif [ion binding]; other site 550540007910 beta-alpha-beta structure motif; other site 550540007911 NAD binding pocket [chemical binding]; other site 550540007912 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 550540007913 catalytic loop [active] 550540007914 iron binding site [ion binding]; other site 550540007915 hybrid cluster protein; Provisional; Region: PRK05290 550540007916 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 550540007917 ACS interaction site; other site 550540007918 CODH interaction site; other site 550540007919 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 550540007920 ACS interaction site; other site 550540007921 CODH interaction site; other site 550540007922 metal cluster binding site [ion binding]; other site 550540007923 Transcriptional regulators [Transcription]; Region: PurR; COG1609 550540007924 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 550540007925 DNA binding site [nucleotide binding] 550540007926 domain linker motif; other site 550540007927 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 550540007928 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 550540007929 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 550540007930 substrate binding site [chemical binding]; other site 550540007931 dimer interface [polypeptide binding]; other site 550540007932 ATP binding site [chemical binding]; other site 550540007933 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 550540007934 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 550540007935 ligand binding site [chemical binding]; other site 550540007936 dimerization interface [polypeptide binding]; other site 550540007937 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 550540007938 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 550540007939 TM-ABC transporter signature motif; other site 550540007940 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 550540007941 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 550540007942 Walker A/P-loop; other site 550540007943 ATP binding site [chemical binding]; other site 550540007944 Q-loop/lid; other site 550540007945 ABC transporter signature motif; other site 550540007946 Walker B; other site 550540007947 D-loop; other site 550540007948 H-loop/switch region; other site 550540007949 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 550540007950 D-ribose pyranase; Provisional; Region: PRK11797 550540007951 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 550540007952 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 550540007953 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 550540007954 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 550540007955 CoB--CoM heterodisulfide reductase, subunit B; Region: CoB_CoM_SS_B; TIGR03288 550540007956 Cysteine-rich domain; Region: CCG; pfam02754 550540007957 Cysteine-rich domain; Region: CCG; pfam02754 550540007958 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 550540007959 FAD binding domain; Region: FAD_binding_4; pfam01565 550540007960 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 550540007961 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 550540007962 L-lactate permease; Region: Lactate_perm; cl00701 550540007963 LrgB-like family; Region: LrgB; pfam04172 550540007964 LrgA family; Region: LrgA; pfam03788 550540007965 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 550540007966 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 550540007967 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 550540007968 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 550540007969 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 550540007970 active site 550540007971 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 550540007972 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 550540007973 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 550540007974 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 550540007975 active site 550540007976 catalytic triad [active] 550540007977 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 550540007978 PA/protease or protease-like domain interface [polypeptide binding]; other site 550540007979 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 550540007980 catalytic residues [active] 550540007981 4Fe-4S binding domain; Region: Fer4_5; pfam12801 550540007982 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 550540007983 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 550540007984 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 550540007985 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 550540007986 N-terminal plug; other site 550540007987 ligand-binding site [chemical binding]; other site 550540007988 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 550540007989 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 550540007990 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 550540007991 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 550540007992 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 550540007993 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 550540007994 motif II; other site 550540007995 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 550540007996 Uncharacterized conserved protein [Function unknown]; Region: COG1284 550540007997 GMP synthase; Reviewed; Region: guaA; PRK00074 550540007998 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 550540007999 AMP/PPi binding site [chemical binding]; other site 550540008000 candidate oxyanion hole; other site 550540008001 catalytic triad [active] 550540008002 potential glutamine specificity residues [chemical binding]; other site 550540008003 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 550540008004 ATP Binding subdomain [chemical binding]; other site 550540008005 Ligand Binding sites [chemical binding]; other site 550540008006 Dimerization subdomain; other site 550540008007 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 550540008008 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 550540008009 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 550540008010 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 550540008011 active site 550540008012 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 550540008013 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 550540008014 generic binding surface II; other site 550540008015 generic binding surface I; other site 550540008016 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 550540008017 FAD binding domain; Region: FAD_binding_4; pfam01565 550540008018 Berberine and berberine like; Region: BBE; pfam08031 550540008019 PAS domain; Region: PAS_9; pfam13426 550540008020 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540008021 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540008022 metal binding site [ion binding]; metal-binding site 550540008023 active site 550540008024 I-site; other site 550540008025 GTP-binding protein Der; Reviewed; Region: PRK00093 550540008026 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 550540008027 G1 box; other site 550540008028 GTP/Mg2+ binding site [chemical binding]; other site 550540008029 Switch I region; other site 550540008030 G2 box; other site 550540008031 Switch II region; other site 550540008032 G3 box; other site 550540008033 G4 box; other site 550540008034 G5 box; other site 550540008035 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 550540008036 G1 box; other site 550540008037 GTP/Mg2+ binding site [chemical binding]; other site 550540008038 Switch I region; other site 550540008039 G2 box; other site 550540008040 G3 box; other site 550540008041 Switch II region; other site 550540008042 G4 box; other site 550540008043 G5 box; other site 550540008044 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 550540008045 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 550540008046 Trp docking motif [polypeptide binding]; other site 550540008047 active site 550540008048 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 550540008049 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 550540008050 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 550540008051 dimer interface [polypeptide binding]; other site 550540008052 motif 1; other site 550540008053 active site 550540008054 motif 2; other site 550540008055 motif 3; other site 550540008056 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 550540008057 anticodon binding site; other site 550540008058 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 550540008059 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 550540008060 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 550540008061 cytoskeletal protein RodZ; Provisional; Region: PRK10856 550540008062 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 550540008063 non-specific DNA binding site [nucleotide binding]; other site 550540008064 salt bridge; other site 550540008065 sequence-specific DNA binding site [nucleotide binding]; other site 550540008066 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 550540008067 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 550540008068 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 550540008069 binding surface 550540008070 TPR motif; other site 550540008071 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 550540008072 binding surface 550540008073 TPR motif; other site 550540008074 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 550540008075 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 550540008076 FeS/SAM binding site; other site 550540008077 Domain of unknown function DUF21; Region: DUF21; pfam01595 550540008078 FOG: CBS domain [General function prediction only]; Region: COG0517 550540008079 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 550540008080 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 550540008081 active site 550540008082 multimer interface [polypeptide binding]; other site 550540008083 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 550540008084 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 550540008085 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 550540008086 catalytic loop [active] 550540008087 iron binding site [ion binding]; other site 550540008088 chaperone protein HscA; Provisional; Region: hscA; PRK05183 550540008089 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 550540008090 nucleotide binding site [chemical binding]; other site 550540008091 putative NEF/HSP70 interaction site [polypeptide binding]; other site 550540008092 SBD interface [polypeptide binding]; other site 550540008093 co-chaperone HscB; Provisional; Region: hscB; PRK05014 550540008094 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 550540008095 HSP70 interaction site [polypeptide binding]; other site 550540008096 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 550540008097 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 550540008098 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 550540008099 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 550540008100 trimerization site [polypeptide binding]; other site 550540008101 active site 550540008102 cysteine desulfurase; Provisional; Region: PRK14012 550540008103 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 550540008104 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 550540008105 catalytic residue [active] 550540008106 Transcriptional regulator; Region: Rrf2; cl17282 550540008107 Rrf2 family protein; Region: rrf2_super; TIGR00738 550540008108 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 550540008109 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 550540008110 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 550540008111 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 550540008112 active site 550540008113 dimerization interface [polypeptide binding]; other site 550540008114 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cl00938 550540008115 iron-sulfur cluster [ion binding]; other site 550540008116 [2Fe-2S] cluster binding site [ion binding]; other site 550540008117 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 550540008118 Protein of unknown function (DUF2492); Region: DUF2492; pfam10678 550540008119 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 550540008120 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 550540008121 GAF domain; Region: GAF; pfam01590 550540008122 Histidine kinase; Region: His_kinase; pfam06580 550540008123 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 550540008124 ATP binding site [chemical binding]; other site 550540008125 Mg2+ binding site [ion binding]; other site 550540008126 G-X-G motif; other site 550540008127 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 550540008128 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540008129 active site 550540008130 phosphorylation site [posttranslational modification] 550540008131 intermolecular recognition site; other site 550540008132 dimerization interface [polypeptide binding]; other site 550540008133 LytTr DNA-binding domain; Region: LytTR; smart00850 550540008134 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 550540008135 IHF - DNA interface [nucleotide binding]; other site 550540008136 IHF dimer interface [polypeptide binding]; other site 550540008137 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 550540008138 Carbon starvation protein CstA; Region: CstA; pfam02554 550540008139 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 550540008140 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 550540008141 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 550540008142 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 550540008143 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 550540008144 Protein export membrane protein; Region: SecD_SecF; pfam02355 550540008145 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 550540008146 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 550540008147 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 550540008148 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 550540008149 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 550540008150 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 550540008151 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 550540008152 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 550540008153 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 550540008154 Protein of unknown function, DUF479; Region: DUF479; cl01203 550540008155 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 550540008156 Protein export membrane protein; Region: SecD_SecF; cl14618 550540008157 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 550540008158 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540008159 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540008160 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 550540008161 tetramer interface [polypeptide binding]; other site 550540008162 active site 550540008163 Mg2+/Mn2+ binding site [ion binding]; other site 550540008164 isocitrate lyase; Region: PLN02892 550540008165 malate synthase A; Region: malate_syn_A; TIGR01344 550540008166 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 550540008167 active site 550540008168 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 550540008169 Predicted membrane protein (DUF2157); Region: DUF2157; cl10480 550540008170 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 550540008171 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540008172 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540008173 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 550540008174 transcriptional regulator PhoU; Provisional; Region: PRK11115 550540008175 PhoU domain; Region: PhoU; pfam01895 550540008176 PhoU domain; Region: PhoU; pfam01895 550540008177 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 550540008178 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 550540008179 Walker A/P-loop; other site 550540008180 ATP binding site [chemical binding]; other site 550540008181 Q-loop/lid; other site 550540008182 ABC transporter signature motif; other site 550540008183 Walker B; other site 550540008184 D-loop; other site 550540008185 H-loop/switch region; other site 550540008186 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 550540008187 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 550540008188 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 550540008189 dimer interface [polypeptide binding]; other site 550540008190 conserved gate region; other site 550540008191 putative PBP binding loops; other site 550540008192 ABC-ATPase subunit interface; other site 550540008193 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 550540008194 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 550540008195 conserved gate region; other site 550540008196 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 550540008197 ABC-ATPase subunit interface; other site 550540008198 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 550540008199 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 550540008200 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 550540008201 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 550540008202 domain interface [polypeptide binding]; other site 550540008203 active site 550540008204 catalytic site [active] 550540008205 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 550540008206 domain interface [polypeptide binding]; other site 550540008207 active site 550540008208 catalytic site [active] 550540008209 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 550540008210 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 550540008211 nucleotide binding site [chemical binding]; other site 550540008212 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 550540008213 EVE domain; Region: EVE; cl00728 550540008214 PBP superfamily domain; Region: PBP_like_2; cl17296 550540008215 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 550540008216 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 550540008217 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 550540008218 putative active site [active] 550540008219 heme pocket [chemical binding]; other site 550540008220 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 550540008221 dimer interface [polypeptide binding]; other site 550540008222 phosphorylation site [posttranslational modification] 550540008223 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 550540008224 ATP binding site [chemical binding]; other site 550540008225 Mg2+ binding site [ion binding]; other site 550540008226 G-X-G motif; other site 550540008227 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 550540008228 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540008229 active site 550540008230 phosphorylation site [posttranslational modification] 550540008231 intermolecular recognition site; other site 550540008232 dimerization interface [polypeptide binding]; other site 550540008233 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 550540008234 DNA binding site [nucleotide binding] 550540008235 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 550540008236 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 550540008237 trimer interface [polypeptide binding]; other site 550540008238 eyelet of channel; other site 550540008239 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540008240 AAA domain; Region: AAA_23; pfam13476 550540008241 Walker A/P-loop; other site 550540008242 ATP binding site [chemical binding]; other site 550540008243 Q-loop/lid; other site 550540008244 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540008245 ABC transporter signature motif; other site 550540008246 Walker B; other site 550540008247 D-loop; other site 550540008248 H-loop/switch region; other site 550540008249 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 550540008250 active site 550540008251 metal binding site [ion binding]; metal-binding site 550540008252 DNA binding site [nucleotide binding] 550540008253 Putative exonuclease, RdgC; Region: RdgC; pfam04381 550540008254 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 550540008255 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 550540008256 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 550540008257 protein binding site [polypeptide binding]; other site 550540008258 Tetratricopeptide repeat; Region: TPR_12; pfam13424 550540008259 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 550540008260 TPR motif; other site 550540008261 binding surface 550540008262 Tetratricopeptide repeat; Region: TPR_12; pfam13424 550540008263 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 550540008264 binding surface 550540008265 TPR motif; other site 550540008266 Tetratricopeptide repeat; Region: TPR_12; pfam13424 550540008267 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540008268 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540008269 metal binding site [ion binding]; metal-binding site 550540008270 active site 550540008271 I-site; other site 550540008272 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 550540008273 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 550540008274 flap endonuclease-like protein; Provisional; Region: PRK09482 550540008275 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 550540008276 active site 550540008277 metal binding site 1 [ion binding]; metal-binding site 550540008278 putative 5' ssDNA interaction site; other site 550540008279 metal binding site 3; metal-binding site 550540008280 metal binding site 2 [ion binding]; metal-binding site 550540008281 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 550540008282 putative DNA binding site [nucleotide binding]; other site 550540008283 putative metal binding site [ion binding]; other site 550540008284 C factor cell-cell signaling protein; Provisional; Region: PRK09009 550540008285 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 550540008286 NADP binding site [chemical binding]; other site 550540008287 homodimer interface [polypeptide binding]; other site 550540008288 active site 550540008289 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 550540008290 serine/threonine transporter SstT; Provisional; Region: PRK13628 550540008291 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 550540008292 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 550540008293 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 550540008294 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 550540008295 tartrate dehydrogenase; Region: TTC; TIGR02089 550540008296 isocitrate dehydrogenase; Provisional; Region: PRK08997 550540008297 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 550540008298 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 550540008299 Protein of unknown function (DUF423); Region: DUF423; pfam04241 550540008300 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 550540008301 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 550540008302 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540008303 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 550540008304 dimerization interface [polypeptide binding]; other site 550540008305 substrate binding pocket [chemical binding]; other site 550540008306 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 550540008307 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 550540008308 Protein of unknown function (DUF819); Region: DUF819; cl02317 550540008309 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 550540008310 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 550540008311 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 550540008312 S-adenosylmethionine binding site [chemical binding]; other site 550540008313 peptide chain release factor 1; Validated; Region: prfA; PRK00591 550540008314 This domain is found in peptide chain release factors; Region: PCRF; smart00937 550540008315 RF-1 domain; Region: RF-1; pfam00472 550540008316 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 550540008317 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 550540008318 tRNA; other site 550540008319 putative tRNA binding site [nucleotide binding]; other site 550540008320 putative NADP binding site [chemical binding]; other site 550540008321 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 550540008322 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 550540008323 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 550540008324 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 550540008325 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 550540008326 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 550540008327 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 550540008328 active site 550540008329 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 550540008330 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 550540008331 5S rRNA interface [nucleotide binding]; other site 550540008332 CTC domain interface [polypeptide binding]; other site 550540008333 L16 interface [polypeptide binding]; other site 550540008334 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 550540008335 putative active site [active] 550540008336 catalytic residue [active] 550540008337 GTP-binding protein YchF; Reviewed; Region: PRK09601 550540008338 YchF GTPase; Region: YchF; cd01900 550540008339 G1 box; other site 550540008340 GTP/Mg2+ binding site [chemical binding]; other site 550540008341 Switch I region; other site 550540008342 G2 box; other site 550540008343 Switch II region; other site 550540008344 G3 box; other site 550540008345 G4 box; other site 550540008346 G5 box; other site 550540008347 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 550540008348 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 550540008349 N-terminal plug; other site 550540008350 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 550540008351 ligand-binding site [chemical binding]; other site 550540008352 Predicted membrane protein [Function unknown]; Region: COG2246 550540008353 GtrA-like protein; Region: GtrA; pfam04138 550540008354 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 550540008355 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 550540008356 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 550540008357 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 550540008358 Ligand binding site; other site 550540008359 Putative Catalytic site; other site 550540008360 DXD motif; other site 550540008361 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 550540008362 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540008363 active site 550540008364 phosphorylation site [posttranslational modification] 550540008365 intermolecular recognition site; other site 550540008366 dimerization interface [polypeptide binding]; other site 550540008367 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 550540008368 DNA binding site [nucleotide binding] 550540008369 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 550540008370 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 550540008371 dimer interface [polypeptide binding]; other site 550540008372 phosphorylation site [posttranslational modification] 550540008373 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 550540008374 ATP binding site [chemical binding]; other site 550540008375 Mg2+ binding site [ion binding]; other site 550540008376 G-X-G motif; other site 550540008377 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 550540008378 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 550540008379 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 550540008380 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 550540008381 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 550540008382 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 550540008383 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 550540008384 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 550540008385 FeS/SAM binding site; other site 550540008386 TRAM domain; Region: TRAM; pfam01938 550540008387 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 550540008388 PhoH-like protein; Region: PhoH; pfam02562 550540008389 metal-binding heat shock protein; Provisional; Region: PRK00016 550540008390 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 550540008391 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 550540008392 Transporter associated domain; Region: CorC_HlyC; smart01091 550540008393 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 550540008394 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 550540008395 putative active site [active] 550540008396 catalytic triad [active] 550540008397 putative dimer interface [polypeptide binding]; other site 550540008398 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 550540008399 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 550540008400 active site 550540008401 catalytic triad [active] 550540008402 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 550540008403 PA/protease or protease-like domain interface [polypeptide binding]; other site 550540008404 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 550540008405 catalytic residues [active] 550540008406 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 550540008407 SpoOM protein; Region: Spo0M; pfam07070 550540008408 DNA repair protein RadA; Provisional; Region: PRK11823 550540008409 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 550540008410 Walker A motif/ATP binding site; other site 550540008411 ATP binding site [chemical binding]; other site 550540008412 Walker B motif; other site 550540008413 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 550540008414 PilZ domain; Region: PilZ; pfam07238 550540008415 PilZ domain; Region: PilZ; pfam07238 550540008416 phosphoserine phosphatase; Provisional; Region: serB; PRK11133 550540008417 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 550540008418 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 550540008419 HAMP domain; Region: HAMP; pfam00672 550540008420 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 550540008421 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550540008422 dimer interface [polypeptide binding]; other site 550540008423 putative CheW interface [polypeptide binding]; other site 550540008424 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 550540008425 phosphopentomutase; Provisional; Region: PRK05362 550540008426 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 550540008427 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 550540008428 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 550540008429 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 550540008430 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 550540008431 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 550540008432 intersubunit interface [polypeptide binding]; other site 550540008433 active site 550540008434 catalytic residue [active] 550540008435 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 550540008436 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 550540008437 Nucleoside recognition; Region: Gate; pfam07670 550540008438 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 550540008439 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 550540008440 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 550540008441 active site 550540008442 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 550540008443 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 550540008444 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 550540008445 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 550540008446 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 550540008447 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 550540008448 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 550540008449 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 550540008450 G1 box; other site 550540008451 putative GEF interaction site [polypeptide binding]; other site 550540008452 GTP/Mg2+ binding site [chemical binding]; other site 550540008453 Switch I region; other site 550540008454 G2 box; other site 550540008455 G3 box; other site 550540008456 Switch II region; other site 550540008457 G4 box; other site 550540008458 G5 box; other site 550540008459 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 550540008460 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 550540008461 HlyD family secretion protein; Region: HlyD; pfam00529 550540008462 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540008463 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 550540008464 lipoprotein NlpI; Provisional; Region: PRK11189 550540008465 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 550540008466 binding surface 550540008467 TPR motif; other site 550540008468 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 550540008469 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 550540008470 RNase E interface [polypeptide binding]; other site 550540008471 trimer interface [polypeptide binding]; other site 550540008472 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 550540008473 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 550540008474 RNase E interface [polypeptide binding]; other site 550540008475 trimer interface [polypeptide binding]; other site 550540008476 active site 550540008477 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 550540008478 putative nucleic acid binding region [nucleotide binding]; other site 550540008479 G-X-X-G motif; other site 550540008480 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 550540008481 RNA binding site [nucleotide binding]; other site 550540008482 domain interface; other site 550540008483 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 550540008484 16S/18S rRNA binding site [nucleotide binding]; other site 550540008485 S13e-L30e interaction site [polypeptide binding]; other site 550540008486 25S rRNA binding site [nucleotide binding]; other site 550540008487 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 550540008488 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 550540008489 RNA binding site [nucleotide binding]; other site 550540008490 active site 550540008491 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 550540008492 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 550540008493 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 550540008494 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 550540008495 translation initiation factor IF-2; Region: IF-2; TIGR00487 550540008496 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 550540008497 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 550540008498 G1 box; other site 550540008499 putative GEF interaction site [polypeptide binding]; other site 550540008500 GTP/Mg2+ binding site [chemical binding]; other site 550540008501 Switch I region; other site 550540008502 G2 box; other site 550540008503 G3 box; other site 550540008504 Switch II region; other site 550540008505 G4 box; other site 550540008506 G5 box; other site 550540008507 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 550540008508 Translation-initiation factor 2; Region: IF-2; pfam11987 550540008509 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 550540008510 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 550540008511 NusA N-terminal domain; Region: NusA_N; pfam08529 550540008512 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 550540008513 RNA binding site [nucleotide binding]; other site 550540008514 homodimer interface [polypeptide binding]; other site 550540008515 NusA-like KH domain; Region: KH_5; pfam13184 550540008516 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 550540008517 G-X-X-G motif; other site 550540008518 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 550540008519 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 550540008520 ribosome maturation protein RimP; Reviewed; Region: PRK00092 550540008521 Sm and related proteins; Region: Sm_like; cl00259 550540008522 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 550540008523 putative oligomer interface [polypeptide binding]; other site 550540008524 putative RNA binding site [nucleotide binding]; other site 550540008525 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 550540008526 triosephosphate isomerase; Provisional; Region: PRK14567 550540008527 substrate binding site [chemical binding]; other site 550540008528 dimer interface [polypeptide binding]; other site 550540008529 catalytic triad [active] 550540008530 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 550540008531 dihydropteroate synthase; Region: DHPS; TIGR01496 550540008532 substrate binding pocket [chemical binding]; other site 550540008533 dimer interface [polypeptide binding]; other site 550540008534 inhibitor binding site; inhibition site 550540008535 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 550540008536 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 550540008537 Walker A motif; other site 550540008538 ATP binding site [chemical binding]; other site 550540008539 Walker B motif; other site 550540008540 arginine finger; other site 550540008541 Peptidase family M41; Region: Peptidase_M41; pfam01434 550540008542 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 550540008543 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 550540008544 S-adenosylmethionine binding site [chemical binding]; other site 550540008545 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 550540008546 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 550540008547 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 550540008548 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 550540008549 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 550540008550 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 550540008551 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 550540008552 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 550540008553 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 550540008554 ATP-grasp domain; Region: ATP-grasp_4; cl17255 550540008555 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 550540008556 IMP binding site; other site 550540008557 dimer interface [polypeptide binding]; other site 550540008558 interdomain contacts; other site 550540008559 partial ornithine binding site; other site 550540008560 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 550540008561 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 550540008562 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 550540008563 catalytic site [active] 550540008564 subunit interface [polypeptide binding]; other site 550540008565 dihydrodipicolinate reductase; Provisional; Region: PRK00048 550540008566 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 550540008567 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 550540008568 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 550540008569 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 550540008570 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 550540008571 Peptidase family M48; Region: Peptidase_M48; pfam01435 550540008572 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 550540008573 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 550540008574 chaperone protein DnaJ; Provisional; Region: PRK10767 550540008575 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 550540008576 HSP70 interaction site [polypeptide binding]; other site 550540008577 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 550540008578 substrate binding site [polypeptide binding]; other site 550540008579 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 550540008580 Zn binding sites [ion binding]; other site 550540008581 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 550540008582 dimer interface [polypeptide binding]; other site 550540008583 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 550540008584 Nucleotide-binding domain of human HSPA9, Escherichia coli DnaK, and similar proteins; Region: HSPA9-like_NBD; cd11733 550540008585 nucleotide binding site [chemical binding]; other site 550540008586 NEF interaction site [polypeptide binding]; other site 550540008587 SBD interface [polypeptide binding]; other site 550540008588 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 550540008589 EamA-like transporter family; Region: EamA; pfam00892 550540008590 EamA-like transporter family; Region: EamA; pfam00892 550540008591 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540008592 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540008593 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 550540008594 dimerization interface [polypeptide binding]; other site 550540008595 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 550540008596 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550540008597 NAD(P) binding site [chemical binding]; other site 550540008598 active site 550540008599 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 550540008600 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 550540008601 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540008602 active site 550540008603 phosphorylation site [posttranslational modification] 550540008604 intermolecular recognition site; other site 550540008605 dimerization interface [polypeptide binding]; other site 550540008606 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 550540008607 DNA binding residues [nucleotide binding] 550540008608 dimerization interface [polypeptide binding]; other site 550540008609 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 550540008610 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 550540008611 dimer interface [polypeptide binding]; other site 550540008612 phosphorylation site [posttranslational modification] 550540008613 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 550540008614 ATP binding site [chemical binding]; other site 550540008615 Mg2+ binding site [ion binding]; other site 550540008616 G-X-G motif; other site 550540008617 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 550540008618 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 550540008619 eyelet of channel; other site 550540008620 trimer interface [polypeptide binding]; other site 550540008621 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 550540008622 ApbE family; Region: ApbE; pfam02424 550540008623 FMN-binding domain; Region: FMN_bind; pfam04205 550540008624 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 550540008625 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 550540008626 dimer interface [polypeptide binding]; other site 550540008627 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 550540008628 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 550540008629 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 550540008630 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550540008631 short chain dehydrogenase; Provisional; Region: PRK07454 550540008632 NAD(P) binding site [chemical binding]; other site 550540008633 active site 550540008634 recombination and repair protein; Provisional; Region: PRK10869 550540008635 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 550540008636 Walker A/P-loop; other site 550540008637 ATP binding site [chemical binding]; other site 550540008638 Q-loop/lid; other site 550540008639 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 550540008640 ABC transporter signature motif; other site 550540008641 Walker B; other site 550540008642 D-loop; other site 550540008643 H-loop/switch region; other site 550540008644 putative alcohol dehydrogenase; Provisional; Region: PRK09860 550540008645 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 550540008646 dimer interface [polypeptide binding]; other site 550540008647 active site 550540008648 metal binding site [ion binding]; metal-binding site 550540008649 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 550540008650 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 550540008651 hypothetical protein; Validated; Region: PRK01777 550540008652 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 550540008653 putative coenzyme Q binding site [chemical binding]; other site 550540008654 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 550540008655 SmpB-tmRNA interface; other site 550540008656 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 550540008657 heme-binding residues [chemical binding]; other site 550540008658 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 550540008659 Helix-turn-helix domain; Region: HTH_18; pfam12833 550540008660 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550540008661 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540008662 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540008663 active site 550540008664 I-site; other site 550540008665 metal binding site [ion binding]; metal-binding site 550540008666 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 550540008667 Transcriptional regulators [Transcription]; Region: PurR; COG1609 550540008668 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 550540008669 DNA binding site [nucleotide binding] 550540008670 domain linker motif; other site 550540008671 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 550540008672 putative ligand binding site [chemical binding]; other site 550540008673 putative dimerization interface [polypeptide binding]; other site 550540008674 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 550540008675 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 550540008676 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 550540008677 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 550540008678 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 550540008679 active site 550540008680 dimer interface [polypeptide binding]; other site 550540008681 Predicted phosphosugar isomerases [Cell envelope biogenesis, outer membrane]; Region: AgaS; COG2222 550540008682 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 550540008683 dimer interface [polypeptide binding]; other site 550540008684 active site 550540008685 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 550540008686 dimer interface [polypeptide binding]; other site 550540008687 active site 550540008688 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 550540008689 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 550540008690 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 550540008691 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 550540008692 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 550540008693 active site 550540008694 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 550540008695 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 550540008696 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 550540008697 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 550540008698 SapC; Region: SapC; pfam07277 550540008699 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 550540008700 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 550540008701 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 550540008702 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 550540008703 hypothetical protein; Region: PHA00684 550540008704 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 550540008705 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 550540008706 hypothetical protein; Validated; Region: PRK00228 550540008707 translation initiation factor Sui1; Validated; Region: PRK06824 550540008708 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 550540008709 putative rRNA binding site [nucleotide binding]; other site 550540008710 Sporulation control protein [General function prediction only]; Region: Spo0M; COG4326 550540008711 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 550540008712 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 550540008713 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 550540008714 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 550540008715 tetramer interface [polypeptide binding]; other site 550540008716 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540008717 catalytic residue [active] 550540008718 Conserved TM helix; Region: TM_helix; pfam05552 550540008719 mechanosensitive channel MscS; Provisional; Region: PRK10334 550540008720 Mechanosensitive ion channel; Region: MS_channel; pfam00924 550540008721 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 550540008722 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 550540008723 ligand binding site [chemical binding]; other site 550540008724 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 550540008725 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 550540008726 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 550540008727 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 550540008728 Walker A motif; other site 550540008729 ATP binding site [chemical binding]; other site 550540008730 Walker B motif; other site 550540008731 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 550540008732 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 550540008733 Walker A motif; other site 550540008734 ATP binding site [chemical binding]; other site 550540008735 Walker B motif; other site 550540008736 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 550540008737 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 550540008738 catalytic residue [active] 550540008739 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 550540008740 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 550540008741 YGGT family; Region: YGGT; pfam02325 550540008742 YGGT family; Region: YGGT; pfam02325 550540008743 hypothetical protein; Validated; Region: PRK05090 550540008744 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 550540008745 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 550540008746 active site 550540008747 dimerization interface [polypeptide binding]; other site 550540008748 HemN family oxidoreductase; Provisional; Region: PRK05660 550540008749 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 550540008750 FeS/SAM binding site; other site 550540008751 HemN C-terminal domain; Region: HemN_C; pfam06969 550540008752 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 550540008753 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540008754 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540008755 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 550540008756 putative effector binding pocket; other site 550540008757 dimerization interface [polypeptide binding]; other site 550540008758 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 550540008759 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 550540008760 glutaminase; Provisional; Region: PRK00971 550540008761 Protein with unknown function (DUF469); Region: DUF469; cl01237 550540008762 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 550540008763 adenine DNA glycosylase; Provisional; Region: PRK10880 550540008764 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 550540008765 minor groove reading motif; other site 550540008766 helix-hairpin-helix signature motif; other site 550540008767 substrate binding pocket [chemical binding]; other site 550540008768 active site 550540008769 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 550540008770 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 550540008771 DNA binding and oxoG recognition site [nucleotide binding] 550540008772 oxidative damage protection protein; Provisional; Region: PRK05408 550540008773 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 550540008774 active site 550540008775 catalytic triad [active] 550540008776 oxyanion hole [active] 550540008777 switch loop; other site 550540008778 MltA-interacting protein MipA; Region: MipA; cl01504 550540008779 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 550540008780 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 550540008781 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540008782 active site 550540008783 phosphorylation site [posttranslational modification] 550540008784 intermolecular recognition site; other site 550540008785 dimerization interface [polypeptide binding]; other site 550540008786 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 550540008787 DNA binding site [nucleotide binding] 550540008788 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 550540008789 dimer interface [polypeptide binding]; other site 550540008790 phosphorylation site [posttranslational modification] 550540008791 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 550540008792 ATP binding site [chemical binding]; other site 550540008793 Mg2+ binding site [ion binding]; other site 550540008794 G-X-G motif; other site 550540008795 This CD includes bacterial (Agrobacterium tumefaciens and Caulobacter crescentus ProX, and Clostridium sticklandii PrdX) and eukaryotic (Plasmodium falciparum N-terminal ProRS editing domain) sequences. The C. sticklandii PrdX protein, a homolog of the...; Region: PrdX_deacylase; cd04335 550540008796 putative deacylase active site [active] 550540008797 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 550540008798 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 550540008799 putative C-terminal domain interface [polypeptide binding]; other site 550540008800 putative GSH binding site (G-site) [chemical binding]; other site 550540008801 putative dimer interface [polypeptide binding]; other site 550540008802 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 550540008803 dimer interface [polypeptide binding]; other site 550540008804 N-terminal domain interface [polypeptide binding]; other site 550540008805 substrate binding pocket (H-site) [chemical binding]; other site 550540008806 AmmeMemoRadiSam system radical SAM enzyme; Region: AmmeMemoSam_rS; TIGR04337 550540008807 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 550540008808 FeS/SAM binding site; other site 550540008809 Memo (mediator of ErbB2-driven cell motility) is co-precipitated with the C terminus of ErbB2, a protein involved in cell motility; Region: MEMO_like; cd07361 550540008810 putative ligand binding pocket/active site [active] 550540008811 putative metal binding site [ion binding]; other site 550540008812 AmmeMemoRadiSam system protein A; Region: AmmeMemoSam_A; TIGR04335 550540008813 AMMECR1; Region: AMMECR1; cl00911 550540008814 ATP-dependent RNA helicase DeaD; Provisional; Region: PRK11634 550540008815 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 550540008816 ATP binding site [chemical binding]; other site 550540008817 Mg++ binding site [ion binding]; other site 550540008818 motif III; other site 550540008819 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 550540008820 nucleotide binding region [chemical binding]; other site 550540008821 ATP-binding site [chemical binding]; other site 550540008822 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 550540008823 putative RNA binding site [nucleotide binding]; other site 550540008824 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 550540008825 active site 550540008826 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 550540008827 Cache domain; Region: Cache_1; pfam02743 550540008828 PAS domain; Region: PAS_9; pfam13426 550540008829 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 550540008830 putative active site [active] 550540008831 heme pocket [chemical binding]; other site 550540008832 PAS domain S-box; Region: sensory_box; TIGR00229 550540008833 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 550540008834 putative active site [active] 550540008835 heme pocket [chemical binding]; other site 550540008836 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 550540008837 PAS domain; Region: PAS_9; pfam13426 550540008838 putative active site [active] 550540008839 heme pocket [chemical binding]; other site 550540008840 PAS fold; Region: PAS_3; pfam08447 550540008841 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 550540008842 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 550540008843 putative active site [active] 550540008844 heme pocket [chemical binding]; other site 550540008845 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 550540008846 dimer interface [polypeptide binding]; other site 550540008847 phosphorylation site [posttranslational modification] 550540008848 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 550540008849 ATP binding site [chemical binding]; other site 550540008850 Mg2+ binding site [ion binding]; other site 550540008851 G-X-G motif; other site 550540008852 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 550540008853 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540008854 active site 550540008855 phosphorylation site [posttranslational modification] 550540008856 intermolecular recognition site; other site 550540008857 dimerization interface [polypeptide binding]; other site 550540008858 Response regulator receiver domain; Region: Response_reg; pfam00072 550540008859 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540008860 active site 550540008861 phosphorylation site [posttranslational modification] 550540008862 intermolecular recognition site; other site 550540008863 dimerization interface [polypeptide binding]; other site 550540008864 Hpt domain; Region: Hpt; pfam01627 550540008865 putative binding surface; other site 550540008866 active site 550540008867 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 550540008868 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540008869 active site 550540008870 phosphorylation site [posttranslational modification] 550540008871 intermolecular recognition site; other site 550540008872 dimerization interface [polypeptide binding]; other site 550540008873 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550540008874 Zn2+ binding site [ion binding]; other site 550540008875 Mg2+ binding site [ion binding]; other site 550540008876 HIT domain; Region: HIT; pfam01230 550540008877 nucleotide binding site/active site [active] 550540008878 HIT family signature motif; other site 550540008879 catalytic residue [active] 550540008880 YaeQ protein; Region: YaeQ; pfam07152 550540008881 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 550540008882 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 550540008883 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 550540008884 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 550540008885 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 550540008886 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 550540008887 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 550540008888 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 550540008889 S-adenosylmethionine binding site [chemical binding]; other site 550540008890 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 550540008891 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 550540008892 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 550540008893 short chain dehydrogenase; Provisional; Region: PRK06101 550540008894 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550540008895 NAD(P) binding site [chemical binding]; other site 550540008896 active site 550540008897 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 550540008898 RNA polymerase sigma factor; Provisional; Region: PRK12526 550540008899 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 550540008900 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 550540008901 DNA binding residues [nucleotide binding] 550540008902 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 550540008903 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 550540008904 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 550540008905 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 550540008906 ligand binding site [chemical binding]; other site 550540008907 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 550540008908 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 550540008909 Walker A/P-loop; other site 550540008910 ATP binding site [chemical binding]; other site 550540008911 Q-loop/lid; other site 550540008912 ABC transporter signature motif; other site 550540008913 Walker B; other site 550540008914 D-loop; other site 550540008915 H-loop/switch region; other site 550540008916 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 550540008917 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 550540008918 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 550540008919 TM-ABC transporter signature motif; other site 550540008920 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 550540008921 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 550540008922 TM-ABC transporter signature motif; other site 550540008923 Putative redox-active protein (C_GCAxxG_C_C); Region: C_GCAxxG_C_C; cl09920 550540008924 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 550540008925 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 550540008926 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 550540008927 catalytic residues [active] 550540008928 hinge region; other site 550540008929 alpha helical domain; other site 550540008930 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 550540008931 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 550540008932 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540008933 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540008934 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 550540008935 substrate binding pocket [chemical binding]; other site 550540008936 dimerization interface [polypeptide binding]; other site 550540008937 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 550540008938 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK09412 550540008939 Surface antigen; Region: Bac_surface_Ag; pfam01103 550540008940 Protein of unknown function (DUF4056); Region: DUF4056; pfam13265 550540008941 Adenosylmethionine decarboxylase; Region: SAM_decarbox; cl03253 550540008942 CHASE4 domain; Region: CHASE4; cl01308 550540008943 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540008944 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540008945 metal binding site [ion binding]; metal-binding site 550540008946 active site 550540008947 I-site; other site 550540008948 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 550540008949 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 550540008950 N-terminal plug; other site 550540008951 ligand-binding site [chemical binding]; other site 550540008952 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 550540008953 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 550540008954 putative substrate binding pocket [chemical binding]; other site 550540008955 trimer interface [polypeptide binding]; other site 550540008956 hypothetical protein; Provisional; Region: PRK11239 550540008957 Protein of unknown function, DUF480; Region: DUF480; pfam04337 550540008958 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 550540008959 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 550540008960 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 550540008961 MarR family; Region: MarR; pfam01047 550540008962 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 550540008963 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 550540008964 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 550540008965 homodimer interface [polypeptide binding]; other site 550540008966 Walker A motif; other site 550540008967 ATP binding site [chemical binding]; other site 550540008968 hydroxycobalamin binding site [chemical binding]; other site 550540008969 Walker B motif; other site 550540008970 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 550540008971 Predicted permease; Region: DUF318; cl17795 550540008972 Predicted permease; Region: DUF318; cl17795 550540008973 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 550540008974 dimerization interface [polypeptide binding]; other site 550540008975 putative DNA binding site [nucleotide binding]; other site 550540008976 putative Zn2+ binding site [ion binding]; other site 550540008977 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 550540008978 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 550540008979 Z1 domain; Region: Z1; pfam10593 550540008980 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 550540008981 putative hydrolase; Provisional; Region: PRK11460 550540008982 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 550540008983 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 550540008984 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 550540008985 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 550540008986 substrate binding pocket [chemical binding]; other site 550540008987 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 550540008988 B12 binding site [chemical binding]; other site 550540008989 cobalt ligand [ion binding]; other site 550540008990 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 550540008991 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 550540008992 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 550540008993 acyl-activating enzyme (AAE) consensus motif; other site 550540008994 active site 550540008995 AMP binding site [chemical binding]; other site 550540008996 CoA binding site [chemical binding]; other site 550540008997 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 550540008998 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 550540008999 Walker A/P-loop; other site 550540009000 ATP binding site [chemical binding]; other site 550540009001 Q-loop/lid; other site 550540009002 ABC transporter signature motif; other site 550540009003 Walker B; other site 550540009004 D-loop; other site 550540009005 H-loop/switch region; other site 550540009006 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 550540009007 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 550540009008 putative ligand binding site [chemical binding]; other site 550540009009 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 550540009010 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 550540009011 TM-ABC transporter signature motif; other site 550540009012 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 550540009013 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 550540009014 TM-ABC transporter signature motif; other site 550540009015 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 550540009016 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 550540009017 acyl-activating enzyme (AAE) consensus motif; other site 550540009018 putative AMP binding site [chemical binding]; other site 550540009019 putative active site [active] 550540009020 putative CoA binding site [chemical binding]; other site 550540009021 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 550540009022 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 550540009023 Walker A/P-loop; other site 550540009024 ATP binding site [chemical binding]; other site 550540009025 Q-loop/lid; other site 550540009026 ABC transporter signature motif; other site 550540009027 Walker B; other site 550540009028 D-loop; other site 550540009029 H-loop/switch region; other site 550540009030 Porin subfamily; Region: Porin_2; pfam02530 550540009031 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 550540009032 Na binding site [ion binding]; other site 550540009033 PAS fold; Region: PAS_7; pfam12860 550540009034 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 550540009035 putative active site [active] 550540009036 heme pocket [chemical binding]; other site 550540009037 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 550540009038 phosphorylation site [posttranslational modification] 550540009039 dimer interface [polypeptide binding]; other site 550540009040 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 550540009041 ATP binding site [chemical binding]; other site 550540009042 Mg2+ binding site [ion binding]; other site 550540009043 G-X-G motif; other site 550540009044 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540009045 active site 550540009046 phosphorylation site [posttranslational modification] 550540009047 intermolecular recognition site; other site 550540009048 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 550540009049 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540009050 active site 550540009051 phosphorylation site [posttranslational modification] 550540009052 intermolecular recognition site; other site 550540009053 dimerization interface [polypeptide binding]; other site 550540009054 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 550540009055 DNA binding residues [nucleotide binding] 550540009056 dimerization interface [polypeptide binding]; other site 550540009057 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 550540009058 ergothioneine biosynthesis protein EgtC; Region: TIGR03442 550540009059 putative active site [active] 550540009060 putative dimer interface [polypeptide binding]; other site 550540009061 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 550540009062 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 550540009063 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 550540009064 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 550540009065 Cl binding site [ion binding]; other site 550540009066 oligomer interface [polypeptide binding]; other site 550540009067 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540009068 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540009069 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 550540009070 dimerization interface [polypeptide binding]; other site 550540009071 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 550540009072 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 550540009073 putative substrate translocation pore; other site 550540009074 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 550540009075 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 550540009076 AlkA N-terminal domain; Region: AlkA_N; pfam06029 550540009077 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 550540009078 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 550540009079 minor groove reading motif; other site 550540009080 helix-hairpin-helix signature motif; other site 550540009081 substrate binding pocket [chemical binding]; other site 550540009082 active site 550540009083 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 550540009084 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 550540009085 DNA binding site [nucleotide binding] 550540009086 active site 550540009087 murein transglycosylase C; Provisional; Region: mltC; PRK11671 550540009088 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 550540009089 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 550540009090 N-acetyl-D-glucosamine binding site [chemical binding]; other site 550540009091 catalytic residue [active] 550540009092 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 550540009093 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 550540009094 PAS domain; Region: PAS_9; pfam13426 550540009095 putative active site [active] 550540009096 heme pocket [chemical binding]; other site 550540009097 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540009098 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540009099 metal binding site [ion binding]; metal-binding site 550540009100 active site 550540009101 I-site; other site 550540009102 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 550540009103 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 550540009104 RNA/DNA hybrid binding site [nucleotide binding]; other site 550540009105 active site 550540009106 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 550540009107 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 550540009108 ATP binding site [chemical binding]; other site 550540009109 Mg++ binding site [ion binding]; other site 550540009110 motif III; other site 550540009111 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 550540009112 nucleotide binding region [chemical binding]; other site 550540009113 ATP-binding site [chemical binding]; other site 550540009114 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 550540009115 active site 550540009116 NRDE protein; Region: NRDE; cl01315 550540009117 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 550540009118 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 550540009119 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 550540009120 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 550540009121 RNA binding surface [nucleotide binding]; other site 550540009122 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 550540009123 active site 550540009124 uracil binding [chemical binding]; other site 550540009125 Cation efflux family; Region: Cation_efflux; pfam01545 550540009126 putative transporter; Provisional; Region: PRK11021 550540009127 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 550540009128 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 550540009129 putative DNA binding site [nucleotide binding]; other site 550540009130 putative Zn2+ binding site [ion binding]; other site 550540009131 AsnC family; Region: AsnC_trans_reg; pfam01037 550540009132 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 550540009133 Prostaglandin dehydrogenases; Region: PGDH; cd05288 550540009134 NAD(P) binding site [chemical binding]; other site 550540009135 substrate binding site [chemical binding]; other site 550540009136 dimer interface [polypeptide binding]; other site 550540009137 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 550540009138 Transcriptional regulators [Transcription]; Region: MarR; COG1846 550540009139 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 550540009140 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 550540009141 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 550540009142 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 550540009143 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 550540009144 metal binding site [ion binding]; metal-binding site 550540009145 putative dimer interface [polypeptide binding]; other site 550540009146 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 550540009147 active site 550540009148 catalytic residues [active] 550540009149 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 550540009150 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 550540009151 P-loop; other site 550540009152 Magnesium ion binding site [ion binding]; other site 550540009153 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 550540009154 Magnesium ion binding site [ion binding]; other site 550540009155 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 550540009156 classical (c) SDRs; Region: SDR_c; cd05233 550540009157 NAD(P) binding site [chemical binding]; other site 550540009158 active site 550540009159 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 550540009160 DHH family; Region: DHH; pfam01368 550540009161 DHHA1 domain; Region: DHHA1; pfam02272 550540009162 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 550540009163 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 550540009164 dimerization domain [polypeptide binding]; other site 550540009165 dimer interface [polypeptide binding]; other site 550540009166 catalytic residues [active] 550540009167 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 550540009168 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 550540009169 active site 550540009170 Int/Topo IB signature motif; other site 550540009171 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 550540009172 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540009173 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540009174 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 550540009175 Protein export membrane protein; Region: SecD_SecF; cl14618 550540009176 multifunctional aminopeptidase A; Provisional; Region: PRK00913 550540009177 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 550540009178 interface (dimer of trimers) [polypeptide binding]; other site 550540009179 Substrate-binding/catalytic site; other site 550540009180 Zn-binding sites [ion binding]; other site 550540009181 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 550540009182 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 550540009183 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 550540009184 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550540009185 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 550540009186 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 550540009187 Branched-chain amino acid transport protein; Region: Branch_AA_trans; pfam05525 550540009188 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 550540009189 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 550540009190 S-adenosylmethionine binding site [chemical binding]; other site 550540009191 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 550540009192 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 550540009193 ATP binding site [chemical binding]; other site 550540009194 Mg++ binding site [ion binding]; other site 550540009195 motif III; other site 550540009196 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 550540009197 nucleotide binding region [chemical binding]; other site 550540009198 ATP-binding site [chemical binding]; other site 550540009199 PAS domain; Region: PAS_9; pfam13426 550540009200 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 550540009201 PAS domain; Region: PAS_9; pfam13426 550540009202 putative active site [active] 550540009203 heme pocket [chemical binding]; other site 550540009204 Protein of unknown function, DUF481; Region: DUF481; pfam04338 550540009205 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 550540009206 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 550540009207 intersubunit interface [polypeptide binding]; other site 550540009208 active site 550540009209 zinc binding site [ion binding]; other site 550540009210 Na+ binding site [ion binding]; other site 550540009211 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 550540009212 Phosphoglycerate kinase; Region: PGK; pfam00162 550540009213 substrate binding site [chemical binding]; other site 550540009214 hinge regions; other site 550540009215 ADP binding site [chemical binding]; other site 550540009216 catalytic site [active] 550540009217 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 550540009218 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 550540009219 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 550540009220 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 550540009221 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 550540009222 active site 550540009223 uracil binding [chemical binding]; other site 550540009224 Ion channel; Region: Ion_trans_2; pfam07885 550540009225 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 550540009226 S1 domain; Region: S1_2; pfam13509 550540009227 S1 domain; Region: S1_2; pfam13509 550540009228 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 550540009229 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 550540009230 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 550540009231 active site 550540009232 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 550540009233 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 550540009234 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540009235 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 550540009236 putative dimerization interface [polypeptide binding]; other site 550540009237 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 550540009238 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 550540009239 gating phenylalanine in ion channel; other site 550540009240 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 550540009241 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 550540009242 active site 550540009243 HIGH motif; other site 550540009244 dimer interface [polypeptide binding]; other site 550540009245 KMSKS motif; other site 550540009246 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 550540009247 RNA binding surface [nucleotide binding]; other site 550540009248 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 550540009249 putative peptidase; Provisional; Region: PRK11649 550540009250 Peptidase family M23; Region: Peptidase_M23; pfam01551 550540009251 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 550540009252 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 550540009253 MgtE intracellular N domain; Region: MgtE_N; pfam03448 550540009254 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 550540009255 Divalent cation transporter; Region: MgtE; cl00786 550540009256 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 550540009257 Chromate transporter; Region: Chromate_transp; pfam02417 550540009258 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 550540009259 dimer interface [polypeptide binding]; other site 550540009260 phosphorylation site [posttranslational modification] 550540009261 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 550540009262 ATP binding site [chemical binding]; other site 550540009263 Mg2+ binding site [ion binding]; other site 550540009264 G-X-G motif; other site 550540009265 Response regulator receiver domain; Region: Response_reg; pfam00072 550540009266 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540009267 active site 550540009268 phosphorylation site [posttranslational modification] 550540009269 intermolecular recognition site; other site 550540009270 dimerization interface [polypeptide binding]; other site 550540009271 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 550540009272 dimerization interface [polypeptide binding]; other site 550540009273 putative DNA binding site [nucleotide binding]; other site 550540009274 putative Zn2+ binding site [ion binding]; other site 550540009275 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 550540009276 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 550540009277 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 550540009278 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 550540009279 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540009280 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 550540009281 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 550540009282 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 550540009283 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 550540009284 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 550540009285 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 550540009286 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 550540009287 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 550540009288 Cl- selectivity filter; other site 550540009289 Cl- binding residues [ion binding]; other site 550540009290 pore gating glutamate residue; other site 550540009291 dimer interface [polypeptide binding]; other site 550540009292 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; cl17355 550540009293 DNA binding site [nucleotide binding] 550540009294 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540009295 active site 550540009296 phosphorylation site [posttranslational modification] 550540009297 intermolecular recognition site; other site 550540009298 dimerization interface [polypeptide binding]; other site 550540009299 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 550540009300 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 550540009301 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 550540009302 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 550540009303 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 550540009304 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 550540009305 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 550540009306 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 550540009307 inhibitor-cofactor binding pocket; inhibition site 550540009308 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540009309 catalytic residue [active] 550540009310 Peptidase M60-like family; Region: M60-like; pfam13402 550540009311 Peptidase M60-like family; Region: M60-like; pfam13402 550540009312 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 550540009313 Peptidase M60-like family; Region: M60-like; pfam13402 550540009314 ATP-grasp domain; Region: ATP-grasp_4; cl17255 550540009315 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 550540009316 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 550540009317 DNA binding site [nucleotide binding] 550540009318 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 550540009319 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 550540009320 heme-binding residues [chemical binding]; other site 550540009321 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 550540009322 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 550540009323 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 550540009324 DNA binding residues [nucleotide binding] 550540009325 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 550540009326 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 550540009327 active site 550540009328 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 550540009329 Dienelactone hydrolase family; Region: DLH; pfam01738 550540009330 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 550540009331 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 550540009332 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 550540009333 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 550540009334 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 550540009335 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 550540009336 active site 550540009337 purine riboside binding site [chemical binding]; other site 550540009338 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 550540009339 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 550540009340 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 550540009341 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cl01109 550540009342 putative amphipathic alpha helix; other site 550540009343 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 550540009344 catalytic residues [active] 550540009345 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 550540009346 Major Facilitator Superfamily; Region: MFS_1; pfam07690 550540009347 putative substrate translocation pore; other site 550540009348 NnrS protein; Region: NnrS; pfam05940 550540009349 Cytochrome c552; Region: Cytochrom_C552; pfam02335 550540009350 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 550540009351 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 550540009352 trimer interface [polypeptide binding]; other site 550540009353 eyelet of channel; other site 550540009354 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 550540009355 L-aspartate oxidase; Provisional; Region: PRK06175 550540009356 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 550540009357 L-aspartate oxidase; Provisional; Region: PRK06175 550540009358 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 550540009359 active sites [active] 550540009360 tetramer interface [polypeptide binding]; other site 550540009361 Transcriptional regulator containing GAF, AAA-type ATPase, and DNA binding domains [Transcription / Signal transduction mechanisms]; Region: FhlA; COG3604 550540009362 GAF domain; Region: GAF; cl17456 550540009363 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 550540009364 Walker A motif; other site 550540009365 ATP binding site [chemical binding]; other site 550540009366 Walker B motif; other site 550540009367 arginine finger; other site 550540009368 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 550540009369 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 550540009370 dimerization interface [polypeptide binding]; other site 550540009371 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 550540009372 ATP binding site [chemical binding]; other site 550540009373 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 550540009374 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 550540009375 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 550540009376 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 550540009377 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 550540009378 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 550540009379 putative substrate-binding site; other site 550540009380 nickel binding site [ion binding]; other site 550540009381 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 550540009382 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 550540009383 Acylphosphatase; Region: Acylphosphatase; pfam00708 550540009384 HypF finger; Region: zf-HYPF; pfam07503 550540009385 HypF finger; Region: zf-HYPF; pfam07503 550540009386 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 550540009387 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 550540009388 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 550540009389 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 550540009390 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 550540009391 G1 box; other site 550540009392 GTP/Mg2+ binding site [chemical binding]; other site 550540009393 G2 box; other site 550540009394 Switch I region; other site 550540009395 G3 box; other site 550540009396 Switch II region; other site 550540009397 G4 box; other site 550540009398 G5 box; other site 550540009399 HupF/HypC family; Region: HupF_HypC; cl00394 550540009400 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 550540009401 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 550540009402 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_IV; cd01994 550540009403 Ligand Binding Site [chemical binding]; other site 550540009404 Predicted ATPases of PP-loop superfamily [General function prediction only]; Region: COG2102 550540009405 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 550540009406 Alpha amylase catalytic domain found in sucrose phosphorylase-like proteins (also called sucrose glucosyltransferase, disaccharide glucosyltransferase, and sucrose-phosphate alpha-D glucosyltransferase); Region: AmyAc_Sucrose_phosphorylase-like_1; cd11356 550540009407 sucrose phosphorylase; Region: sucrose_gtfA; TIGR03852 550540009408 active site 550540009409 homodimer interface [polypeptide binding]; other site 550540009410 catalytic site [active] 550540009411 putative glucosyl-3-phosphoglycerate synthase; Provisional; Region: PRK13915 550540009412 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 550540009413 mannosyl-3-phosphoglycerate phosphatase; Reviewed; Region: PRK00192 550540009414 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 550540009415 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 550540009416 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 550540009417 MOSC domain; Region: MOSC; pfam03473 550540009418 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 550540009419 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 550540009420 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550540009421 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 550540009422 PQQ-like domain; Region: PQQ_2; pfam13360 550540009423 Trp docking motif [polypeptide binding]; other site 550540009424 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 550540009425 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 550540009426 nucleophile elbow; other site 550540009427 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 550540009428 Surface antigen; Region: Bac_surface_Ag; pfam01103 550540009429 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540009430 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540009431 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 550540009432 dimerization interface [polypeptide binding]; other site 550540009433 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 550540009434 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 550540009435 short chain dehydrogenase; Provisional; Region: PRK08251 550540009436 classical (c) SDR, subgroup 6; Region: SDR_c6; cd05350 550540009437 putative NAD(P) binding site [chemical binding]; other site 550540009438 active site 550540009439 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 550540009440 catalytic core [active] 550540009441 Phosphotransferase enzyme family; Region: APH; pfam01636 550540009442 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 550540009443 putative active site [active] 550540009444 putative substrate binding site [chemical binding]; other site 550540009445 ATP binding site [chemical binding]; other site 550540009446 short chain dehydrogenase; Provisional; Region: PRK05650 550540009447 classical (c) SDRs; Region: SDR_c; cd05233 550540009448 NAD(P) binding site [chemical binding]; other site 550540009449 active site 550540009450 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 550540009451 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 550540009452 active site 550540009453 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540009454 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540009455 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 550540009456 substrate binding pocket [chemical binding]; other site 550540009457 dimerization interface [polypeptide binding]; other site 550540009458 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 550540009459 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 550540009460 active site 550540009461 Zn binding site [ion binding]; other site 550540009462 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 550540009463 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540009464 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 550540009465 putative substrate binding pocket [chemical binding]; other site 550540009466 putative dimerization interface [polypeptide binding]; other site 550540009467 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 550540009468 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 550540009469 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 550540009470 conserved cys residue [active] 550540009471 WavE lipopolysaccharide synthesis; Region: WavE; pfam07507 550540009472 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 550540009473 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 550540009474 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 550540009475 SPFH domain / Band 7 family; Region: Band_7; pfam01145 550540009476 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 550540009477 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 550540009478 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 550540009479 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 550540009480 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 550540009481 dimerization interface [polypeptide binding]; other site 550540009482 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550540009483 dimer interface [polypeptide binding]; other site 550540009484 putative CheW interface [polypeptide binding]; other site 550540009485 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 550540009486 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 550540009487 Active Sites [active] 550540009488 sulfite reductase subunit beta; Provisional; Region: PRK13504 550540009489 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 550540009490 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 550540009491 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 550540009492 Flavodoxin; Region: Flavodoxin_1; pfam00258 550540009493 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 550540009494 FAD binding pocket [chemical binding]; other site 550540009495 FAD binding motif [chemical binding]; other site 550540009496 catalytic residues [active] 550540009497 NAD binding pocket [chemical binding]; other site 550540009498 phosphate binding motif [ion binding]; other site 550540009499 beta-alpha-beta structure motif; other site 550540009500 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 550540009501 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 550540009502 ligand binding site [chemical binding]; other site 550540009503 homodimer interface [polypeptide binding]; other site 550540009504 NAD(P) binding site [chemical binding]; other site 550540009505 trimer interface B [polypeptide binding]; other site 550540009506 trimer interface A [polypeptide binding]; other site 550540009507 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 550540009508 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 550540009509 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 550540009510 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 550540009511 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 550540009512 homodimer interface [polypeptide binding]; other site 550540009513 substrate-cofactor binding pocket; other site 550540009514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540009515 catalytic residue [active] 550540009516 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 550540009517 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 550540009518 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 550540009519 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 550540009520 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 550540009521 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 550540009522 DNA binding residues [nucleotide binding] 550540009523 dimerization interface [polypeptide binding]; other site 550540009524 hypothetical protein; Provisional; Region: PRK11020 550540009525 Protein of unknown function (DUF1040); Region: DUF1040; pfam06288 550540009526 hypothetical protein; Provisional; Region: yieM; PRK10997 550540009527 VWA YIEM 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_YIEM_type; cd01462 550540009528 metal ion-dependent adhesion site (MIDAS); other site 550540009529 regulatory ATPase RavA; Provisional; Region: PRK13531 550540009530 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 550540009531 Walker A motif; other site 550540009532 ATP binding site [chemical binding]; other site 550540009533 Walker B motif; other site 550540009534 arginine finger; other site 550540009535 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 550540009536 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 550540009537 active site 550540009538 Zn binding site [ion binding]; other site 550540009539 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 550540009540 active site 550540009541 catalytic site [active] 550540009542 substrate binding site [chemical binding]; other site 550540009543 hypothetical protein; Provisional; Region: PRK11588 550540009544 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 550540009545 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 550540009546 Transglycosylase; Region: Transgly; pfam00912 550540009547 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 550540009548 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 550540009549 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 550540009550 ATP binding site [chemical binding]; other site 550540009551 putative Mg++ binding site [ion binding]; other site 550540009552 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 550540009553 nucleotide binding region [chemical binding]; other site 550540009554 ATP-binding site [chemical binding]; other site 550540009555 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 550540009556 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 550540009557 2'-5' RNA ligase; Provisional; Region: PRK15124 550540009558 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 550540009559 Electron transfer DM13; Region: DM13; pfam10517 550540009560 aminopeptidase B; Provisional; Region: PRK05015 550540009561 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cl08294 550540009562 interface (dimer of trimers) [polypeptide binding]; other site 550540009563 Substrate-binding/catalytic site; other site 550540009564 Zn-binding sites [ion binding]; other site 550540009565 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 550540009566 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 550540009567 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 550540009568 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 550540009569 active site 550540009570 HIGH motif; other site 550540009571 nucleotide binding site [chemical binding]; other site 550540009572 active site 550540009573 KMSKS motif; other site 550540009574 poly(A) polymerase; Region: pcnB; TIGR01942 550540009575 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 550540009576 active site 550540009577 NTP binding site [chemical binding]; other site 550540009578 metal binding triad [ion binding]; metal-binding site 550540009579 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 550540009580 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 550540009581 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 550540009582 catalytic center binding site [active] 550540009583 ATP binding site [chemical binding]; other site 550540009584 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 550540009585 oligomerization interface [polypeptide binding]; other site 550540009586 active site 550540009587 metal binding site [ion binding]; metal-binding site 550540009588 pantoate--beta-alanine ligase; Region: panC; TIGR00018 550540009589 Pantoate-beta-alanine ligase; Region: PanC; cd00560 550540009590 active site 550540009591 ATP-binding site [chemical binding]; other site 550540009592 pantoate-binding site; other site 550540009593 HXXH motif; other site 550540009594 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 550540009595 tetramerization interface [polypeptide binding]; other site 550540009596 active site 550540009597 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 550540009598 S-adenosylmethionine binding site [chemical binding]; other site 550540009599 inner membrane transport permease; Provisional; Region: PRK15066 550540009600 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 550540009601 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 550540009602 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 550540009603 Walker A/P-loop; other site 550540009604 ATP binding site [chemical binding]; other site 550540009605 Q-loop/lid; other site 550540009606 ABC transporter signature motif; other site 550540009607 Walker B; other site 550540009608 D-loop; other site 550540009609 H-loop/switch region; other site 550540009610 Tellurite resistance protein TerB; Region: TerB; cl17311 550540009611 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 550540009612 PQQ-like domain; Region: PQQ_2; pfam13360 550540009613 Trp docking motif [polypeptide binding]; other site 550540009614 active site 550540009615 Collagen triple helix repeat (20 copies); Region: Collagen; pfam01391 550540009616 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 550540009617 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540009618 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540009619 metal binding site [ion binding]; metal-binding site 550540009620 active site 550540009621 I-site; other site 550540009622 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 550540009623 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 550540009624 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 550540009625 substrate binding pocket [chemical binding]; other site 550540009626 membrane-bound complex binding site; other site 550540009627 hinge residues; other site 550540009628 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 550540009629 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 550540009630 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 550540009631 catalytic residue [active] 550540009632 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 550540009633 active site residue [active] 550540009634 Methyltransferase domain; Region: Methyltransf_12; pfam08242 550540009635 S-adenosylmethionine binding site [chemical binding]; other site 550540009636 DNA phosphorothioation-associated DGQHR protein 1; Region: DGQHR_dnd_1; TIGR04172 550540009637 DGQHR domain; Region: DGQHR; TIGR03187 550540009638 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 550540009639 Uncharacterized protein conserved in bacteria (DUF2325); Region: DUF2325; cl01811 550540009640 PLD-like domain; Region: PLDc_2; pfam13091 550540009641 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 550540009642 putative active site [active] 550540009643 catalytic site [active] 550540009644 DEAD/DEAH box helicase; Region: DEAD; pfam00270 550540009645 ATP binding site [chemical binding]; other site 550540009646 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 550540009647 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 550540009648 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 550540009649 ATP binding site [chemical binding]; other site 550540009650 putative Mg++ binding site [ion binding]; other site 550540009651 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 550540009652 ATP-binding site [chemical binding]; other site 550540009653 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 550540009654 ATP binding site [chemical binding]; other site 550540009655 putative Mg++ binding site [ion binding]; other site 550540009656 nucleotide binding region [chemical binding]; other site 550540009657 helicase superfamily c-terminal domain; Region: HELICc; smart00490 550540009658 ATP-binding site [chemical binding]; other site 550540009659 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 550540009660 Ligand Binding Site [chemical binding]; other site 550540009661 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 550540009662 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 550540009663 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 550540009664 Helix-turn-helix domain; Region: HTH_17; pfam12728 550540009665 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 550540009666 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 550540009667 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 550540009668 putative catalytic residues [active] 550540009669 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 550540009670 putative dimer interface [polypeptide binding]; other site 550540009671 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 550540009672 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 550540009673 active site 550540009674 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 550540009675 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 550540009676 HIGH motif; other site 550540009677 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 550540009678 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 550540009679 active site 550540009680 KMSKS motif; other site 550540009681 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 550540009682 tRNA binding surface [nucleotide binding]; other site 550540009683 anticodon binding site; other site 550540009684 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 550540009685 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 550540009686 multifunctional aminopeptidase A; Provisional; Region: PRK00913 550540009687 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 550540009688 interface (dimer of trimers) [polypeptide binding]; other site 550540009689 Substrate-binding/catalytic site; other site 550540009690 Zn-binding sites [ion binding]; other site 550540009691 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 550540009692 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 550540009693 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 550540009694 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 550540009695 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 550540009696 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 550540009697 Walker A motif; other site 550540009698 ATP binding site [chemical binding]; other site 550540009699 Walker B motif; other site 550540009700 arginine finger; other site 550540009701 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 550540009702 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 550540009703 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 550540009704 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 550540009705 active site 550540009706 NTP binding site [chemical binding]; other site 550540009707 metal binding triad [ion binding]; metal-binding site 550540009708 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 550540009709 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550540009710 Zn2+ binding site [ion binding]; other site 550540009711 Mg2+ binding site [ion binding]; other site 550540009712 Bacitracin resistance protein BacA; Region: BacA; pfam02673 550540009713 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 550540009714 catalytic center binding site [active] 550540009715 ATP binding site [chemical binding]; other site 550540009716 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 550540009717 homooctamer interface [polypeptide binding]; other site 550540009718 active site 550540009719 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 550540009720 UGMP family protein; Validated; Region: PRK09604 550540009721 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 550540009722 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 550540009723 Yqey-like protein; Region: YqeY; pfam09424 550540009724 DNA primase; Validated; Region: dnaG; PRK05667 550540009725 CHC2 zinc finger; Region: zf-CHC2; pfam01807 550540009726 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 550540009727 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 550540009728 active site 550540009729 metal binding site [ion binding]; metal-binding site 550540009730 interdomain interaction site; other site 550540009731 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 550540009732 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 550540009733 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 550540009734 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 550540009735 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 550540009736 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 550540009737 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 550540009738 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 550540009739 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 550540009740 DNA binding residues [nucleotide binding] 550540009741 enoyl-CoA hydratase; Provisional; Region: PRK07509 550540009742 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 550540009743 substrate binding site [chemical binding]; other site 550540009744 oxyanion hole (OAH) forming residues; other site 550540009745 trimer interface [polypeptide binding]; other site 550540009746 Response regulator receiver domain; Region: Response_reg; pfam00072 550540009747 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540009748 active site 550540009749 phosphorylation site [posttranslational modification] 550540009750 intermolecular recognition site; other site 550540009751 dimerization interface [polypeptide binding]; other site 550540009752 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 550540009753 CheC-like family; Region: CheC; pfam04509 550540009754 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 550540009755 PAS domain; Region: PAS_9; pfam13426 550540009756 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540009757 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540009758 metal binding site [ion binding]; metal-binding site 550540009759 active site 550540009760 I-site; other site 550540009761 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 550540009762 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 550540009763 RNase E inhibitor protein; Provisional; Region: PRK11191 550540009764 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 550540009765 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 550540009766 putative acyl-acceptor binding pocket; other site 550540009767 Chloramphenicol acetyltransferase; Region: CAT; cl02008 550540009768 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 550540009769 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 550540009770 CAP-like domain; other site 550540009771 active site 550540009772 primary dimer interface [polypeptide binding]; other site 550540009773 Glucose/sorbosone dehydrogenases [Carbohydrate transport and metabolism]; Region: COG2133 550540009774 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 550540009775 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 550540009776 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 550540009777 ATP binding site [chemical binding]; other site 550540009778 Mg2+ binding site [ion binding]; other site 550540009779 G-X-G motif; other site 550540009780 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 550540009781 anchoring element; other site 550540009782 dimer interface [polypeptide binding]; other site 550540009783 ATP binding site [chemical binding]; other site 550540009784 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 550540009785 active site 550540009786 metal binding site [ion binding]; metal-binding site 550540009787 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 550540009788 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 550540009789 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 550540009790 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 550540009791 active site 550540009792 metal binding site [ion binding]; metal-binding site 550540009793 hexamer interface [polypeptide binding]; other site 550540009794 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 550540009795 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 550540009796 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 550540009797 dimer interface [polypeptide binding]; other site 550540009798 ADP-ribose binding site [chemical binding]; other site 550540009799 active site 550540009800 nudix motif; other site 550540009801 metal binding site [ion binding]; metal-binding site 550540009802 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 550540009803 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 550540009804 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 550540009805 Protein of unknown function (DUF461); Region: DUF461; pfam04314 550540009806 enoyl-CoA hydratase; Provisional; Region: PRK06688 550540009807 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 550540009808 substrate binding site [chemical binding]; other site 550540009809 oxyanion hole (OAH) forming residues; other site 550540009810 trimer interface [polypeptide binding]; other site 550540009811 PspC domain; Region: PspC; cl00864 550540009812 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 550540009813 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 550540009814 FMN binding site [chemical binding]; other site 550540009815 active site 550540009816 catalytic residues [active] 550540009817 substrate binding site [chemical binding]; other site 550540009818 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 550540009819 ATP binding site [chemical binding]; other site 550540009820 active site 550540009821 substrate binding site [chemical binding]; other site 550540009822 Protein of unknown function (DUF465); Region: DUF465; cl01070 550540009823 Flavin-binding monooxygenase-like; Region: FMO-like; pfam00743 550540009824 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 550540009825 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 550540009826 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 550540009827 Walker A/P-loop; other site 550540009828 ATP binding site [chemical binding]; other site 550540009829 Q-loop/lid; other site 550540009830 ABC transporter signature motif; other site 550540009831 Walker B; other site 550540009832 D-loop; other site 550540009833 H-loop/switch region; other site 550540009834 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 550540009835 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 550540009836 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 550540009837 Walker A/P-loop; other site 550540009838 ATP binding site [chemical binding]; other site 550540009839 Q-loop/lid; other site 550540009840 ABC transporter signature motif; other site 550540009841 Walker B; other site 550540009842 D-loop; other site 550540009843 H-loop/switch region; other site 550540009844 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 550540009845 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 550540009846 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 550540009847 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 550540009848 dimer interface [polypeptide binding]; other site 550540009849 conserved gate region; other site 550540009850 ABC-ATPase subunit interface; other site 550540009851 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 550540009852 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 550540009853 dimer interface [polypeptide binding]; other site 550540009854 conserved gate region; other site 550540009855 putative PBP binding loops; other site 550540009856 ABC-ATPase subunit interface; other site 550540009857 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 550540009858 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 550540009859 peptide binding site [polypeptide binding]; other site 550540009860 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 550540009861 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 550540009862 alanine racemase; Reviewed; Region: alr; PRK00053 550540009863 active site 550540009864 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 550540009865 substrate binding site [chemical binding]; other site 550540009866 catalytic residues [active] 550540009867 dimer interface [polypeptide binding]; other site 550540009868 replicative DNA helicase; Region: DnaB; TIGR00665 550540009869 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 550540009870 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 550540009871 Walker A motif; other site 550540009872 ATP binding site [chemical binding]; other site 550540009873 Walker B motif; other site 550540009874 DNA binding loops [nucleotide binding] 550540009875 Peptidase S46; Region: Peptidase_S46; pfam10459 550540009876 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 550540009877 Surface antigen; Region: Bac_surface_Ag; pfam01103 550540009878 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 550540009879 uridine phosphorylase; Provisional; Region: PRK11178 550540009880 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 550540009881 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; cl11547 550540009882 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 550540009883 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 550540009884 putative dimer interface [polypeptide binding]; other site 550540009885 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 550540009886 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540009887 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540009888 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 550540009889 basic leucine zipper DNA-binding and multimerization region of GCN4 and related proteins; Region: B_zip1; cl02576 550540009890 transcriptional regulator HdfR; Provisional; Region: PRK03601 550540009891 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540009892 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 550540009893 dimerization interface [polypeptide binding]; other site 550540009894 alpha-L-glutamate ligases, RimK family; Region: rimK_fam; TIGR00768 550540009895 ATP-grasp domain; Region: ATP-grasp_4; cl17255 550540009896 hypothetical protein; Provisional; Region: PRK11027 550540009897 GAF domain; Region: GAF_2; pfam13185 550540009898 GAF domain; Region: GAF_3; pfam13492 550540009899 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 550540009900 GAF domain; Region: GAF_2; pfam13185 550540009901 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540009902 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540009903 metal binding site [ion binding]; metal-binding site 550540009904 active site 550540009905 I-site; other site 550540009906 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 550540009907 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 550540009908 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 550540009909 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 550540009910 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 550540009911 serine transporter; Region: stp; TIGR00814 550540009912 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 550540009913 Protein of unknown function DUF84; Region: NTPase_I-T; cl00866 550540009914 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 550540009915 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 550540009916 active site 550540009917 catalytic tetrad [active] 550540009918 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 550540009919 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 550540009920 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 550540009921 catalytic residue [active] 550540009922 Fe-S metabolism associated domain; Region: SufE; cl00951 550540009923 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 550540009924 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 550540009925 putative ATP binding site [chemical binding]; other site 550540009926 putative substrate interface [chemical binding]; other site 550540009927 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 550540009928 eyelet of channel; other site 550540009929 trimer interface [polypeptide binding]; other site 550540009930 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 550540009931 thiopurine S-methyltransferase, Se/Te detoxification family; Region: TMPT_Se_Te; TIGR03840 550540009932 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 550540009933 Catalytic domain of Protein Kinases; Region: PKc; cd00180 550540009934 active site 550540009935 ATP binding site [chemical binding]; other site 550540009936 substrate binding site [chemical binding]; other site 550540009937 activation loop (A-loop); other site 550540009938 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 550540009939 active site 550540009940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 550540009941 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 550540009942 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 550540009943 FeS/SAM binding site; other site 550540009944 HemN C-terminal domain; Region: HemN_C; pfam06969 550540009945 Haem utilisation ChuX/HutX; Region: ChuX_HutX; cl01509 550540009946 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 550540009947 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 550540009948 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 550540009949 putative active site [active] 550540009950 PhoH-like protein; Region: PhoH; pfam02562 550540009951 ATP-dependent helicase HepA; Validated; Region: PRK04914 550540009952 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 550540009953 ATP binding site [chemical binding]; other site 550540009954 putative Mg++ binding site [ion binding]; other site 550540009955 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 550540009956 nucleotide binding region [chemical binding]; other site 550540009957 ATP-binding site [chemical binding]; other site 550540009958 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 550540009959 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 550540009960 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 550540009961 MgtE intracellular N domain; Region: MgtE_N; pfam03448 550540009962 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 550540009963 Divalent cation transporter; Region: MgtE; pfam01769 550540009964 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 550540009965 exoribonuclease II; Provisional; Region: PRK05054 550540009966 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 550540009967 RNB domain; Region: RNB; pfam00773 550540009968 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 550540009969 glycerate dehydrogenase; Provisional; Region: PRK06487 550540009970 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 550540009971 putative ligand binding site [chemical binding]; other site 550540009972 putative NAD binding site [chemical binding]; other site 550540009973 catalytic site [active] 550540009974 Methyltransferase domain; Region: Methyltransf_23; pfam13489 550540009975 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 550540009976 S-adenosylmethionine binding site [chemical binding]; other site 550540009977 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 550540009978 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 550540009979 DnaJ-domain-containing proteins 1 [Posttranslational modification, protein turnover, chaperones]; Region: DjlA; COG1076 550540009980 putative metal binding site [ion binding]; other site 550540009981 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 550540009982 HSP70 interaction site [polypeptide binding]; other site 550540009983 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 550540009984 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 550540009985 Substrate binding site; other site 550540009986 metal-binding site 550540009987 Phosphotransferase enzyme family; Region: APH; pfam01636 550540009988 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 550540009989 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 550540009990 OstA-like protein; Region: OstA; cl00844 550540009991 Organic solvent tolerance protein; Region: OstA_C; pfam04453 550540009992 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 550540009993 SurA N-terminal domain; Region: SurA_N; pfam09312 550540009994 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 550540009995 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 550540009996 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 550540009997 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 550540009998 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 550540009999 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 550540010000 S-adenosylmethionine binding site [chemical binding]; other site 550540010001 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 550540010002 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 550540010003 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 550540010004 active site 550540010005 metal binding site [ion binding]; metal-binding site 550540010006 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 550540010007 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 550540010008 dimerization interface [polypeptide binding]; other site 550540010009 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550540010010 dimer interface [polypeptide binding]; other site 550540010011 putative CheW interface [polypeptide binding]; other site 550540010012 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 550540010013 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 550540010014 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 550540010015 folate binding site [chemical binding]; other site 550540010016 NADP+ binding site [chemical binding]; other site 550540010017 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 550540010018 Uncharacterized conserved protein [Function unknown]; Region: COG2966 550540010019 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 550540010020 GTPase CgtA; Reviewed; Region: obgE; PRK12298 550540010021 GTP1/OBG; Region: GTP1_OBG; pfam01018 550540010022 Obg GTPase; Region: Obg; cd01898 550540010023 G1 box; other site 550540010024 GTP/Mg2+ binding site [chemical binding]; other site 550540010025 Switch I region; other site 550540010026 G2 box; other site 550540010027 G3 box; other site 550540010028 Switch II region; other site 550540010029 G4 box; other site 550540010030 G5 box; other site 550540010031 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 550540010032 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 550540010033 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 550540010034 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 550540010035 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 550540010036 substrate binding pocket [chemical binding]; other site 550540010037 chain length determination region; other site 550540010038 substrate-Mg2+ binding site; other site 550540010039 catalytic residues [active] 550540010040 aspartate-rich region 1; other site 550540010041 active site lid residues [active] 550540010042 aspartate-rich region 2; other site 550540010043 malate dehydrogenase; Provisional; Region: PRK05086 550540010044 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 550540010045 NAD binding site [chemical binding]; other site 550540010046 dimerization interface [polypeptide binding]; other site 550540010047 Substrate binding site [chemical binding]; other site 550540010048 arginine repressor; Provisional; Region: PRK05066 550540010049 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 550540010050 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 550540010051 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 550540010052 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 550540010053 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 550540010054 Walker A/P-loop; other site 550540010055 ATP binding site [chemical binding]; other site 550540010056 Q-loop/lid; other site 550540010057 ABC transporter signature motif; other site 550540010058 Walker B; other site 550540010059 D-loop; other site 550540010060 H-loop/switch region; other site 550540010061 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 550540010062 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 550540010063 dimer interface [polypeptide binding]; other site 550540010064 conserved gate region; other site 550540010065 putative PBP binding loops; other site 550540010066 ABC-ATPase subunit interface; other site 550540010067 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 550540010068 dimer interface [polypeptide binding]; other site 550540010069 conserved gate region; other site 550540010070 putative PBP binding loops; other site 550540010071 ABC-ATPase subunit interface; other site 550540010072 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 550540010073 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 550540010074 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 550540010075 Nitrogen regulatory protein P-II; Region: P-II; cl00412 550540010076 Nitrogen regulatory protein P-II; Region: P-II; smart00938 550540010077 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 550540010078 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 550540010079 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 550540010080 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 550540010081 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 550540010082 Histidine kinase; Region: HisKA_3; pfam07730 550540010083 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 550540010084 ATP binding site [chemical binding]; other site 550540010085 Mg2+ binding site [ion binding]; other site 550540010086 G-X-G motif; other site 550540010087 transcriptional regulator NarL; Provisional; Region: PRK10651 550540010088 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540010089 active site 550540010090 phosphorylation site [posttranslational modification] 550540010091 intermolecular recognition site; other site 550540010092 dimerization interface [polypeptide binding]; other site 550540010093 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 550540010094 DNA binding residues [nucleotide binding] 550540010095 dimerization interface [polypeptide binding]; other site 550540010096 hypothetical protein; Provisional; Region: PRK05248 550540010097 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 550540010098 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 550540010099 NADP binding site [chemical binding]; other site 550540010100 dimer interface [polypeptide binding]; other site 550540010101 SlyX; Region: SlyX; pfam04102 550540010102 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 550540010103 active site 550540010104 catalytic residues [active] 550540010105 metal binding site [ion binding]; metal-binding site 550540010106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 550540010107 uncharacterized proteobacterial lipoprotein; Region: lp_; TIGR02722 550540010108 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 550540010109 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 550540010110 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540010111 Walker A/P-loop; other site 550540010112 ATP binding site [chemical binding]; other site 550540010113 Q-loop/lid; other site 550540010114 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 550540010115 ABC transporter; Region: ABC_tran_2; pfam12848 550540010116 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 550540010117 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 550540010118 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 550540010119 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 550540010120 putative hydrolase; Provisional; Region: PRK10985 550540010121 Protein of unknown function (DUF3187); Region: DUF3187; pfam11383 550540010122 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 550540010123 phosphoribulokinase; Provisional; Region: PRK15453 550540010124 active site 550540010125 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 550540010126 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 550540010127 ligand binding site [chemical binding]; other site 550540010128 flexible hinge region; other site 550540010129 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 550540010130 putative switch regulator; other site 550540010131 non-specific DNA interactions [nucleotide binding]; other site 550540010132 DNA binding site [nucleotide binding] 550540010133 sequence specific DNA binding site [nucleotide binding]; other site 550540010134 putative cAMP binding site [chemical binding]; other site 550540010135 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 550540010136 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 550540010137 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 550540010138 NAD(P) binding site [chemical binding]; other site 550540010139 catalytic residues [active] 550540010140 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 550540010141 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 550540010142 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 550540010143 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 550540010144 inhibitor-cofactor binding pocket; inhibition site 550540010145 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540010146 catalytic residue [active] 550540010147 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 550540010148 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 550540010149 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 550540010150 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 550540010151 glutamine binding [chemical binding]; other site 550540010152 catalytic triad [active] 550540010153 putative phosphoketolase; Provisional; Region: PRK05261 550540010154 XFP N-terminal domain; Region: XFP_N; pfam09364 550540010155 XFP C-terminal domain; Region: XFP_C; pfam09363 550540010156 autonomous glycyl radical cofactor GrcA; Region: spare_glycyl; TIGR04365 550540010157 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540010158 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540010159 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 550540010160 dimerization interface [polypeptide binding]; other site 550540010161 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 550540010162 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 550540010163 active site 550540010164 catalytic triad [active] 550540010165 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 550540010166 PA/protease or protease-like domain interface [polypeptide binding]; other site 550540010167 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 550540010168 catalytic residues [active] 550540010169 3-ketodihydrosphingosine reductase (KDSR) and related proteins, classical (c) SDR; Region: KDSR-like_SDR_c; cd08939 550540010170 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 550540010171 putative NAD(P) binding site [chemical binding]; other site 550540010172 homotetramer interface [polypeptide binding]; other site 550540010173 active site 550540010174 homodimer interface [polypeptide binding]; other site 550540010175 Transcriptional regulator [Transcription]; Region: LysR; COG0583 550540010176 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540010177 LysR substrate binding domain; Region: LysR_substrate; pfam03466 550540010178 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 550540010179 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 550540010180 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 550540010181 active site 550540010182 catalytic triad [active] 550540010183 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 550540010184 PA/protease or protease-like domain interface [polypeptide binding]; other site 550540010185 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 550540010186 catalytic residues [active] 550540010187 Fn3-like domain (DUF1034); Region: DUF1034; pfam06280 550540010188 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 550540010189 stringent starvation protein A; Provisional; Region: sspA; PRK09481 550540010190 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 550540010191 C-terminal domain interface [polypeptide binding]; other site 550540010192 putative GSH binding site (G-site) [chemical binding]; other site 550540010193 dimer interface [polypeptide binding]; other site 550540010194 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 550540010195 dimer interface [polypeptide binding]; other site 550540010196 N-terminal domain interface [polypeptide binding]; other site 550540010197 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 550540010198 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 550540010199 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 550540010200 Qi binding site; other site 550540010201 intrachain domain interface; other site 550540010202 interchain domain interface [polypeptide binding]; other site 550540010203 heme bH binding site [chemical binding]; other site 550540010204 heme bL binding site [chemical binding]; other site 550540010205 Qo binding site; other site 550540010206 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 550540010207 interchain domain interface [polypeptide binding]; other site 550540010208 intrachain domain interface; other site 550540010209 Qi binding site; other site 550540010210 Qo binding site; other site 550540010211 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 550540010212 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 550540010213 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 550540010214 [2Fe-2S] cluster binding site [ion binding]; other site 550540010215 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 550540010216 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 550540010217 23S rRNA interface [nucleotide binding]; other site 550540010218 L3 interface [polypeptide binding]; other site 550540010219 Predicted ATPase [General function prediction only]; Region: COG1485 550540010220 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 550540010221 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 550540010222 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 550540010223 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 550540010224 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 550540010225 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 550540010226 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 550540010227 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 550540010228 protein binding site [polypeptide binding]; other site 550540010229 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 550540010230 P-loop; other site 550540010231 Magnesium ion binding site [ion binding]; other site 550540010232 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 550540010233 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 550540010234 hinge; other site 550540010235 active site 550540010236 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 550540010237 Sulphate Transporter and Anti-Sigma factor antagonist domain found in the C-terminal region of sulphate transporters as well as in bacterial and archaeal proteins involved in the regulation of sigma factors; Region: STAS; cl00604 550540010238 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 550540010239 mce related protein; Region: MCE; pfam02470 550540010240 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 550540010241 conserved hypothetical integral membrane protein; Region: TIGR00056 550540010242 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 550540010243 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 550540010244 Walker A/P-loop; other site 550540010245 ATP binding site [chemical binding]; other site 550540010246 Q-loop/lid; other site 550540010247 ABC transporter signature motif; other site 550540010248 Walker B; other site 550540010249 D-loop; other site 550540010250 H-loop/switch region; other site 550540010251 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 550540010252 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 550540010253 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 550540010254 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 550540010255 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 550540010256 putative active site [active] 550540010257 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 550540010258 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 550540010259 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 550540010260 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 550540010261 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 550540010262 OstA-like protein; Region: OstA; cl00844 550540010263 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 550540010264 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 550540010265 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 550540010266 Walker A/P-loop; other site 550540010267 ATP binding site [chemical binding]; other site 550540010268 Q-loop/lid; other site 550540010269 ABC transporter signature motif; other site 550540010270 Walker B; other site 550540010271 D-loop; other site 550540010272 H-loop/switch region; other site 550540010273 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 550540010274 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 550540010275 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 550540010276 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 550540010277 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 550540010278 30S subunit binding site; other site 550540010279 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 550540010280 active site 550540010281 phosphorylation site [posttranslational modification] 550540010282 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 550540010283 AAA domain; Region: AAA_18; pfam13238 550540010284 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 550540010285 dimerization domain swap beta strand [polypeptide binding]; other site 550540010286 regulatory protein interface [polypeptide binding]; other site 550540010287 active site 550540010288 regulatory phosphorylation site [posttranslational modification]; other site 550540010289 Domain of unknown function (DUF4174); Region: DUF4174; pfam13778 550540010290 Protein of unknown function (DUF2845); Region: DUF2845; pfam11006 550540010291 Na/Pi-cotransporter; Region: NaPi_cotrn_rel; TIGR00704 550540010292 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 550540010293 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 550540010294 peptidase PmbA; Provisional; Region: PRK11040 550540010295 hypothetical protein; Provisional; Region: PRK05255 550540010296 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 550540010297 ABC-2 type transporter; Region: ABC2_membrane; cl17235 550540010298 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 550540010299 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540010300 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540010301 Outer membrane efflux protein; Region: OEP; pfam02321 550540010302 Outer membrane efflux protein; Region: OEP; pfam02321 550540010303 protease TldD; Provisional; Region: tldD; PRK10735 550540010304 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 550540010305 nitrilase; Region: PLN02798 550540010306 putative active site [active] 550540010307 catalytic triad [active] 550540010308 dimer interface [polypeptide binding]; other site 550540010309 TIGR02099 family protein; Region: TIGR02099 550540010310 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 550540010311 ribonuclease G; Provisional; Region: PRK11712 550540010312 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 550540010313 homodimer interface [polypeptide binding]; other site 550540010314 oligonucleotide binding site [chemical binding]; other site 550540010315 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 550540010316 active site 550540010317 dimer interface [polypeptide binding]; other site 550540010318 rod shape-determining protein MreD; Region: MreD; cl01087 550540010319 rod shape-determining protein MreC; Provisional; Region: PRK13922 550540010320 rod shape-determining protein MreC; Region: MreC; pfam04085 550540010321 rod shape-determining protein MreB; Provisional; Region: PRK13927 550540010322 MreB and similar proteins; Region: MreB_like; cd10225 550540010323 nucleotide binding site [chemical binding]; other site 550540010324 Mg binding site [ion binding]; other site 550540010325 putative protofilament interaction site [polypeptide binding]; other site 550540010326 RodZ interaction site [polypeptide binding]; other site 550540010327 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 550540010328 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 550540010329 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 550540010330 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 550540010331 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 550540010332 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 550540010333 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 550540010334 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 550540010335 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 550540010336 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 550540010337 Walker A motif; other site 550540010338 ATP binding site [chemical binding]; other site 550540010339 Walker B motif; other site 550540010340 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 550540010341 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 550540010342 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 550540010343 Walker A motif; other site 550540010344 ATP binding site [chemical binding]; other site 550540010345 Walker B motif; other site 550540010346 Secretin and TonB N terminus short domain; Region: STN; smart00965 550540010347 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 550540010348 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 550540010349 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 550540010350 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 550540010351 regulatory protein CsrD; Provisional; Region: PRK11059 550540010352 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 550540010353 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 550540010354 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 550540010355 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 550540010356 dimer interface [polypeptide binding]; other site 550540010357 ssDNA binding site [nucleotide binding]; other site 550540010358 tetramer (dimer of dimers) interface [polypeptide binding]; other site 550540010359 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 550540010360 Major Facilitator Superfamily; Region: MFS_1; pfam07690 550540010361 putative substrate translocation pore; other site 550540010362 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 550540010363 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 550540010364 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 550540010365 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 550540010366 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 550540010367 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 550540010368 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 550540010369 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 550540010370 conserved cys residue [active] 550540010371 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 550540010372 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 550540010373 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 550540010374 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 550540010375 catalytic residue [active] 550540010376 Domain of unknown function (DUF1864); Region: DUF1864; pfam08933 550540010377 Protein of unknown function, DUF486; Region: DUF486; pfam04342 550540010378 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 550540010379 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 550540010380 putative metal dependent hydrolase; Provisional; Region: PRK11598 550540010381 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 550540010382 Sulfatase; Region: Sulfatase; pfam00884 550540010383 Predicted membrane protein [Function unknown]; Region: COG2860 550540010384 UPF0126 domain; Region: UPF0126; pfam03458 550540010385 UPF0126 domain; Region: UPF0126; pfam03458 550540010386 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 550540010387 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 550540010388 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3864 550540010389 Putative metallopeptidase domain; Region: DUF2201_N; pfam13203 550540010390 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 550540010391 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; cl00038 550540010392 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 550540010393 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 550540010394 Leucine rich repeat; Region: LRR_8; pfam13855 550540010395 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 550540010396 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550540010397 Coenzyme A binding pocket [chemical binding]; other site 550540010398 LemA family; Region: LemA; cl00742 550540010399 Protein of unknown function (DUF1129); Region: DUF1129; cl11555 550540010400 AAA domain; Region: AAA_23; pfam13476 550540010401 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540010402 AAA domain; Region: AAA_21; pfam13304 550540010403 Walker A/P-loop; other site 550540010404 ATP binding site [chemical binding]; other site 550540010405 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 550540010406 Walker B; other site 550540010407 D-loop; other site 550540010408 H-loop/switch region; other site 550540010409 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 550540010410 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 550540010411 PAS domain; Region: PAS_9; pfam13426 550540010412 putative active site [active] 550540010413 heme pocket [chemical binding]; other site 550540010414 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 550540010415 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 550540010416 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550540010417 dimer interface [polypeptide binding]; other site 550540010418 putative CheW interface [polypeptide binding]; other site 550540010419 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 550540010420 FAD binding site [chemical binding]; other site 550540010421 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 550540010422 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 550540010423 nucleotide binding site [chemical binding]; other site 550540010424 substrate binding site [chemical binding]; other site 550540010425 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 550540010426 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 550540010427 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 550540010428 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 550540010429 homodimer interface [polypeptide binding]; other site 550540010430 substrate-cofactor binding pocket; other site 550540010431 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540010432 catalytic residue [active] 550540010433 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 550540010434 dimerization interface [polypeptide binding]; other site 550540010435 DNA binding site [nucleotide binding] 550540010436 corepressor binding sites; other site 550540010437 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 550540010438 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 550540010439 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550540010440 Coenzyme A binding pocket [chemical binding]; other site 550540010441 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 550540010442 MltA-interacting protein MipA; Region: MipA; cl01504 550540010443 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 550540010444 Malic enzyme, N-terminal domain; Region: malic; pfam00390 550540010445 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 550540010446 putative NAD(P) binding site [chemical binding]; other site 550540010447 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 550540010448 primosome assembly protein PriA; Validated; Region: PRK05580 550540010449 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 550540010450 ATP binding site [chemical binding]; other site 550540010451 putative Mg++ binding site [ion binding]; other site 550540010452 nucleotide binding region [chemical binding]; other site 550540010453 helicase superfamily c-terminal domain; Region: HELICc; smart00490 550540010454 ATP-binding site [chemical binding]; other site 550540010455 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 550540010456 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 550540010457 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 550540010458 active site 550540010459 HIGH motif; other site 550540010460 KMSK motif region; other site 550540010461 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 550540010462 tRNA binding surface [nucleotide binding]; other site 550540010463 anticodon binding site; other site 550540010464 Sporulation related domain; Region: SPOR; pfam05036 550540010465 DTW domain; Region: DTW; cl01221 550540010466 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 550540010467 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 550540010468 NAD(P) binding site [chemical binding]; other site 550540010469 homotetramer interface [polypeptide binding]; other site 550540010470 homodimer interface [polypeptide binding]; other site 550540010471 active site 550540010472 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 550540010473 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 550540010474 dimer interface [polypeptide binding]; other site 550540010475 putative CheW interface [polypeptide binding]; other site 550540010476 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 550540010477 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 550540010478 active site 550540010479 HslU subunit interaction site [polypeptide binding]; other site 550540010480 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 550540010481 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 550540010482 Walker A motif; other site 550540010483 ATP binding site [chemical binding]; other site 550540010484 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 550540010485 Walker B motif; other site 550540010486 arginine finger; other site 550540010487 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 550540010488 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 550540010489 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 550540010490 XdhC Rossmann domain; Region: XdhC_C; pfam13478 550540010491 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 550540010492 Ligand binding site; other site 550540010493 metal-binding site 550540010494 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 550540010495 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 550540010496 catalytic loop [active] 550540010497 iron binding site [ion binding]; other site 550540010498 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 550540010499 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 550540010500 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 550540010501 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 550540010502 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 550540010503 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 550540010504 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 550540010505 amphipathic channel; other site 550540010506 Asn-Pro-Ala signature motifs; other site 550540010507 Uncharacterized conserved protein (DUF2164); Region: DUF2164; pfam09932 550540010508 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 550540010509 atypical (a) SDRs, subgroup 2; Region: SDR_a2; cd05245 550540010510 putative NAD(P) binding site [chemical binding]; other site 550540010511 putative active site [active] 550540010512 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 550540010513 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 550540010514 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 550540010515 active site 550540010516 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 550540010517 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 550540010518 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 550540010519 putative active site [active] 550540010520 putative metal binding site [ion binding]; other site 550540010521 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 550540010522 Predicted transglutaminase-like cysteine proteinase [General function prediction only]; Region: COG3672 550540010523 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 550540010524 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 550540010525 S-adenosylmethionine binding site [chemical binding]; other site 550540010526 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 550540010527 SCP-2 sterol transfer family; Region: SCP2; pfam02036 550540010528 ABC1 family; Region: ABC1; cl17513 550540010529 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 550540010530 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 550540010531 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 550540010532 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 550540010533 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 550540010534 active site 550540010535 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 550540010536 dimer interface [polypeptide binding]; other site 550540010537 active site 550540010538 aspartate-rich active site metal binding site; other site 550540010539 allosteric magnesium binding site [ion binding]; other site 550540010540 Schiff base residues; other site 550540010541 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 550540010542 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 550540010543 catalytic residues [active] 550540010544 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 550540010545 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 550540010546 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 550540010547 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540010548 homodimer interface [polypeptide binding]; other site 550540010549 catalytic residue [active] 550540010550 coenzyme A disulfide reductase; Reviewed; Region: PRK09564 550540010551 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 550540010552 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 550540010553 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 550540010554 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 550540010555 exopolyphosphatase; Region: exo_poly_only; TIGR03706 550540010556 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 550540010557 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 550540010558 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 550540010559 ATP binding site [chemical binding]; other site 550540010560 Mg++ binding site [ion binding]; other site 550540010561 motif III; other site 550540010562 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 550540010563 nucleotide binding region [chemical binding]; other site 550540010564 ATP-binding site [chemical binding]; other site 550540010565 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 550540010566 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 550540010567 catalytic residues [active] 550540010568 transcription termination factor Rho; Provisional; Region: rho; PRK09376 550540010569 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 550540010570 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 550540010571 RNA binding site [nucleotide binding]; other site 550540010572 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 550540010573 multimer interface [polypeptide binding]; other site 550540010574 Walker A motif; other site 550540010575 ATP binding site [chemical binding]; other site 550540010576 Walker B motif; other site 550540010577 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 550540010578 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 550540010579 FMN reductase; Validated; Region: fre; PRK08051 550540010580 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 550540010581 FAD binding pocket [chemical binding]; other site 550540010582 FAD binding motif [chemical binding]; other site 550540010583 phosphate binding motif [ion binding]; other site 550540010584 beta-alpha-beta structure motif; other site 550540010585 NAD binding pocket [chemical binding]; other site 550540010586 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 550540010587 Uncharacterized conserved protein [Function unknown]; Region: COG1359 550540010588 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; pfam07073 550540010589 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 550540010590 UbiA prenyltransferase family; Region: UbiA; pfam01040 550540010591 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 550540010592 putative deacylase active site [active] 550540010593 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 550540010594 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 550540010595 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 550540010596 putative dimer interface [polypeptide binding]; other site 550540010597 N-terminal domain interface [polypeptide binding]; other site 550540010598 putative substrate binding pocket (H-site) [chemical binding]; other site 550540010599 Predicted membrane protein [Function unknown]; Region: COG2259 550540010600 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 550540010601 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 550540010602 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 550540010603 4Fe-4S binding domain; Region: Fer4; cl02805 550540010604 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 550540010605 [4Fe-4S] binding site [ion binding]; other site 550540010606 molybdopterin cofactor binding site; other site 550540010607 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 550540010608 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 550540010609 molybdopterin cofactor binding site; other site 550540010610 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 550540010611 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 550540010612 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 550540010613 4Fe-4S binding domain; Region: Fer4; cl02805 550540010614 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 550540010615 [4Fe-4S] binding site [ion binding]; other site 550540010616 molybdopterin cofactor binding site; other site 550540010617 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 550540010618 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 550540010619 molybdopterin cofactor binding site; other site 550540010620 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 550540010621 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 550540010622 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 550540010623 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 550540010624 [4Fe-4S] binding site [ion binding]; other site 550540010625 molybdopterin cofactor binding site; other site 550540010626 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 550540010627 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 550540010628 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 550540010629 molybdopterin cofactor binding site; other site 550540010630 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 550540010631 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 550540010632 Ferredoxin [Energy production and conversion]; Region: COG1146 550540010633 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 550540010634 4Fe-4S dicluster domain; Region: Fer4_9; pfam13187 550540010635 4Fe-4S dicluster domain; Region: Fer4_17; pfam13534 550540010636 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 550540010637 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 550540010638 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 550540010639 Helix-turn-helix domain; Region: HTH_17; pfam12728 550540010640 PBP superfamily domain; Region: PBP_like; pfam12727 550540010641 HAMP domain; Region: HAMP; pfam00672 550540010642 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 550540010643 dimerization interface [polypeptide binding]; other site 550540010644 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 550540010645 dimer interface [polypeptide binding]; other site 550540010646 phosphorylation site [posttranslational modification] 550540010647 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 550540010648 ATP binding site [chemical binding]; other site 550540010649 G-X-G motif; other site 550540010650 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 550540010651 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540010652 active site 550540010653 phosphorylation site [posttranslational modification] 550540010654 intermolecular recognition site; other site 550540010655 dimerization interface [polypeptide binding]; other site 550540010656 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 550540010657 Walker A motif; other site 550540010658 ATP binding site [chemical binding]; other site 550540010659 Walker B motif; other site 550540010660 arginine finger; other site 550540010661 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 550540010662 PBP superfamily domain; Region: PBP_like_2; pfam12849 550540010663 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 550540010664 dimer interface [polypeptide binding]; other site 550540010665 conserved gate region; other site 550540010666 putative PBP binding loops; other site 550540010667 ABC-ATPase subunit interface; other site 550540010668 heme ABC exporter, ATP-binding protein CcmA; Region: ccmA; TIGR01189 550540010669 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 550540010670 Walker A/P-loop; other site 550540010671 ATP binding site [chemical binding]; other site 550540010672 Q-loop/lid; other site 550540010673 ABC transporter signature motif; other site 550540010674 Walker B; other site 550540010675 D-loop; other site 550540010676 H-loop/switch region; other site 550540010677 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 550540010678 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 550540010679 GTP binding site; other site 550540010680 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional; Region: PRK14491 550540010681 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 550540010682 Walker A motif; other site 550540010683 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 550540010684 dimer interface [polypeptide binding]; other site 550540010685 putative functional site; other site 550540010686 putative MPT binding site; other site 550540010687 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 550540010688 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 550540010689 FeS/SAM binding site; other site 550540010690 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 550540010691 Uncharacterized protein conserved in bacteria (DUF2076); Region: DUF2076; pfam09849 550540010692 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 550540010693 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 550540010694 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 550540010695 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 550540010696 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 550540010697 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540010698 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540010699 metal binding site [ion binding]; metal-binding site 550540010700 active site 550540010701 I-site; other site 550540010702 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 550540010703 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 550540010704 Part of AAA domain; Region: AAA_19; pfam13245 550540010705 Family description; Region: UvrD_C_2; pfam13538 550540010706 Membrane fusogenic activity; Region: BMFP; pfam04380 550540010707 BCCT family transporter; Region: BCCT; cl00569 550540010708 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540010709 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 550540010710 Walker A/P-loop; other site 550540010711 ATP binding site [chemical binding]; other site 550540010712 Q-loop/lid; other site 550540010713 ABC transporter signature motif; other site 550540010714 Walker B; other site 550540010715 D-loop; other site 550540010716 H-loop/switch region; other site 550540010717 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 550540010718 dimer interface [polypeptide binding]; other site 550540010719 conserved gate region; other site 550540010720 putative PBP binding loops; other site 550540010721 ABC-ATPase subunit interface; other site 550540010722 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 550540010723 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 550540010724 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 550540010725 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 550540010726 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 550540010727 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 550540010728 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 550540010729 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 550540010730 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 550540010731 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 550540010732 molybdopterin cofactor binding site; other site 550540010733 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 550540010734 molybdopterin cofactor binding site; other site 550540010735 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 550540010736 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 550540010737 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 550540010738 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 550540010739 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 550540010740 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 550540010741 [4Fe-4S] binding site [ion binding]; other site 550540010742 molybdopterin cofactor binding site; other site 550540010743 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 550540010744 molybdopterin cofactor binding site; other site 550540010745 NapD protein; Region: NapD; pfam03927 550540010746 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 550540010747 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 550540010748 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 550540010749 [4Fe-4S] binding site [ion binding]; other site 550540010750 molybdopterin cofactor binding site; other site 550540010751 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 550540010752 molybdopterin cofactor binding site; other site 550540010753 NapD protein; Region: NapD; pfam03927 550540010754 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 550540010755 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 550540010756 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; cl01153 550540010757 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 550540010758 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 550540010759 [4Fe-4S] binding site [ion binding]; other site 550540010760 molybdopterin cofactor binding site; other site 550540010761 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 550540010762 molybdopterin cofactor binding site; other site 550540010763 NapD protein; Region: NapD; pfam03927 550540010764 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 550540010765 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540010766 active site 550540010767 phosphorylation site [posttranslational modification] 550540010768 intermolecular recognition site; other site 550540010769 dimerization interface [polypeptide binding]; other site 550540010770 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 550540010771 DNA binding residues [nucleotide binding] 550540010772 dimerization interface [polypeptide binding]; other site 550540010773 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 550540010774 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 550540010775 substrate binding pocket [chemical binding]; other site 550540010776 membrane-bound complex binding site; other site 550540010777 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 550540010778 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 550540010779 dimer interface [polypeptide binding]; other site 550540010780 phosphorylation site [posttranslational modification] 550540010781 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 550540010782 ATP binding site [chemical binding]; other site 550540010783 Mg2+ binding site [ion binding]; other site 550540010784 G-X-G motif; other site 550540010785 thiosulfate reductase PhsA; Provisional; Region: PRK15488 550540010786 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 550540010787 putative [Fe4-S4] binding site [ion binding]; other site 550540010788 putative molybdopterin cofactor binding site [chemical binding]; other site 550540010789 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 550540010790 putative molybdopterin cofactor binding site; other site 550540010791 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 550540010792 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 550540010793 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 550540010794 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540010795 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 550540010796 Walker A/P-loop; other site 550540010797 ATP binding site [chemical binding]; other site 550540010798 ABC transporter signature motif; other site 550540010799 Walker B; other site 550540010800 D-loop; other site 550540010801 H-loop/switch region; other site 550540010802 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cl17698 550540010803 Asp-box motif; other site 550540010804 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 550540010805 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 550540010806 homodimer interface [polypeptide binding]; other site 550540010807 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540010808 catalytic residue [active] 550540010809 multidrug efflux protein; Reviewed; Region: PRK09579 550540010810 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 550540010811 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 550540010812 HlyD family secretion protein; Region: HlyD_3; pfam13437 550540010813 threonine dehydratase; Reviewed; Region: PRK09224 550540010814 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 550540010815 tetramer interface [polypeptide binding]; other site 550540010816 pyridoxal 5'-phosphate binding site [chemical binding]; other site 550540010817 catalytic residue [active] 550540010818 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 550540010819 putative Ile/Val binding site [chemical binding]; other site 550540010820 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 550540010821 putative Ile/Val binding site [chemical binding]; other site 550540010822 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 550540010823 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 550540010824 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 550540010825 homodimer interface [polypeptide binding]; other site 550540010826 substrate-cofactor binding pocket; other site 550540010827 catalytic residue [active] 550540010828 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 550540010829 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 550540010830 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 550540010831 PYR/PP interface [polypeptide binding]; other site 550540010832 dimer interface [polypeptide binding]; other site 550540010833 TPP binding site [chemical binding]; other site 550540010834 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 550540010835 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 550540010836 TPP-binding site [chemical binding]; other site 550540010837 dimer interface [polypeptide binding]; other site 550540010838 ketol-acid reductoisomerase; Provisional; Region: PRK05479 550540010839 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 550540010840 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 550540010841 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 550540010842 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 550540010843 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 550540010844 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 550540010845 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 550540010846 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 550540010847 putative acyl-acceptor binding pocket; other site 550540010848 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 550540010849 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 550540010850 putative acyl-acceptor binding pocket; other site 550540010851 Uncharacterized conserved protein [Function unknown]; Region: COG1683 550540010852 Transcriptional regulators [Transcription]; Region: GntR; COG1802 550540010853 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 550540010854 DNA-binding site [nucleotide binding]; DNA binding site 550540010855 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 550540010856 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 550540010857 tetramer interface [polypeptide binding]; other site 550540010858 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 550540010859 active site 550540010860 Mg2+/Mn2+ binding site [ion binding]; other site 550540010861 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 550540010862 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 550540010863 dimer interface [polypeptide binding]; other site 550540010864 active site 550540010865 citrylCoA binding site [chemical binding]; other site 550540010866 oxalacetate/citrate binding site [chemical binding]; other site 550540010867 coenzyme A binding site [chemical binding]; other site 550540010868 catalytic triad [active] 550540010869 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 550540010870 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 550540010871 substrate binding site [chemical binding]; other site 550540010872 ligand binding site [chemical binding]; other site 550540010873 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 550540010874 substrate binding site [chemical binding]; other site 550540010875 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 550540010876 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 550540010877 GAF domain; Region: GAF; pfam01590 550540010878 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540010879 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540010880 metal binding site [ion binding]; metal-binding site 550540010881 active site 550540010882 I-site; other site 550540010883 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 550540010884 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 550540010885 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 550540010886 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 550540010887 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 550540010888 catalytic residues [active] 550540010889 hinge region; other site 550540010890 alpha helical domain; other site 550540010891 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 550540010892 serine/threonine protein kinase; Provisional; Region: PRK11768 550540010893 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 550540010894 hypothetical protein; Validated; Region: PRK00029 550540010895 Uncharacterized conserved protein [Function unknown]; Region: COG0397 550540010896 DsrE/DsrF-like family; Region: DrsE; cl00672 550540010897 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 550540010898 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 550540010899 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 550540010900 Lysine efflux permease [General function prediction only]; Region: COG1279 550540010901 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 550540010902 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540010903 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 550540010904 dimerization interface [polypeptide binding]; other site 550540010905 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 550540010906 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 550540010907 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 550540010908 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 550540010909 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 550540010910 substrate binding site [chemical binding]; other site 550540010911 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 550540010912 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 550540010913 substrate binding site [chemical binding]; other site 550540010914 ligand binding site [chemical binding]; other site 550540010915 tartrate dehydrogenase; Region: TTC; TIGR02089 550540010916 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 550540010917 2-isopropylmalate synthase; Validated; Region: PRK00915 550540010918 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 550540010919 active site 550540010920 catalytic residues [active] 550540010921 metal binding site [ion binding]; metal-binding site 550540010922 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 550540010923 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 550540010924 TPR motif; other site 550540010925 binding surface 550540010926 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 550540010927 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 550540010928 ATP binding site [chemical binding]; other site 550540010929 putative Mg++ binding site [ion binding]; other site 550540010930 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 550540010931 nucleotide binding region [chemical binding]; other site 550540010932 ATP-binding site [chemical binding]; other site 550540010933 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 550540010934 HRDC domain; Region: HRDC; pfam00570 550540010935 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 550540010936 CoenzymeA binding site [chemical binding]; other site 550540010937 subunit interaction site [polypeptide binding]; other site 550540010938 PHB binding site; other site 550540010939 Predicted permeases [General function prediction only]; Region: RarD; COG2962 550540010940 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 550540010941 HemY protein N-terminus; Region: HemY_N; pfam07219 550540010942 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 550540010943 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 550540010944 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 550540010945 active site 550540010946 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 550540010947 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 550540010948 domain interfaces; other site 550540010949 active site 550540010950 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 550540010951 adenylate cyclase; Provisional; Region: cyaA; PRK09450 550540010952 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 550540010953 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 550540010954 Domain of unknown function (DUF3541); Region: DUF3541; pfam12060 550540010955 iron donor protein CyaY; Region: FeS_CyaY; TIGR03421 550540010956 putative iron binding site [ion binding]; other site 550540010957 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; pfam13627 550540010958 diaminopimelate decarboxylase; Region: lysA; TIGR01048 550540010959 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 550540010960 active site 550540010961 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 550540010962 substrate binding site [chemical binding]; other site 550540010963 catalytic residues [active] 550540010964 dimer interface [polypeptide binding]; other site 550540010965 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 550540010966 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 550540010967 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 550540010968 Protein of unknown function, DUF484; Region: DUF484; cl17449 550540010969 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 550540010970 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 550540010971 active site 550540010972 Int/Topo IB signature motif; other site 550540010973 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 550540010974 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 550540010975 NAD(P) binding site [chemical binding]; other site 550540010976 active site 550540010977 transcriptional regulator; Provisional; Region: PRK10632 550540010978 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 550540010979 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 550540010980 putative effector binding pocket; other site 550540010981 dimerization interface [polypeptide binding]; other site 550540010982 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 550540010983 active site 550540010984 catalytic residues [active] 550540010985 DNA binding site [nucleotide binding] 550540010986 Int/Topo IB signature motif; other site 550540010987 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 550540010988 active site 550540010989 catalytic residues [active] 550540010990 DNA binding site [nucleotide binding] 550540010991 Int/Topo IB signature motif; other site 550540010992 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 550540010993 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 550540010994 active site 550540010995 metal binding site [ion binding]; metal-binding site 550540010996 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 550540010997 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 550540010998 motif II; other site 550540010999 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 550540011000 Part of AAA domain; Region: AAA_19; pfam13245 550540011001 Family description; Region: UvrD_C_2; pfam13538 550540011002 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 550540011003 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 550540011004 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; cl15377 550540011005 FeS/SAM binding site; other site 550540011006 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 550540011007 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 550540011008 substrate binding site [chemical binding]; other site 550540011009 ATP binding site [chemical binding]; other site 550540011010 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 550540011011 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540011012 metal binding site [ion binding]; metal-binding site 550540011013 active site 550540011014 I-site; other site 550540011015 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 550540011016 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 550540011017 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 550540011018 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 550540011019 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 550540011020 FeS/SAM binding site; other site 550540011021 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 550540011022 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 550540011023 MPT binding site; other site 550540011024 trimer interface [polypeptide binding]; other site 550540011025 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 550540011026 trimer interface [polypeptide binding]; other site 550540011027 dimer interface [polypeptide binding]; other site 550540011028 putative active site [active] 550540011029 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 550540011030 MoaE interaction surface [polypeptide binding]; other site 550540011031 MoeB interaction surface [polypeptide binding]; other site 550540011032 thiocarboxylated glycine; other site 550540011033 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 550540011034 MoaE homodimer interface [polypeptide binding]; other site 550540011035 MoaD interaction [polypeptide binding]; other site 550540011036 active site residues [active] 550540011037 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 550540011038 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 550540011039 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 550540011040 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 550540011041 active site 550540011042 phosphorylation site [posttranslational modification] 550540011043 intermolecular recognition site; other site 550540011044 dimerization interface [polypeptide binding]; other site 550540011045 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 550540011046 DNA binding site [nucleotide binding] 550540011047 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 550540011048 dimerization interface [polypeptide binding]; other site 550540011049 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 550540011050 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 550540011051 ATP binding site [chemical binding]; other site 550540011052 Mg2+ binding site [ion binding]; other site 550540011053 G-X-G motif; other site 550540011054 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 550540011055 active site 550540011056 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 550540011057 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 550540011058 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 550540011059 ATP binding site [chemical binding]; other site 550540011060 substrate interface [chemical binding]; other site 550540011061 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 550540011062 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 550540011063 dimer interface [polypeptide binding]; other site 550540011064 putative functional site; other site 550540011065 putative MPT binding site; other site 550540011066 hypothetical protein; Provisional; Region: PRK11212 550540011067 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 550540011068 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550540011069 Zn2+ binding site [ion binding]; other site 550540011070 Mg2+ binding site [ion binding]; other site 550540011071 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 550540011072 Coenzyme A binding pocket [chemical binding]; other site 550540011073 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 550540011074 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 550540011075 conserved cys residue [active] 550540011076 DNA polymerase I; Provisional; Region: PRK05755 550540011077 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 550540011078 active site 550540011079 metal binding site 1 [ion binding]; metal-binding site 550540011080 putative 5' ssDNA interaction site; other site 550540011081 metal binding site 3; metal-binding site 550540011082 metal binding site 2 [ion binding]; metal-binding site 550540011083 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 550540011084 putative DNA binding site [nucleotide binding]; other site 550540011085 putative metal binding site [ion binding]; other site 550540011086 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 550540011087 active site 550540011088 catalytic site [active] 550540011089 substrate binding site [chemical binding]; other site 550540011090 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 550540011091 active site 550540011092 DNA binding site [nucleotide binding] 550540011093 catalytic site [active] 550540011094 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 550540011095 G1 box; other site 550540011096 GTP/Mg2+ binding site [chemical binding]; other site 550540011097 Switch I region; other site 550540011098 G2 box; other site 550540011099 G3 box; other site 550540011100 Switch II region; other site 550540011101 G4 box; other site 550540011102 G5 box; other site 550540011103 Cytochrome c553 [Energy production and conversion]; Region: COG2863 550540011104 Cytochrome c; Region: Cytochrom_C; cl11414 550540011105 Methyltransferase domain; Region: Methyltransf_23; pfam13489 550540011106 Der GTPase activator; Provisional; Region: PRK05244 550540011107 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 550540011108 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 550540011109 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 550540011110 FeS/SAM binding site; other site 550540011111 HemN C-terminal domain; Region: HemN_C; pfam06969 550540011112 adenosine deaminase; Provisional; Region: PRK09358 550540011113 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 550540011114 active site 550540011115 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 550540011116 Protein of unknown function (DUF1244); Region: DUF1244; pfam06844 550540011117 lysophospholipase L2; Provisional; Region: PRK10749 550540011118 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 550540011119 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 550540011120 PAS fold; Region: PAS_3; pfam08447 550540011121 putative active site [active] 550540011122 heme pocket [chemical binding]; other site 550540011123 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 550540011124 metal binding site [ion binding]; metal-binding site 550540011125 active site 550540011126 I-site; other site 550540011127 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 550540011128 Predicted flavoproteins [General function prediction only]; Region: COG2081 550540011129 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 550540011130 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 550540011131 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 550540011132 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 550540011133 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 550540011134 SecA binding site; other site 550540011135 Preprotein binding site; other site 550540011136 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 550540011137 active site residue [active] 550540011138 phosphoglyceromutase; Provisional; Region: PRK05434 550540011139 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 550540011140 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 550540011141 Peptidase family M23; Region: Peptidase_M23; pfam01551 550540011142 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 550540011143 C-terminal peptidase (prc); Region: prc; TIGR00225 550540011144 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 550540011145 protein binding site [polypeptide binding]; other site 550540011146 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 550540011147 Catalytic dyad [active] 550540011148 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 550540011149 NodB motif; other site 550540011150 putative active site [active] 550540011151 putative catalytic site [active] 550540011152 Zn binding site [ion binding]; other site 550540011153 Flagellin N-methylase; Region: FliB; cl00497 550540011154 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 550540011155 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 550540011156 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 550540011157 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 550540011158 DNA binding residues [nucleotide binding] 550540011159 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 550540011160 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 550540011161 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 550540011162 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 550540011163 Walker A/P-loop; other site 550540011164 ATP binding site [chemical binding]; other site 550540011165 Q-loop/lid; other site 550540011166 ABC transporter signature motif; other site 550540011167 Walker B; other site 550540011168 D-loop; other site 550540011169 H-loop/switch region; other site 550540011170 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 550540011171 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 550540011172 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 550540011173 P loop; other site 550540011174 GTP binding site [chemical binding]; other site 550540011175 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 550540011176 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 550540011177 S-adenosylmethionine binding site [chemical binding]; other site 550540011178 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 550540011179 MarC family integral membrane protein; Region: MarC; cl00919 550540011180 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 550540011181 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 550540011182 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 550540011183 Zn2+ binding site [ion binding]; other site 550540011184 Mg2+ binding site [ion binding]; other site 550540011185 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 550540011186 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 550540011187 putative acyl-acceptor binding pocket; other site 550540011188 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 550540011189 Mechanosensitive ion channel; Region: MS_channel; pfam00924 550540011190 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 550540011191 active sites [active] 550540011192 tetramer interface [polypeptide binding]; other site 550540011193 urocanate hydratase; Provisional; Region: PRK05414 550540011194 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 550540011195 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 550540011196 DNA-binding site [nucleotide binding]; DNA binding site 550540011197 UTRA domain; Region: UTRA; pfam07702 550540011198 imidazolonepropionase; Validated; Region: PRK09356 550540011199 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 550540011200 active site 550540011201 Predicted enolase-phosphatase [Energy production and conversion]; Region: COG4229 550540011202 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 550540011203 active site 550540011204 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 550540011205 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 550540011206 acyl-activating enzyme (AAE) consensus motif; other site 550540011207 putative AMP binding site [chemical binding]; other site 550540011208 putative active site [active] 550540011209 putative CoA binding site [chemical binding]; other site 550540011210 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 550540011211 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 550540011212 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 550540011213 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 550540011214 glutaminase active site [active] 550540011215 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 550540011216 dimer interface [polypeptide binding]; other site 550540011217 active site 550540011218 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 550540011219 dimer interface [polypeptide binding]; other site 550540011220 active site 550540011221 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 550540011222 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 550540011223 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 550540011224 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 550540011225 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 550540011226 Substrate binding site; other site 550540011227 Mg++ binding site; other site 550540011228 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 550540011229 active site 550540011230 substrate binding site [chemical binding]; other site 550540011231 CoA binding site [chemical binding]; other site 550540011232 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 550540011233 EamA-like transporter family; Region: EamA; pfam00892 550540011234 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 550540011235 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 550540011236 gamma subunit interface [polypeptide binding]; other site 550540011237 epsilon subunit interface [polypeptide binding]; other site 550540011238 LBP interface [polypeptide binding]; other site 550540011239 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 550540011240 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 550540011241 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 550540011242 alpha subunit interaction interface [polypeptide binding]; other site 550540011243 Walker A motif; other site 550540011244 ATP binding site [chemical binding]; other site 550540011245 Walker B motif; other site 550540011246 inhibitor binding site; inhibition site 550540011247 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 550540011248 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 550540011249 core domain interface [polypeptide binding]; other site 550540011250 delta subunit interface [polypeptide binding]; other site 550540011251 epsilon subunit interface [polypeptide binding]; other site 550540011252 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 550540011253 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 550540011254 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 550540011255 Walker A motif; other site 550540011256 ATP binding site [chemical binding]; other site 550540011257 Walker B motif; other site 550540011258 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 550540011259 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 550540011260 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 550540011261 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 550540011262 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 550540011263 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 550540011264 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 550540011265 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 550540011266 ATP synthase I chain; Region: ATP_synt_I; cl09170 550540011267 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 550540011268 ParB-like nuclease domain; Region: ParBc; pfam02195 550540011269 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 550540011270 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 550540011271 P loop; other site 550540011272 Nucleotide binding site [chemical binding]; other site 550540011273 DTAP/Switch II; other site 550540011274 Switch I; other site 550540011275 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 550540011276 Magnesium ion binding site [ion binding]; other site 550540011277 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 550540011278 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 550540011279 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 550540011280 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 550540011281 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 550540011282 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 550540011283 FMN-binding protein MioC; Provisional; Region: PRK09004 550540011284 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 550540011285 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 550540011286 trmE is a tRNA modification GTPase; Region: trmE; cd04164 550540011287 G1 box; other site 550540011288 GTP/Mg2+ binding site [chemical binding]; other site 550540011289 Switch I region; other site 550540011290 G2 box; other site 550540011291 Switch II region; other site 550540011292 G3 box; other site 550540011293 G4 box; other site 550540011294 G5 box; other site 550540011295 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 550540011296 membrane protein insertase; Provisional; Region: PRK01318 550540011297 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 550540011298 Haemolytic domain; Region: Haemolytic; pfam01809 550540011299 ribonuclease P; Reviewed; Region: rnpA; PRK01732 550540011300 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399