-- dump date 20140619_223518 -- class Genbank::misc_feature -- table misc_feature_note -- id note 511062000001 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 511062000002 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 511062000003 trimer interface [polypeptide binding]; other site 511062000004 putative metal binding site [ion binding]; other site 511062000005 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 511062000006 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 511062000007 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 511062000008 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 511062000009 shikimate binding site; other site 511062000010 NAD(P) binding site [chemical binding]; other site 511062000011 transcriptional regulator HdfR; Provisional; Region: PRK03601 511062000012 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062000013 LysR substrate binding domain; Region: LysR_substrate; pfam03466 511062000014 dimerization interface [polypeptide binding]; other site 511062000015 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 511062000016 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 511062000017 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 511062000018 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 511062000019 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 511062000020 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 511062000021 Protein of unknown function (DUF494); Region: DUF494; pfam04361 511062000022 hypothetical protein; Provisional; Region: PRK10736 511062000023 DNA protecting protein DprA; Region: dprA; TIGR00732 511062000024 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 511062000025 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 511062000026 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 511062000027 active site 511062000028 catalytic residues [active] 511062000029 metal binding site [ion binding]; metal-binding site 511062000030 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 511062000031 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 511062000032 putative active site [active] 511062000033 substrate binding site [chemical binding]; other site 511062000034 putative cosubstrate binding site; other site 511062000035 catalytic site [active] 511062000036 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 511062000037 substrate binding site [chemical binding]; other site 511062000038 16S rRNA methyltransferase B; Provisional; Region: PRK10901 511062000039 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 511062000040 putative RNA binding site [nucleotide binding]; other site 511062000041 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 511062000042 S-adenosylmethionine binding site [chemical binding]; other site 511062000043 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 511062000044 TrkA-N domain; Region: TrkA_N; pfam02254 511062000045 TrkA-C domain; Region: TrkA_C; pfam02080 511062000046 TrkA-N domain; Region: TrkA_N; pfam02254 511062000047 TrkA-C domain; Region: TrkA_C; pfam02080 511062000048 RmuC family; Region: RmuC; pfam02646 511062000049 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 511062000050 substrate binding site [chemical binding]; other site 511062000051 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 511062000052 ATP binding site [chemical binding]; other site 511062000053 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 511062000054 HAMP domain; Region: HAMP; pfam00672 511062000055 dimerization interface [polypeptide binding]; other site 511062000056 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 511062000057 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062000058 dimer interface [polypeptide binding]; other site 511062000059 putative CheW interface [polypeptide binding]; other site 511062000060 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 511062000061 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 511062000062 catalytic residue [active] 511062000063 S4 domain; Region: S4_2; cl17325 511062000064 Predicted permease [General function prediction only]; Region: COG2056 511062000065 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 511062000066 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl17322 511062000067 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 511062000068 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 511062000069 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062000070 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 511062000071 dimerization interface [polypeptide binding]; other site 511062000072 substrate binding pocket [chemical binding]; other site 511062000073 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 511062000074 MOSC domain; Region: MOSC; pfam03473 511062000075 3-alpha domain; Region: 3-alpha; pfam03475 511062000076 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 511062000077 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 511062000078 putative ligand binding site [chemical binding]; other site 511062000079 putative NAD binding site [chemical binding]; other site 511062000080 catalytic site [active] 511062000081 META domain; Region: META; cl01245 511062000082 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 511062000083 catalytic residues [active] 511062000084 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 511062000085 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 511062000086 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 511062000087 putative dimer interface [polypeptide binding]; other site 511062000088 N-terminal domain interface [polypeptide binding]; other site 511062000089 putative substrate binding pocket (H-site) [chemical binding]; other site 511062000090 Pirin-related protein [General function prediction only]; Region: COG1741 511062000091 Pirin; Region: Pirin; pfam02678 511062000092 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 511062000093 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 511062000094 Protein of unknown function (DUF461); Region: DUF461; pfam04314 511062000095 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 511062000096 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062000097 active site 511062000098 phosphorylation site [posttranslational modification] 511062000099 intermolecular recognition site; other site 511062000100 dimerization interface [polypeptide binding]; other site 511062000101 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 511062000102 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 511062000103 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 511062000104 ATP binding site [chemical binding]; other site 511062000105 Mg2+ binding site [ion binding]; other site 511062000106 G-X-G motif; other site 511062000107 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 511062000108 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 511062000109 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 511062000110 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 511062000111 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 511062000112 catalytic triad [active] 511062000113 putative aminotransferase; Validated; Region: PRK07480 511062000114 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 511062000115 inhibitor-cofactor binding pocket; inhibition site 511062000116 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062000117 catalytic residue [active] 511062000118 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 511062000119 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 511062000120 NAD(P) binding site [chemical binding]; other site 511062000121 catalytic residues [active] 511062000122 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 511062000123 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 511062000124 DNA binding residues [nucleotide binding] 511062000125 dimerization interface [polypeptide binding]; other site 511062000126 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 511062000127 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_1; cd09996 511062000128 active site 511062000129 Zn binding site [ion binding]; other site 511062000130 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 511062000131 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 511062000132 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 511062000133 non-specific DNA binding site [nucleotide binding]; other site 511062000134 salt bridge; other site 511062000135 sequence-specific DNA binding site [nucleotide binding]; other site 511062000136 Cupin domain; Region: Cupin_2; pfam07883 511062000137 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 511062000138 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 511062000139 DTAP/Switch II; other site 511062000140 Switch I; other site 511062000141 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 511062000142 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 511062000143 Carbon starvation protein CstA; Region: CstA; pfam02554 511062000144 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 511062000145 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 511062000146 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 511062000147 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 511062000148 dimer interface [polypeptide binding]; other site 511062000149 phosphorylation site [posttranslational modification] 511062000150 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 511062000151 ATP binding site [chemical binding]; other site 511062000152 Mg2+ binding site [ion binding]; other site 511062000153 G-X-G motif; other site 511062000154 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 511062000155 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062000156 active site 511062000157 phosphorylation site [posttranslational modification] 511062000158 intermolecular recognition site; other site 511062000159 dimerization interface [polypeptide binding]; other site 511062000160 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 511062000161 Walker A motif; other site 511062000162 ATP binding site [chemical binding]; other site 511062000163 Walker B motif; other site 511062000164 arginine finger; other site 511062000165 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 511062000166 OsmC-like protein; Region: OsmC; pfam02566 511062000167 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 511062000168 DctM-like transporters; Region: DctM; pfam06808 511062000169 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 511062000170 Ligand Binding Site [chemical binding]; other site 511062000171 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 511062000172 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 511062000173 rpsU-divergently transcribed protein; Region: diverge_rpsU; TIGR02396 511062000174 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062000175 active site 511062000176 phosphorylation site [posttranslational modification] 511062000177 intermolecular recognition site; other site 511062000178 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 511062000179 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 511062000180 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 511062000181 dimer interface [polypeptide binding]; other site 511062000182 phosphorylation site [posttranslational modification] 511062000183 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 511062000184 ATP binding site [chemical binding]; other site 511062000185 Mg2+ binding site [ion binding]; other site 511062000186 G-X-G motif; other site 511062000187 Response regulator receiver domain; Region: Response_reg; pfam00072 511062000188 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062000189 active site 511062000190 phosphorylation site [posttranslational modification] 511062000191 intermolecular recognition site; other site 511062000192 dimerization interface [polypeptide binding]; other site 511062000193 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 511062000194 putative binding surface; other site 511062000195 active site 511062000196 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 511062000197 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 511062000198 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062000199 active site 511062000200 phosphorylation site [posttranslational modification] 511062000201 intermolecular recognition site; other site 511062000202 dimerization interface [polypeptide binding]; other site 511062000203 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 511062000204 DNA binding site [nucleotide binding] 511062000205 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 511062000206 hypothetical protein; Provisional; Region: PRK05409 511062000207 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 511062000208 RNA polymerase sigma-70 factor, TIGR02943 family; Region: Sig70_famx1 511062000209 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 511062000210 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 511062000211 DNA binding residues [nucleotide binding] 511062000212 Putative zinc-finger; Region: zf-HC2; pfam13490 511062000213 PAS domain; Region: PAS_9; pfam13426 511062000214 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 511062000215 putative active site [active] 511062000216 heme pocket [chemical binding]; other site 511062000217 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 511062000218 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062000219 dimer interface [polypeptide binding]; other site 511062000220 putative CheW interface [polypeptide binding]; other site 511062000221 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 511062000222 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 511062000223 MltA-interacting protein MipA; Region: MipA; cl01504 511062000224 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 511062000225 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 511062000226 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 511062000227 DctM-like transporters; Region: DctM; pfam06808 511062000228 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 511062000229 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 511062000230 Ligand Binding Site [chemical binding]; other site 511062000231 serine/threonine transporter SstT; Provisional; Region: PRK13628 511062000232 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 511062000233 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 511062000234 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 511062000235 dimer interface [polypeptide binding]; other site 511062000236 conserved gate region; other site 511062000237 ABC-ATPase subunit interface; other site 511062000238 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 511062000239 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 511062000240 Walker A/P-loop; other site 511062000241 ATP binding site [chemical binding]; other site 511062000242 Q-loop/lid; other site 511062000243 ABC transporter signature motif; other site 511062000244 Walker B; other site 511062000245 D-loop; other site 511062000246 H-loop/switch region; other site 511062000247 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 511062000248 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 511062000249 putative PBP binding loops; other site 511062000250 dimer interface [polypeptide binding]; other site 511062000251 ABC-ATPase subunit interface; other site 511062000252 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 511062000253 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 511062000254 active site 511062000255 non-prolyl cis peptide bond; other site 511062000256 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08642 511062000257 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 511062000258 NAD(P) binding site [chemical binding]; other site 511062000259 active site 511062000260 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 511062000261 active site 511062000262 substrate binding pocket [chemical binding]; other site 511062000263 dimer interface [polypeptide binding]; other site 511062000264 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062000265 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062000266 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 511062000267 dimerization interface [polypeptide binding]; other site 511062000268 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 511062000269 dimer interface [polypeptide binding]; other site 511062000270 FMN binding site [chemical binding]; other site 511062000271 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 511062000272 EamA-like transporter family; Region: EamA; pfam00892 511062000273 Na(+)/urea-polyamine cotransporter DUR3, and related proteins; solute-binding domain; Region: SLC5sbd_DUR3; cd11476 511062000274 Na binding site [ion binding]; other site 511062000275 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062000276 Q-loop/lid; other site 511062000277 ABC transporter signature motif; other site 511062000278 Walker B; other site 511062000279 D-loop; other site 511062000280 H-loop/switch region; other site 511062000281 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 511062000282 GAF domain; Region: GAF; pfam01590 511062000283 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 511062000284 Walker A motif; other site 511062000285 ATP binding site [chemical binding]; other site 511062000286 Walker B motif; other site 511062000287 arginine finger; other site 511062000288 iron-sulfur cluster repair di-iron protein; Provisional; Region: PRK10992 511062000289 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 511062000290 Hemerythrin-like domain; Region: Hr-like; cd12108 511062000291 Fe binding site [ion binding]; other site 511062000292 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 511062000293 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 511062000294 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 511062000295 Pirin-related protein [General function prediction only]; Region: COG1741 511062000296 Pirin; Region: Pirin; pfam02678 511062000297 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 511062000298 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 511062000299 PAS fold; Region: PAS_3; pfam08447 511062000300 putative active site [active] 511062000301 heme pocket [chemical binding]; other site 511062000302 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062000303 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062000304 metal binding site [ion binding]; metal-binding site 511062000305 active site 511062000306 I-site; other site 511062000307 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 511062000308 Protein of unknown function, DUF393; Region: DUF393; pfam04134 511062000309 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 511062000310 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 511062000311 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 511062000312 NAD binding site [chemical binding]; other site 511062000313 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 511062000314 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 511062000315 Walker A/P-loop; other site 511062000316 ATP binding site [chemical binding]; other site 511062000317 Q-loop/lid; other site 511062000318 ABC transporter signature motif; other site 511062000319 Walker B; other site 511062000320 D-loop; other site 511062000321 H-loop/switch region; other site 511062000322 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 511062000323 FecCD transport family; Region: FecCD; pfam01032 511062000324 ABC-ATPase subunit interface; other site 511062000325 dimer interface [polypeptide binding]; other site 511062000326 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 511062000327 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 511062000328 ABC-ATPase subunit interface; other site 511062000329 dimer interface [polypeptide binding]; other site 511062000330 putative PBP binding regions; other site 511062000331 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 511062000332 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 511062000333 intersubunit interface [polypeptide binding]; other site 511062000334 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 511062000335 Low molecular weight phosphatase family; Region: LMWPc; cl00105 511062000336 active site 511062000337 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062000338 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062000339 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 511062000340 dimerization interface [polypeptide binding]; other site 511062000341 putative outer membrane receptor; Provisional; Region: PRK13513 511062000342 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 511062000343 N-terminal plug; other site 511062000344 ligand-binding site [chemical binding]; other site 511062000345 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 511062000346 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 511062000347 ABC-ATPase subunit interface; other site 511062000348 dimer interface [polypeptide binding]; other site 511062000349 putative PBP binding regions; other site 511062000350 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 511062000351 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 511062000352 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 511062000353 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 511062000354 intersubunit interface [polypeptide binding]; other site 511062000355 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 511062000356 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 511062000357 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 511062000358 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 511062000359 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 511062000360 N-terminal plug; other site 511062000361 ligand-binding site [chemical binding]; other site 511062000362 SprA-related family; Region: SprA-related; pfam12118 511062000363 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 511062000364 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 511062000365 HlyD family secretion protein; Region: HlyD_3; pfam13437 511062000366 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 511062000367 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 511062000368 Walker A/P-loop; other site 511062000369 ATP binding site [chemical binding]; other site 511062000370 Q-loop/lid; other site 511062000371 ABC transporter signature motif; other site 511062000372 Walker B; other site 511062000373 D-loop; other site 511062000374 H-loop/switch region; other site 511062000375 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 511062000376 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 511062000377 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 511062000378 FtsX-like permease family; Region: FtsX; pfam02687 511062000379 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 511062000380 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 511062000381 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 511062000382 DNA-binding site [nucleotide binding]; DNA binding site 511062000383 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 511062000384 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062000385 homodimer interface [polypeptide binding]; other site 511062000386 catalytic residue [active] 511062000387 EamA-like transporter family; Region: EamA; cl17759 511062000388 EamA-like transporter family; Region: EamA; pfam00892 511062000389 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 511062000390 Cytochrome c; Region: Cytochrom_C; cl11414 511062000391 Cytochrome c; Region: Cytochrom_C; cl11414 511062000392 Cytochrome c [Energy production and conversion]; Region: COG3258 511062000393 Cytochrome c; Region: Cytochrom_C; pfam00034 511062000394 Protein of unknown function (DUF3187); Region: DUF3187; pfam11383 511062000395 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39G; cd02423 511062000396 putative active site [active] 511062000397 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 511062000398 Mechanosensitive ion channel; Region: MS_channel; pfam00924 511062000399 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 511062000400 putative C-terminal domain interface [polypeptide binding]; other site 511062000401 putative GSH binding site (G-site) [chemical binding]; other site 511062000402 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 511062000403 putative dimer interface [polypeptide binding]; other site 511062000404 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 511062000405 putative N-terminal domain interface [polypeptide binding]; other site 511062000406 putative dimer interface [polypeptide binding]; other site 511062000407 putative substrate binding pocket (H-site) [chemical binding]; other site 511062000408 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 511062000409 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062000410 Walker A/P-loop; other site 511062000411 ATP binding site [chemical binding]; other site 511062000412 Q-loop/lid; other site 511062000413 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062000414 ABC transporter signature motif; other site 511062000415 Walker B; other site 511062000416 D-loop; other site 511062000417 H-loop/switch region; other site 511062000418 exonuclease subunit SbcD; Provisional; Region: PRK10966 511062000419 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 511062000420 active site 511062000421 metal binding site [ion binding]; metal-binding site 511062000422 DNA binding site [nucleotide binding] 511062000423 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 511062000424 EamA-like transporter family; Region: EamA; pfam00892 511062000425 EamA-like transporter family; Region: EamA; pfam00892 511062000426 glutathionine S-transferase; Provisional; Region: PRK10542 511062000427 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 511062000428 C-terminal domain interface [polypeptide binding]; other site 511062000429 GSH binding site (G-site) [chemical binding]; other site 511062000430 dimer interface [polypeptide binding]; other site 511062000431 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 511062000432 dimer interface [polypeptide binding]; other site 511062000433 substrate binding pocket (H-site) [chemical binding]; other site 511062000434 N-terminal domain interface [polypeptide binding]; other site 511062000435 MarR family; Region: MarR_2; cl17246 511062000436 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 511062000437 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 511062000438 ATP-dependent DNA helicase Rep; Provisional; Region: PRK10919 511062000439 Part of AAA domain; Region: AAA_19; pfam13245 511062000440 Family description; Region: UvrD_C_2; pfam13538 511062000441 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 511062000442 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 511062000443 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 511062000444 catalytic residue [active] 511062000445 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 511062000446 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 511062000447 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 511062000448 putative ATP binding site [chemical binding]; other site 511062000449 putative substrate interface [chemical binding]; other site 511062000450 ketol-acid reductoisomerase; Validated; Region: PRK05225 511062000451 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 511062000452 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 511062000453 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 511062000454 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062000455 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 511062000456 The C-terminal substrate binding of LysR-type transcriptional regulator IlvY, which activates the expression of ilvC gene that encoding acetohydroxy acid isomeroreductase for the biosynthesis of branched amino acids; contains the type 2 periplasmic bindin; Region: PBP2_IlvY; cd08430 511062000457 putative dimerization interface [polypeptide binding]; other site 511062000458 Membrane fusogenic activity; Region: BMFP; pfam04380 511062000459 FMN reductase; Validated; Region: fre; PRK08051 511062000460 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 511062000461 FAD binding pocket [chemical binding]; other site 511062000462 FAD binding motif [chemical binding]; other site 511062000463 phosphate binding motif [ion binding]; other site 511062000464 beta-alpha-beta structure motif; other site 511062000465 NAD binding pocket [chemical binding]; other site 511062000466 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 511062000467 transcription termination factor Rho; Provisional; Region: rho; PRK09376 511062000468 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 511062000469 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 511062000470 RNA binding site [nucleotide binding]; other site 511062000471 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 511062000472 multimer interface [polypeptide binding]; other site 511062000473 Walker A motif; other site 511062000474 ATP binding site [chemical binding]; other site 511062000475 Walker B motif; other site 511062000476 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 511062000477 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 511062000478 catalytic residues [active] 511062000479 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 511062000480 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 511062000481 ATP binding site [chemical binding]; other site 511062000482 Mg++ binding site [ion binding]; other site 511062000483 motif III; other site 511062000484 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 511062000485 nucleotide binding region [chemical binding]; other site 511062000486 ATP-binding site [chemical binding]; other site 511062000487 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 511062000488 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 511062000489 D-serine dehydratase; Provisional; Region: PRK02991 511062000490 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 511062000491 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 511062000492 catalytic residue [active] 511062000493 DNA-binding transcriptional regulator DsdC; Provisional; Region: PRK10086 511062000494 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062000495 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 511062000496 dimerization interface [polypeptide binding]; other site 511062000497 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 511062000498 dimer interface [polypeptide binding]; other site 511062000499 active site 511062000500 aspartate-rich active site metal binding site; other site 511062000501 allosteric magnesium binding site [ion binding]; other site 511062000502 Schiff base residues; other site 511062000503 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 511062000504 active site 511062000505 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 511062000506 sec-independent translocase; Provisional; Region: PRK01770 511062000507 twin arginine translocase protein A; Provisional; Region: tatA; PRK04598 511062000508 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 511062000509 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 511062000510 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 511062000511 SCP-2 sterol transfer family; Region: SCP2; pfam02036 511062000512 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 511062000513 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 511062000514 S-adenosylmethionine binding site [chemical binding]; other site 511062000515 CrcB-like protein; Region: CRCB; cl09114 511062000516 Tautomerase enzyme; Region: Tautomerase; pfam01361 511062000517 active site 1 [active] 511062000518 dimer interface [polypeptide binding]; other site 511062000519 hexamer interface [polypeptide binding]; other site 511062000520 active site 2 [active] 511062000521 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 511062000522 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 511062000523 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 511062000524 alphaNTD homodimer interface [polypeptide binding]; other site 511062000525 alphaNTD - beta interaction site [polypeptide binding]; other site 511062000526 alphaNTD - beta' interaction site [polypeptide binding]; other site 511062000527 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 511062000528 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 511062000529 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 511062000530 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 511062000531 RNA binding surface [nucleotide binding]; other site 511062000532 30S ribosomal protein S11; Validated; Region: PRK05309 511062000533 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 511062000534 30S ribosomal protein S13; Region: bact_S13; TIGR03631 511062000535 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 511062000536 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 511062000537 SecY translocase; Region: SecY; pfam00344 511062000538 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 511062000539 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 511062000540 23S rRNA binding site [nucleotide binding]; other site 511062000541 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 511062000542 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 511062000543 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 511062000544 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 511062000545 5S rRNA interface [nucleotide binding]; other site 511062000546 23S rRNA interface [nucleotide binding]; other site 511062000547 L5 interface [polypeptide binding]; other site 511062000548 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 511062000549 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 511062000550 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 511062000551 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 511062000552 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 511062000553 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 511062000554 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 511062000555 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 511062000556 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 511062000557 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 511062000558 RNA binding site [nucleotide binding]; other site 511062000559 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 511062000560 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 511062000561 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 511062000562 23S rRNA interface [nucleotide binding]; other site 511062000563 putative translocon interaction site; other site 511062000564 signal recognition particle (SRP54) interaction site; other site 511062000565 L23 interface [polypeptide binding]; other site 511062000566 trigger factor interaction site; other site 511062000567 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 511062000568 23S rRNA interface [nucleotide binding]; other site 511062000569 5S rRNA interface [nucleotide binding]; other site 511062000570 putative antibiotic binding site [chemical binding]; other site 511062000571 L25 interface [polypeptide binding]; other site 511062000572 L27 interface [polypeptide binding]; other site 511062000573 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 511062000574 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 511062000575 G-X-X-G motif; other site 511062000576 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 511062000577 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 511062000578 putative translocon binding site; other site 511062000579 protein-rRNA interface [nucleotide binding]; other site 511062000580 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 511062000581 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 511062000582 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 511062000583 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 511062000584 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 511062000585 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 511062000586 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 511062000587 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 511062000588 argininosuccinate lyase; Provisional; Region: PRK04833 511062000589 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 511062000590 active sites [active] 511062000591 tetramer interface [polypeptide binding]; other site 511062000592 argininosuccinate synthase; Provisional; Region: PRK13820 511062000593 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 511062000594 ANP binding site [chemical binding]; other site 511062000595 Substrate Binding Site II [chemical binding]; other site 511062000596 Substrate Binding Site I [chemical binding]; other site 511062000597 ornithine carbamoyltransferase; Provisional; Region: PRK14805 511062000598 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 511062000599 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 511062000600 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 511062000601 nucleotide binding site [chemical binding]; other site 511062000602 substrate binding site [chemical binding]; other site 511062000603 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 511062000604 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 511062000605 acetylornithine deacetylase; Provisional; Region: PRK05111 511062000606 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 511062000607 metal binding site [ion binding]; metal-binding site 511062000608 putative dimer interface [polypeptide binding]; other site 511062000609 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 511062000610 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 511062000611 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 511062000612 putative deacylase active site [active] 511062000613 Imelysin; Region: Peptidase_M75; cl09159 511062000614 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 511062000615 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 511062000616 Imelysin; Region: Peptidase_M75; cl09159 511062000617 Protein of unknown function (DUF1513); Region: DUF1513; pfam07433 511062000618 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 511062000619 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_15; cd04673 511062000620 nudix motif; other site 511062000621 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 511062000622 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 511062000623 nucleotide binding site [chemical binding]; other site 511062000624 substrate binding site [chemical binding]; other site 511062000625 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 511062000626 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 511062000627 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 511062000628 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 511062000629 homodimer interface [polypeptide binding]; other site 511062000630 substrate-cofactor binding pocket; other site 511062000631 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062000632 catalytic residue [active] 511062000633 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 511062000634 dimerization interface [polypeptide binding]; other site 511062000635 DNA binding site [nucleotide binding] 511062000636 corepressor binding sites; other site 511062000637 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 511062000638 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 511062000639 active site 511062000640 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 511062000641 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 511062000642 dimer interface [polypeptide binding]; other site 511062000643 ADP-ribose binding site [chemical binding]; other site 511062000644 active site 511062000645 nudix motif; other site 511062000646 metal binding site [ion binding]; metal-binding site 511062000647 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 511062000648 RNA binding surface [nucleotide binding]; other site 511062000649 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 511062000650 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 511062000651 dimerization interface [polypeptide binding]; other site 511062000652 domain crossover interface; other site 511062000653 redox-dependent activation switch; other site 511062000654 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_HprK; cl00270 511062000655 phosphoenolpyruvate carboxykinase; Provisional; Region: PRK09344 511062000656 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 511062000657 active site 511062000658 metal-binding site [ion binding] 511062000659 nucleotide-binding site [chemical binding]; other site 511062000660 PAS domain S-box; Region: sensory_box; TIGR00229 511062000661 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 511062000662 PAS domain; Region: PAS_9; pfam13426 511062000663 putative active site [active] 511062000664 heme pocket [chemical binding]; other site 511062000665 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062000666 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062000667 metal binding site [ion binding]; metal-binding site 511062000668 active site 511062000669 I-site; other site 511062000670 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 511062000671 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062000672 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062000673 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 511062000674 dimerization interface [polypeptide binding]; other site 511062000675 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 511062000676 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 511062000677 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 511062000678 putative DNA binding site [nucleotide binding]; other site 511062000679 putative Zn2+ binding site [ion binding]; other site 511062000680 AsnC family; Region: AsnC_trans_reg; pfam01037 511062000681 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; pfam07073 511062000682 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 511062000683 Protein of unknown function (DUF1826); Region: DUF1826; pfam08856 511062000684 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 511062000685 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 511062000686 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 511062000687 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 511062000688 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 511062000689 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 511062000690 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 511062000691 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 511062000692 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 511062000693 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 511062000694 RNA binding site [nucleotide binding]; other site 511062000695 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; pfam03747 511062000696 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 511062000697 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 511062000698 active site 511062000699 uracil binding [chemical binding]; other site 511062000700 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 511062000701 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 511062000702 Coenzyme A binding pocket [chemical binding]; other site 511062000703 BCCT family transporter; Region: BCCT; pfam02028 511062000704 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 511062000705 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 511062000706 putative catalytic site [active] 511062000707 putative phosphate binding site [ion binding]; other site 511062000708 putative metal binding site [ion binding]; other site 511062000709 thymidine phosphorylase; Provisional; Region: PRK04350 511062000710 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 511062000711 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 511062000712 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 511062000713 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 511062000714 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 511062000715 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 511062000716 active site 511062000717 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 511062000718 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 511062000719 Beta-Casp domain; Region: Beta-Casp; smart01027 511062000720 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 511062000721 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 511062000722 UbiA prenyltransferase family; Region: UbiA; pfam01040 511062000723 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 511062000724 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 511062000725 Subunit III/IV interface [polypeptide binding]; other site 511062000726 Subunit I/III interface [polypeptide binding]; other site 511062000727 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 511062000728 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 511062000729 D-pathway; other site 511062000730 Putative ubiquinol binding site [chemical binding]; other site 511062000731 Low-spin heme (heme b) binding site [chemical binding]; other site 511062000732 Putative water exit pathway; other site 511062000733 Binuclear center (heme o3/CuB) [ion binding]; other site 511062000734 K-pathway; other site 511062000735 Putative proton exit pathway; other site 511062000736 cytochrome o ubiquinol oxidase subunit II; Provisional; Region: PRK10525 511062000737 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 511062000738 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 511062000739 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 511062000740 dUMP phosphatase; Provisional; Region: PRK09449 511062000741 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 511062000742 motif II; other site 511062000743 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 511062000744 Transposase; Region: DEDD_Tnp_IS110; pfam01548 511062000745 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 511062000746 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 511062000747 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 511062000748 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 511062000749 hypothetical protein; Provisional; Region: PRK11171 511062000750 Cupin domain; Region: Cupin_2; pfam07883 511062000751 Cupin domain; Region: Cupin_2; pfam07883 511062000752 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062000753 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062000754 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 511062000755 dimerization interface [polypeptide binding]; other site 511062000756 Transcriptional regulators [Transcription]; Region: FadR; COG2186 511062000757 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 511062000758 DNA-binding site [nucleotide binding]; DNA binding site 511062000759 FCD domain; Region: FCD; pfam07729 511062000760 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 511062000761 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 511062000762 Na binding site [ion binding]; other site 511062000763 putative substrate binding site [chemical binding]; other site 511062000764 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 511062000765 nucleobase-cation-symport-1 (NCS1) transporter Mhp1-like; solute-binding domain; Region: SLC-NCS1sbd_Mhp1-like; cd11483 511062000766 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 511062000767 Na binding site [ion binding]; other site 511062000768 substrate binding site [chemical binding]; other site 511062000769 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 511062000770 hypothetical protein; Provisional; Region: PRK12378 511062000771 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cd00322 511062000772 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 511062000773 FAD binding pocket [chemical binding]; other site 511062000774 conserved FAD binding motif [chemical binding]; other site 511062000775 phosphate binding motif [ion binding]; other site 511062000776 beta-alpha-beta structure motif; other site 511062000777 NAD binding pocket [chemical binding]; other site 511062000778 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 511062000779 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 511062000780 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 511062000781 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 511062000782 active site 511062000783 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 511062000784 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 511062000785 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 511062000786 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 511062000787 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 511062000788 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 511062000789 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 511062000790 SecA binding site; other site 511062000791 Preprotein binding site; other site 511062000792 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 511062000793 active site residue [active] 511062000794 phosphoglyceromutase; Provisional; Region: PRK05434 511062000795 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 511062000796 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 511062000797 Peptidase family M23; Region: Peptidase_M23; pfam01551 511062000798 Flagellin N-methylase; Region: FliB; cl00497 511062000799 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 511062000800 putative active site pocket [active] 511062000801 dimerization interface [polypeptide binding]; other site 511062000802 putative catalytic residue [active] 511062000803 Acetyltransferase (GNAT) domain; Region: DUF3749; pfam12568 511062000804 fumarate hydratase; Reviewed; Region: fumC; PRK00485 511062000805 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 511062000806 tetramer interface [polypeptide binding]; other site 511062000807 DNA photolyase; Region: DNA_photolyase; pfam00875 511062000808 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 511062000809 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 511062000810 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 511062000811 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 511062000812 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 511062000813 motif II; other site 511062000814 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 511062000815 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 511062000816 catalytic residue [active] 511062000817 transcriptional regulator protein; Region: phnR; TIGR03337 511062000818 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 511062000819 DNA-binding site [nucleotide binding]; DNA binding site 511062000820 UTRA domain; Region: UTRA; pfam07702 511062000821 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 511062000822 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062000823 Walker A/P-loop; other site 511062000824 ATP binding site [chemical binding]; other site 511062000825 Q-loop/lid; other site 511062000826 ABC transporter signature motif; other site 511062000827 Walker B; other site 511062000828 D-loop; other site 511062000829 H-loop/switch region; other site 511062000830 TOBE domain; Region: TOBE_2; pfam08402 511062000831 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 511062000832 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 511062000833 dimer interface [polypeptide binding]; other site 511062000834 conserved gate region; other site 511062000835 putative PBP binding loops; other site 511062000836 ABC-ATPase subunit interface; other site 511062000837 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 511062000838 dimer interface [polypeptide binding]; other site 511062000839 conserved gate region; other site 511062000840 putative PBP binding loops; other site 511062000841 ABC-ATPase subunit interface; other site 511062000842 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 511062000843 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 511062000844 Bacterial fructose-1,6-bisphosphatase, glpX-encoded; Region: FBPase_glpX; pfam03320 511062000845 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 511062000846 putative active site [active] 511062000847 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 511062000848 active site clefts [active] 511062000849 zinc binding site [ion binding]; other site 511062000850 dimer interface [polypeptide binding]; other site 511062000851 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 511062000852 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 511062000853 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 511062000854 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 511062000855 DNA binding residues [nucleotide binding] 511062000856 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 511062000857 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 511062000858 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 511062000859 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062000860 Walker A/P-loop; other site 511062000861 ATP binding site [chemical binding]; other site 511062000862 Q-loop/lid; other site 511062000863 ABC transporter signature motif; other site 511062000864 Walker B; other site 511062000865 D-loop; other site 511062000866 H-loop/switch region; other site 511062000867 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 511062000868 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 511062000869 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 511062000870 P loop; other site 511062000871 GTP binding site [chemical binding]; other site 511062000872 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 511062000873 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 511062000874 S-adenosylmethionine binding site [chemical binding]; other site 511062000875 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 511062000876 3-mercaptopyruvate sulfurtransferase; Region: PLN02723 511062000877 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 511062000878 active site residue [active] 511062000879 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 511062000880 active site residue [active] 511062000881 Protein of unknown function (DUF1422); Region: DUF1422; pfam07226 511062000882 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 511062000883 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 511062000884 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 511062000885 Na2 binding site [ion binding]; other site 511062000886 putative substrate binding site 1 [chemical binding]; other site 511062000887 Na binding site 1 [ion binding]; other site 511062000888 putative substrate binding site 2 [chemical binding]; other site 511062000889 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 511062000890 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 511062000891 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 511062000892 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 511062000893 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 511062000894 Protein of unknown function (DUF2500); Region: DUF2500; pfam10694 511062000895 Protein of unknown function, DUF; Region: DUF411; cl01142 511062000896 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 511062000897 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 511062000898 active site 511062000899 Zn binding site [ion binding]; other site 511062000900 Predicted transcriptional regulator [Transcription]; Region: COG2378 511062000901 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 511062000902 WYL domain; Region: WYL; pfam13280 511062000903 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 511062000904 nucleotide binding site [chemical binding]; other site 511062000905 cell division protein FtsZ; Validated; Region: PRK09330 511062000906 SulA interaction site; other site 511062000907 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 511062000908 formimidoylglutamase; Provisional; Region: PRK13775 511062000909 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 511062000910 putative active site [active] 511062000911 putative metal binding site [ion binding]; other site 511062000912 Transcriptional regulator [Transcription]; Region: IclR; COG1414 511062000913 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 511062000914 Bacterial transcriptional regulator; Region: IclR; pfam01614 511062000915 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 511062000916 BCCT family transporter; Region: BCCT; cl00569 511062000917 Cytochrome C' Region: Cytochrom_C_2; pfam01322 511062000918 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 511062000919 Ligand Binding Site [chemical binding]; other site 511062000920 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 511062000921 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 511062000922 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 511062000923 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 511062000924 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062000925 Walker A/P-loop; other site 511062000926 ATP binding site [chemical binding]; other site 511062000927 Q-loop/lid; other site 511062000928 ABC transporter signature motif; other site 511062000929 Walker B; other site 511062000930 D-loop; other site 511062000931 H-loop/switch region; other site 511062000932 Protein of unknown function (DUF2459); Region: DUF2459; cl09819 511062000933 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 511062000934 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 511062000935 Cl binding site [ion binding]; other site 511062000936 oligomer interface [polypeptide binding]; other site 511062000937 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 511062000938 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 511062000939 Walker A/P-loop; other site 511062000940 ATP binding site [chemical binding]; other site 511062000941 Q-loop/lid; other site 511062000942 ABC transporter signature motif; other site 511062000943 Walker B; other site 511062000944 D-loop; other site 511062000945 H-loop/switch region; other site 511062000946 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 511062000947 Walker A/P-loop; other site 511062000948 ATP binding site [chemical binding]; other site 511062000949 Q-loop/lid; other site 511062000950 ABC transporter signature motif; other site 511062000951 Walker B; other site 511062000952 D-loop; other site 511062000953 H-loop/switch region; other site 511062000954 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 511062000955 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 511062000956 dimer interface [polypeptide binding]; other site 511062000957 conserved gate region; other site 511062000958 ABC-ATPase subunit interface; other site 511062000959 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 511062000960 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 511062000961 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 511062000962 dimer interface [polypeptide binding]; other site 511062000963 conserved gate region; other site 511062000964 putative PBP binding loops; other site 511062000965 ABC-ATPase subunit interface; other site 511062000966 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 511062000967 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 511062000968 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 511062000969 catalytic residues [active] 511062000970 dimer interface [polypeptide binding]; other site 511062000971 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 511062000972 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 511062000973 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 511062000974 Transporter associated domain; Region: CorC_HlyC; smart01091 511062000975 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 511062000976 putative active site [active] 511062000977 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 511062000978 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 511062000979 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 511062000980 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 511062000981 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 511062000982 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 511062000983 thiamine phosphate binding site [chemical binding]; other site 511062000984 active site 511062000985 pyrophosphate binding site [ion binding]; other site 511062000986 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 511062000987 substrate binding site [chemical binding]; other site 511062000988 multimerization interface [polypeptide binding]; other site 511062000989 ATP binding site [chemical binding]; other site 511062000990 TM2 domain; Region: TM2; cl00984 511062000991 TM2 domain; Region: TM2; cl00984 511062000992 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 511062000993 Transposase; Region: DEDD_Tnp_IS110; pfam01548 511062000994 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 511062000995 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 511062000996 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 511062000997 FeS/SAM binding site; other site 511062000998 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 511062000999 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 511062001000 ThiS interaction site; other site 511062001001 putative active site [active] 511062001002 tetramer interface [polypeptide binding]; other site 511062001003 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 511062001004 thiS-thiF/thiG interaction site; other site 511062001005 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 511062001006 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 511062001007 ATP binding site [chemical binding]; other site 511062001008 substrate interface [chemical binding]; other site 511062001009 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 511062001010 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 511062001011 dimer interface [polypeptide binding]; other site 511062001012 substrate binding site [chemical binding]; other site 511062001013 ATP binding site [chemical binding]; other site 511062001014 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 511062001015 thiamine phosphate binding site [chemical binding]; other site 511062001016 active site 511062001017 pyrophosphate binding site [ion binding]; other site 511062001018 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 511062001019 ThiC-associated domain; Region: ThiC-associated; pfam13667 511062001020 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 511062001021 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; cl17224 511062001022 o-succinylbenzoate synthase; Region: menC_gamma/gm+; TIGR01927 511062001023 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 511062001024 metal binding site [ion binding]; metal-binding site 511062001025 substrate binding pocket [chemical binding]; other site 511062001026 exoribonuclease II; Provisional; Region: PRK05054 511062001027 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 511062001028 RNB domain; Region: RNB; pfam00773 511062001029 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 511062001030 Fic/DOC family; Region: Fic; pfam02661 511062001031 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062001032 dimer interface [polypeptide binding]; other site 511062001033 putative CheW interface [polypeptide binding]; other site 511062001034 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 511062001035 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 511062001036 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 511062001037 dimer interface [polypeptide binding]; other site 511062001038 active site 511062001039 Acyl CoA:acetate/3-ketoacid CoA transferase, beta subunit [Lipid metabolism]; Region: AtoA; COG2057 511062001040 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 511062001041 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 511062001042 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 511062001043 Bacterial transcriptional regulator; Region: IclR; pfam01614 511062001044 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 511062001045 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062001046 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 511062001047 dimerization interface [polypeptide binding]; other site 511062001048 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 511062001049 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 511062001050 octamer interface [polypeptide binding]; other site 511062001051 active site 511062001052 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 511062001053 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 511062001054 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 511062001055 dimer interface [polypeptide binding]; other site 511062001056 active site 511062001057 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 511062001058 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 511062001059 iron-sulfur cluster [ion binding]; other site 511062001060 [2Fe-2S] cluster binding site [ion binding]; other site 511062001061 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 511062001062 putative alpha subunit interface [polypeptide binding]; other site 511062001063 putative active site [active] 511062001064 putative substrate binding site [chemical binding]; other site 511062001065 Fe binding site [ion binding]; other site 511062001066 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 511062001067 inter-subunit interface; other site 511062001068 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 511062001069 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 511062001070 catalytic loop [active] 511062001071 iron binding site [ion binding]; other site 511062001072 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 511062001073 FAD binding pocket [chemical binding]; other site 511062001074 FAD binding motif [chemical binding]; other site 511062001075 phosphate binding motif [ion binding]; other site 511062001076 beta-alpha-beta structure motif; other site 511062001077 NAD binding pocket [chemical binding]; other site 511062001078 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 511062001079 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 511062001080 putative NAD(P) binding site [chemical binding]; other site 511062001081 active site 511062001082 benzoate transport; Region: 2A0115; TIGR00895 511062001083 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 511062001084 putative substrate translocation pore; other site 511062001085 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 511062001086 Benzoate membrane transport protein; Region: BenE; pfam03594 511062001087 benzoate transporter; Region: benE; TIGR00843 511062001088 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 511062001089 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 511062001090 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 511062001091 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 511062001092 dimer interface [polypeptide binding]; other site 511062001093 conserved gate region; other site 511062001094 putative PBP binding loops; other site 511062001095 ABC-ATPase subunit interface; other site 511062001096 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 511062001097 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 511062001098 dimer interface [polypeptide binding]; other site 511062001099 conserved gate region; other site 511062001100 putative PBP binding loops; other site 511062001101 ABC-ATPase subunit interface; other site 511062001102 sulfate/thiosulfate transporter subunit; Provisional; Region: PRK10851 511062001103 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062001104 Walker A/P-loop; other site 511062001105 ATP binding site [chemical binding]; other site 511062001106 Q-loop/lid; other site 511062001107 ABC transporter signature motif; other site 511062001108 Walker B; other site 511062001109 D-loop; other site 511062001110 H-loop/switch region; other site 511062001111 TOBE-like domain; Region: TOBE_3; pfam12857 511062001112 cysteine synthase B; Region: cysM; TIGR01138 511062001113 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 511062001114 dimer interface [polypeptide binding]; other site 511062001115 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062001116 catalytic residue [active] 511062001117 Protein of unknown function, DUF486; Region: DUF486; cl01236 511062001118 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 511062001119 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 511062001120 CoA binding domain; Region: CoA_binding_2; pfam13380 511062001121 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 511062001122 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 511062001123 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 511062001124 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 511062001125 Coenzyme A binding pocket [chemical binding]; other site 511062001126 Flavodoxin domain; Region: Flavodoxin_5; cl17428 511062001127 Cation transport protein; Region: TrkH; cl17365 511062001128 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 511062001129 uncharacterized protein, YigZ family; Region: IMPACT_YIGZ; TIGR00257 511062001130 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 511062001131 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 511062001132 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 511062001133 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 511062001134 substrate binding site [chemical binding]; other site 511062001135 oxyanion hole (OAH) forming residues; other site 511062001136 trimer interface [polypeptide binding]; other site 511062001137 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 511062001138 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 511062001139 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 511062001140 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 511062001141 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 511062001142 dimer interface [polypeptide binding]; other site 511062001143 active site 511062001144 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 511062001145 CPxP motif; other site 511062001146 Predicted permeases [General function prediction only]; Region: COG0679 511062001147 putative outer membrane lipoprotein; Provisional; Region: PRK10510 511062001148 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 511062001149 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 511062001150 ligand binding site [chemical binding]; other site 511062001151 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 511062001152 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 511062001153 dimer interface [polypeptide binding]; other site 511062001154 motif 1; other site 511062001155 active site 511062001156 motif 2; other site 511062001157 motif 3; other site 511062001158 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 511062001159 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 511062001160 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 511062001161 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 511062001162 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062001163 homodimer interface [polypeptide binding]; other site 511062001164 catalytic residue [active] 511062001165 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 511062001166 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 511062001167 putative dimer interface [polypeptide binding]; other site 511062001168 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 511062001169 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 511062001170 putative dimer interface [polypeptide binding]; other site 511062001171 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 511062001172 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 511062001173 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 511062001174 ATP binding site [chemical binding]; other site 511062001175 Mg2+ binding site [ion binding]; other site 511062001176 G-X-G motif; other site 511062001177 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 511062001178 anchoring element; other site 511062001179 dimer interface [polypeptide binding]; other site 511062001180 ATP binding site [chemical binding]; other site 511062001181 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 511062001182 active site 511062001183 putative metal-binding site [ion binding]; other site 511062001184 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 511062001185 recombination protein F; Reviewed; Region: recF; PRK00064 511062001186 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062001187 Walker A/P-loop; other site 511062001188 ATP binding site [chemical binding]; other site 511062001189 Q-loop/lid; other site 511062001190 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062001191 ABC transporter signature motif; other site 511062001192 Walker B; other site 511062001193 D-loop; other site 511062001194 H-loop/switch region; other site 511062001195 DNA polymerase III subunit beta; Validated; Region: PRK05643 511062001196 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 511062001197 putative DNA binding surface [nucleotide binding]; other site 511062001198 dimer interface [polypeptide binding]; other site 511062001199 beta-clamp/clamp loader binding surface; other site 511062001200 beta-clamp/translesion DNA polymerase binding surface; other site 511062001201 DnaA N-terminal domain; Region: DnaA_N; pfam11638 511062001202 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 511062001203 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 511062001204 Walker A motif; other site 511062001205 ATP binding site [chemical binding]; other site 511062001206 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 511062001207 Walker B motif; other site 511062001208 arginine finger; other site 511062001209 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 511062001210 DnaA box-binding interface [nucleotide binding]; other site 511062001211 azurin; Region: azurin; TIGR02695 511062001212 BCCT family transporter; Region: BCCT; pfam02028 511062001213 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 511062001214 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 511062001215 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; smart00939 511062001216 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 511062001217 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062001218 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 511062001219 dimerization interface [polypeptide binding]; other site 511062001220 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 511062001221 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 511062001222 substrate binding pocket [chemical binding]; other site 511062001223 membrane-bound complex binding site; other site 511062001224 hinge residues; other site 511062001225 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 511062001226 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 511062001227 dimer interface [polypeptide binding]; other site 511062001228 conserved gate region; other site 511062001229 putative PBP binding loops; other site 511062001230 ABC-ATPase subunit interface; other site 511062001231 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 511062001232 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 511062001233 Walker A/P-loop; other site 511062001234 ATP binding site [chemical binding]; other site 511062001235 Q-loop/lid; other site 511062001236 ABC transporter signature motif; other site 511062001237 Walker B; other site 511062001238 D-loop; other site 511062001239 H-loop/switch region; other site 511062001240 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 511062001241 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 511062001242 ribonuclease P; Reviewed; Region: rnpA; PRK01732 511062001243 hypothetical protein; Validated; Region: PRK00041 511062001244 membrane protein insertase; Provisional; Region: PRK01318 511062001245 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 511062001246 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 511062001247 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 511062001248 trmE is a tRNA modification GTPase; Region: trmE; cd04164 511062001249 G1 box; other site 511062001250 GTP/Mg2+ binding site [chemical binding]; other site 511062001251 Switch I region; other site 511062001252 G2 box; other site 511062001253 Switch II region; other site 511062001254 G3 box; other site 511062001255 G4 box; other site 511062001256 G5 box; other site 511062001257 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 511062001258 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 511062001259 non-specific DNA binding site [nucleotide binding]; other site 511062001260 salt bridge; other site 511062001261 sequence-specific DNA binding site [nucleotide binding]; other site 511062001262 HipA N-terminal domain; Region: Couple_hipA; pfam13657 511062001263 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 511062001264 HipA-like N-terminal domain; Region: HipA_N; pfam07805 511062001265 HipA-like C-terminal domain; Region: HipA_C; pfam07804 511062001266 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 511062001267 HAMP domain; Region: HAMP; pfam00672 511062001268 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 511062001269 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062001270 dimer interface [polypeptide binding]; other site 511062001271 putative CheW interface [polypeptide binding]; other site 511062001272 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 511062001273 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 511062001274 FMN binding site [chemical binding]; other site 511062001275 active site 511062001276 substrate binding site [chemical binding]; other site 511062001277 catalytic residue [active] 511062001278 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 511062001279 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 511062001280 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 511062001281 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 511062001282 ABC-ATPase subunit interface; other site 511062001283 dimer interface [polypeptide binding]; other site 511062001284 putative PBP binding regions; other site 511062001285 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 511062001286 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 511062001287 ABC-ATPase subunit interface; other site 511062001288 dimer interface [polypeptide binding]; other site 511062001289 putative PBP binding regions; other site 511062001290 manganese/iron transporter ATP-binding protein; Provisional; Region: PRK15056 511062001291 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 511062001292 ABC-type metal ion transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: LraI; COG0803 511062001293 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 511062001294 metal binding site [ion binding]; metal-binding site 511062001295 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 511062001296 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062001297 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 511062001298 putative dimerization interface [polypeptide binding]; other site 511062001299 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 511062001300 gating phenylalanine in ion channel; other site 511062001301 putative oxidoreductase; Provisional; Region: PRK11579 511062001302 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 511062001303 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 511062001304 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 511062001305 FAD binding domain; Region: FAD_binding_4; pfam01565 511062001306 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 511062001307 FAD binding domain; Region: FAD_binding_4; pfam01565 511062001308 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 511062001309 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 511062001310 Cysteine-rich domain; Region: CCG; pfam02754 511062001311 Cysteine-rich domain; Region: CCG; pfam02754 511062001312 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062001313 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062001314 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 511062001315 putative effector binding pocket; other site 511062001316 dimerization interface [polypeptide binding]; other site 511062001317 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 511062001318 L-lactate permease; Region: Lactate_perm; cl00701 511062001319 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 511062001320 Cysteine-rich domain; Region: CCG; pfam02754 511062001321 Cysteine-rich domain; Region: CCG; pfam02754 511062001322 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 511062001323 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 511062001324 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 511062001325 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 511062001326 Uncharacterized conserved protein [Function unknown]; Region: COG1556 511062001327 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 511062001328 FAD binding domain; Region: FAD_binding_4; pfam01565 511062001329 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 511062001330 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 511062001331 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 511062001332 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 511062001333 MOSC domain; Region: MOSC; pfam03473 511062001334 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 511062001335 catalytic loop [active] 511062001336 iron binding site [ion binding]; other site 511062001337 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 511062001338 homotrimer interaction site [polypeptide binding]; other site 511062001339 putative active site [active] 511062001340 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 511062001341 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 511062001342 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 511062001343 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 511062001344 glutamate dehydrogenase; Provisional; Region: PRK09414 511062001345 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 511062001346 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 511062001347 NAD(P) binding site [chemical binding]; other site 511062001348 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 511062001349 type II secretion system protein E; Region: type_II_gspE; TIGR02533 511062001350 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 511062001351 Walker A motif; other site 511062001352 ATP binding site [chemical binding]; other site 511062001353 Walker B motif; other site 511062001354 type II secretion system protein F; Region: GspF; TIGR02120 511062001355 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 511062001356 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 511062001357 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 511062001358 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 511062001359 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 511062001360 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 511062001361 Type II secretion system (T2SS), protein M subtype b; Region: T2SM_b; pfam10741 511062001362 type II secretion system protein D; Region: type_II_gspD; TIGR02517 511062001363 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 511062001364 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 511062001365 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 511062001366 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 511062001367 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 511062001368 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 511062001369 Walker A motif; other site 511062001370 ATP binding site [chemical binding]; other site 511062001371 Walker B motif; other site 511062001372 arginine finger; other site 511062001373 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 511062001374 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 511062001375 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 511062001376 Walker A motif; other site 511062001377 ATP binding site [chemical binding]; other site 511062001378 Walker B motif; other site 511062001379 arginine finger; other site 511062001380 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 511062001381 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 511062001382 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 511062001383 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335 511062001384 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 511062001385 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 511062001386 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 511062001387 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 511062001388 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 511062001389 P-loop; other site 511062001390 Magnesium ion binding site [ion binding]; other site 511062001391 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 511062001392 Magnesium ion binding site [ion binding]; other site 511062001393 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 511062001394 ParB-like nuclease domain; Region: ParBc; pfam02195 511062001395 ATP synthase I chain; Region: ATP_synt_I; cl09170 511062001396 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 511062001397 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 511062001398 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 511062001399 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 511062001400 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 511062001401 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 511062001402 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 511062001403 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 511062001404 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 511062001405 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 511062001406 beta subunit interaction interface [polypeptide binding]; other site 511062001407 Walker A motif; other site 511062001408 ATP binding site [chemical binding]; other site 511062001409 Walker B motif; other site 511062001410 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 511062001411 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 511062001412 core domain interface [polypeptide binding]; other site 511062001413 delta subunit interface [polypeptide binding]; other site 511062001414 epsilon subunit interface [polypeptide binding]; other site 511062001415 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 511062001416 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 511062001417 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 511062001418 alpha subunit interaction interface [polypeptide binding]; other site 511062001419 Walker A motif; other site 511062001420 ATP binding site [chemical binding]; other site 511062001421 Walker B motif; other site 511062001422 inhibitor binding site; inhibition site 511062001423 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 511062001424 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 511062001425 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 511062001426 gamma subunit interface [polypeptide binding]; other site 511062001427 epsilon subunit interface [polypeptide binding]; other site 511062001428 LBP interface [polypeptide binding]; other site 511062001429 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 511062001430 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 511062001431 Substrate binding site; other site 511062001432 Mg++ binding site; other site 511062001433 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 511062001434 active site 511062001435 substrate binding site [chemical binding]; other site 511062001436 CoA binding site [chemical binding]; other site 511062001437 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 511062001438 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 511062001439 putative DNA binding site [nucleotide binding]; other site 511062001440 putative Zn2+ binding site [ion binding]; other site 511062001441 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 511062001442 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 511062001443 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 511062001444 glutaminase active site [active] 511062001445 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 511062001446 dimer interface [polypeptide binding]; other site 511062001447 active site 511062001448 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 511062001449 dimer interface [polypeptide binding]; other site 511062001450 active site 511062001451 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 511062001452 Low molecular weight phosphatase family; Region: LMWPc; cd00115 511062001453 active site 511062001454 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 511062001455 dimerization interface [polypeptide binding]; other site 511062001456 putative DNA binding site [nucleotide binding]; other site 511062001457 putative Zn2+ binding site [ion binding]; other site 511062001458 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 511062001459 arsenical-resistance protein; Region: acr3; TIGR00832 511062001460 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 511062001461 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 511062001462 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 511062001463 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 511062001464 Major Facilitator Superfamily; Region: MFS_1; pfam07690 511062001465 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 511062001466 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 511062001467 putative active site [active] 511062001468 heme pocket [chemical binding]; other site 511062001469 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 511062001470 putative active site [active] 511062001471 heme pocket [chemical binding]; other site 511062001472 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 511062001473 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 511062001474 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 511062001475 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 511062001476 dimer interface [polypeptide binding]; other site 511062001477 active site 511062001478 heme binding site [chemical binding]; other site 511062001479 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 511062001480 Nitrate and nitrite sensing; Region: NIT; pfam08376 511062001481 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 511062001482 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 511062001483 dimerization interface [polypeptide binding]; other site 511062001484 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062001485 dimer interface [polypeptide binding]; other site 511062001486 putative CheW interface [polypeptide binding]; other site 511062001487 Domain of unknown function DUF21; Region: DUF21; pfam01595 511062001488 hypothetical protein; Provisional; Region: PRK11573 511062001489 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 511062001490 Transporter associated domain; Region: CorC_HlyC; smart01091 511062001491 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 511062001492 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 511062001493 DNA binding residues [nucleotide binding] 511062001494 dimer interface [polypeptide binding]; other site 511062001495 copper binding site [ion binding]; other site 511062001496 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 511062001497 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 511062001498 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 511062001499 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 511062001500 serine/threonine protein kinase; Provisional; Region: PRK11768 511062001501 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 511062001502 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 511062001503 catalytic residues [active] 511062001504 hinge region; other site 511062001505 alpha helical domain; other site 511062001506 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 511062001507 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 511062001508 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 511062001509 Walker A motif; other site 511062001510 ATP binding site [chemical binding]; other site 511062001511 Walker B motif; other site 511062001512 arginine finger; other site 511062001513 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 511062001514 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 511062001515 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 511062001516 PYR/PP interface [polypeptide binding]; other site 511062001517 dimer interface [polypeptide binding]; other site 511062001518 TPP binding site [chemical binding]; other site 511062001519 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 511062001520 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 511062001521 TPP-binding site [chemical binding]; other site 511062001522 dimer interface [polypeptide binding]; other site 511062001523 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 511062001524 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 511062001525 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 511062001526 homodimer interface [polypeptide binding]; other site 511062001527 substrate-cofactor binding pocket; other site 511062001528 catalytic residue [active] 511062001529 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 511062001530 threonine dehydratase; Reviewed; Region: PRK09224 511062001531 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 511062001532 tetramer interface [polypeptide binding]; other site 511062001533 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062001534 catalytic residue [active] 511062001535 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 511062001536 putative Ile/Val binding site [chemical binding]; other site 511062001537 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 511062001538 putative Ile/Val binding site [chemical binding]; other site 511062001539 Urea transporter; Region: UT; pfam03253 511062001540 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 511062001541 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 511062001542 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 511062001543 HemY protein N-terminus; Region: HemY_N; pfam07219 511062001544 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 511062001545 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 511062001546 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 511062001547 active site 511062001548 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 511062001549 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 511062001550 domain interfaces; other site 511062001551 active site 511062001552 adenylate cyclase; Provisional; Region: cyaA; PRK09450 511062001553 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 511062001554 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 511062001555 Frataxin is a nuclear-encoded mitochondrial protein implicated in Friedreich's ataxia (FRDA), an human autosomal recessive neurodegenerative disease; Frataxin is found in eukaryotes and in purple bacteria; lack of frataxin causes iron to accumulate...; Region: Frataxin; cd00503 511062001556 putative iron binding site [ion binding]; other site 511062001557 hypothetical protein; Provisional; Region: PRK09807 511062001558 diaminopimelate decarboxylase; Region: lysA; TIGR01048 511062001559 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 511062001560 active site 511062001561 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 511062001562 substrate binding site [chemical binding]; other site 511062001563 catalytic residues [active] 511062001564 dimer interface [polypeptide binding]; other site 511062001565 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 511062001566 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 511062001567 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 511062001568 Protein of unknown function, DUF484; Region: DUF484; cl17449 511062001569 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 511062001570 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 511062001571 active site 511062001572 Int/Topo IB signature motif; other site 511062001573 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 511062001574 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 511062001575 motif II; other site 511062001576 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 511062001577 Part of AAA domain; Region: AAA_19; pfam13245 511062001578 Family description; Region: UvrD_C_2; pfam13538 511062001579 conjugal transfer surface exclusion protein TraT; Provisional; Region: PRK13731 511062001580 Enterobacterial TraT complement resistance protein; Region: TraT; pfam05818 511062001581 Predicted permeases [General function prediction only]; Region: RarD; COG2962 511062001582 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 511062001583 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 511062001584 ATP binding site [chemical binding]; other site 511062001585 putative Mg++ binding site [ion binding]; other site 511062001586 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 511062001587 nucleotide binding region [chemical binding]; other site 511062001588 ATP-binding site [chemical binding]; other site 511062001589 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 511062001590 HRDC domain; Region: HRDC; pfam00570 511062001591 Cytochrome c; Region: Cytochrom_C; cl11414 511062001592 Uncharacterized conserved protein [Function unknown]; Region: COG0397 511062001593 hypothetical protein; Validated; Region: PRK00029 511062001594 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 511062001595 hypothetical protein; Provisional; Region: PRK11212 511062001596 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 511062001597 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 511062001598 conserved cys residue [active] 511062001599 DNA polymerase I; Provisional; Region: PRK05755 511062001600 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 511062001601 active site 511062001602 metal binding site 1 [ion binding]; metal-binding site 511062001603 putative 5' ssDNA interaction site; other site 511062001604 metal binding site 3; metal-binding site 511062001605 metal binding site 2 [ion binding]; metal-binding site 511062001606 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 511062001607 putative DNA binding site [nucleotide binding]; other site 511062001608 putative metal binding site [ion binding]; other site 511062001609 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 511062001610 active site 511062001611 catalytic site [active] 511062001612 substrate binding site [chemical binding]; other site 511062001613 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 511062001614 active site 511062001615 DNA binding site [nucleotide binding] 511062001616 catalytic site [active] 511062001617 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 511062001618 dimer interface [polypeptide binding]; other site 511062001619 substrate binding site [chemical binding]; other site 511062001620 ATP binding site [chemical binding]; other site 511062001621 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12647 511062001622 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 511062001623 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 511062001624 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12509 511062001625 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK12659 511062001626 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 511062001627 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 511062001628 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK12651 511062001629 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 511062001630 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 511062001631 Response regulator receiver domain; Region: Response_reg; pfam00072 511062001632 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062001633 active site 511062001634 phosphorylation site [posttranslational modification] 511062001635 intermolecular recognition site; other site 511062001636 dimerization interface [polypeptide binding]; other site 511062001637 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062001638 Response regulator receiver domain; Region: Response_reg; pfam00072 511062001639 active site 511062001640 phosphorylation site [posttranslational modification] 511062001641 intermolecular recognition site; other site 511062001642 dimerization interface [polypeptide binding]; other site 511062001643 HDOD domain; Region: HDOD; pfam08668 511062001644 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062001645 Response regulator receiver domain; Region: Response_reg; pfam00072 511062001646 active site 511062001647 phosphorylation site [posttranslational modification] 511062001648 intermolecular recognition site; other site 511062001649 dimerization interface [polypeptide binding]; other site 511062001650 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062001651 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062001652 metal binding site [ion binding]; metal-binding site 511062001653 active site 511062001654 I-site; other site 511062001655 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 511062001656 HAMP domain; Region: HAMP; pfam00672 511062001657 dimerization interface [polypeptide binding]; other site 511062001658 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 511062001659 dimer interface [polypeptide binding]; other site 511062001660 phosphorylation site [posttranslational modification] 511062001661 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 511062001662 ATP binding site [chemical binding]; other site 511062001663 Mg2+ binding site [ion binding]; other site 511062001664 G-X-G motif; other site 511062001665 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 511062001666 GAF domain; Region: GAF; pfam01590 511062001667 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 511062001668 putative active site [active] 511062001669 PAS fold; Region: PAS_3; pfam08447 511062001670 heme pocket [chemical binding]; other site 511062001671 GAF domain; Region: GAF; pfam01590 511062001672 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 511062001673 PAS fold; Region: PAS_3; pfam08447 511062001674 putative active site [active] 511062001675 heme pocket [chemical binding]; other site 511062001676 PAS domain S-box; Region: sensory_box; TIGR00229 511062001677 PAS domain; Region: PAS_8; pfam13188 511062001678 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 511062001679 dimer interface [polypeptide binding]; other site 511062001680 phosphorylation site [posttranslational modification] 511062001681 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 511062001682 ATP binding site [chemical binding]; other site 511062001683 Mg2+ binding site [ion binding]; other site 511062001684 G-X-G motif; other site 511062001685 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 511062001686 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 511062001687 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 511062001688 hydroxyglutarate oxidase; Provisional; Region: PRK11728 511062001689 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 511062001690 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 511062001691 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 511062001692 inhibitor site; inhibition site 511062001693 active site 511062001694 dimer interface [polypeptide binding]; other site 511062001695 catalytic residue [active] 511062001696 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 511062001697 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 511062001698 NAD(P) binding site [chemical binding]; other site 511062001699 catalytic residues [active] 511062001700 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 511062001701 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 511062001702 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 511062001703 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 511062001704 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 511062001705 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 511062001706 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 511062001707 RNA binding surface [nucleotide binding]; other site 511062001708 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 511062001709 active site 511062001710 uracil binding [chemical binding]; other site 511062001711 Transcriptional regulators [Transcription]; Region: GntR; COG1802 511062001712 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 511062001713 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 511062001714 G1 box; other site 511062001715 GTP/Mg2+ binding site [chemical binding]; other site 511062001716 Switch I region; other site 511062001717 G2 box; other site 511062001718 G3 box; other site 511062001719 Switch II region; other site 511062001720 G4 box; other site 511062001721 G5 box; other site 511062001722 Cytochrome c553 [Energy production and conversion]; Region: COG2863 511062001723 Cytochrome c; Region: Cytochrom_C; cl11414 511062001724 Methyltransferase domain; Region: Methyltransf_23; pfam13489 511062001725 Methyltransferase domain; Region: Methyltransf_11; pfam08241 511062001726 Der GTPase activator (YihI); Region: YihI; pfam04220 511062001727 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 511062001728 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 511062001729 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 511062001730 FeS/SAM binding site; other site 511062001731 HemN C-terminal domain; Region: HemN_C; pfam06969 511062001732 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 511062001733 adenosine deaminase; Provisional; Region: PRK09358 511062001734 active site 511062001735 nitrogen regulation protein NR(I); Provisional; Region: glnG; PRK10923 511062001736 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062001737 active site 511062001738 phosphorylation site [posttranslational modification] 511062001739 intermolecular recognition site; other site 511062001740 dimerization interface [polypeptide binding]; other site 511062001741 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 511062001742 Walker A motif; other site 511062001743 ATP binding site [chemical binding]; other site 511062001744 Walker B motif; other site 511062001745 arginine finger; other site 511062001746 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 511062001747 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 511062001748 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 511062001749 dimer interface [polypeptide binding]; other site 511062001750 phosphorylation site [posttranslational modification] 511062001751 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 511062001752 ATP binding site [chemical binding]; other site 511062001753 Mg2+ binding site [ion binding]; other site 511062001754 G-X-G motif; other site 511062001755 transcriptional regulator SlyA; Provisional; Region: PRK03573 511062001756 MarR family; Region: MarR_2; pfam12802 511062001757 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 511062001758 HlyD family secretion protein; Region: HlyD_3; pfam13437 511062001759 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 511062001760 glutamine synthetase; Provisional; Region: glnA; PRK09469 511062001761 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 511062001762 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 511062001763 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 511062001764 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 511062001765 G1 box; other site 511062001766 putative GEF interaction site [polypeptide binding]; other site 511062001767 GTP/Mg2+ binding site [chemical binding]; other site 511062001768 Switch I region; other site 511062001769 G2 box; other site 511062001770 G3 box; other site 511062001771 Switch II region; other site 511062001772 G4 box; other site 511062001773 G5 box; other site 511062001774 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 511062001775 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 511062001776 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 511062001777 YceI-like domain; Region: YceI; cl01001 511062001778 hypothetical protein; Reviewed; Region: PRK01637 511062001779 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 511062001780 TAP-like protein; Region: Abhydrolase_4; pfam08386 511062001781 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 511062001782 putative active site [active] 511062001783 dimerization interface [polypeptide binding]; other site 511062001784 putative tRNAtyr binding site [nucleotide binding]; other site 511062001785 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 511062001786 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 511062001787 Coenzyme A binding pocket [chemical binding]; other site 511062001788 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 511062001789 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 511062001790 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 511062001791 Y-family of DNA polymerases; Region: PolY; cl12025 511062001792 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 511062001793 ssDNA binding site; other site 511062001794 generic binding surface II; other site 511062001795 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 511062001796 ATP binding site [chemical binding]; other site 511062001797 putative Mg++ binding site [ion binding]; other site 511062001798 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 511062001799 nucleotide binding region [chemical binding]; other site 511062001800 ATP-binding site [chemical binding]; other site 511062001801 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 511062001802 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 511062001803 domain interface [polypeptide binding]; other site 511062001804 putative active site [active] 511062001805 catalytic site [active] 511062001806 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 511062001807 domain interface [polypeptide binding]; other site 511062001808 putative active site [active] 511062001809 catalytic site [active] 511062001810 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 511062001811 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 511062001812 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 511062001813 active site 511062001814 Transcriptional regulators [Transcription]; Region: GntR; COG1802 511062001815 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 511062001816 DNA-binding site [nucleotide binding]; DNA binding site 511062001817 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 511062001818 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 511062001819 EamA-like transporter family; Region: EamA; pfam00892 511062001820 multidrug efflux protein; Reviewed; Region: PRK09579 511062001821 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 511062001822 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 511062001823 HlyD family secretion protein; Region: HlyD_3; pfam13437 511062001824 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 511062001825 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 511062001826 Predicted membrane protein [Function unknown]; Region: COG1288 511062001827 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 511062001828 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 511062001829 Transcriptional regulator [Transcription]; Region: IclR; COG1414 511062001830 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 511062001831 Bacterial transcriptional regulator; Region: IclR; pfam01614 511062001832 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 511062001833 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 511062001834 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 511062001835 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 511062001836 dimer interface [polypeptide binding]; other site 511062001837 active site 511062001838 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 511062001839 catalytic residues [active] 511062001840 substrate binding site [chemical binding]; other site 511062001841 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 511062001842 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 511062001843 MOFRL family; Region: MOFRL; pfam05161 511062001844 tartronate semialdehyde reductase; Provisional; Region: PRK15059 511062001845 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 511062001846 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 511062001847 glyoxylate carboligase; Provisional; Region: PRK11269 511062001848 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 511062001849 PYR/PP interface [polypeptide binding]; other site 511062001850 dimer interface [polypeptide binding]; other site 511062001851 TPP binding site [chemical binding]; other site 511062001852 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 511062001853 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 511062001854 TPP-binding site [chemical binding]; other site 511062001855 Phasin protein; Region: Phasin_2; cl11491 511062001856 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 511062001857 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 511062001858 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 511062001859 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 511062001860 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 511062001861 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 511062001862 sensor protein QseC; Provisional; Region: PRK10337 511062001863 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 511062001864 dimer interface [polypeptide binding]; other site 511062001865 phosphorylation site [posttranslational modification] 511062001866 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 511062001867 ATP binding site [chemical binding]; other site 511062001868 Mg2+ binding site [ion binding]; other site 511062001869 G-X-G motif; other site 511062001870 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 511062001871 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062001872 active site 511062001873 phosphorylation site [posttranslational modification] 511062001874 intermolecular recognition site; other site 511062001875 dimerization interface [polypeptide binding]; other site 511062001876 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 511062001877 DNA binding site [nucleotide binding] 511062001878 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 511062001879 TPR motif; other site 511062001880 binding surface 511062001881 short chain dehydrogenase; Provisional; Region: PRK09072 511062001882 classical (c) SDRs; Region: SDR_c; cd05233 511062001883 NAD(P) binding site [chemical binding]; other site 511062001884 active site 511062001885 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 511062001886 heme binding pocket [chemical binding]; other site 511062001887 heme ligand [chemical binding]; other site 511062001888 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 511062001889 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_3; cd05914 511062001890 acyl-activating enzyme (AAE) consensus motif; other site 511062001891 putative AMP binding site [chemical binding]; other site 511062001892 putative active site [active] 511062001893 putative CoA binding site [chemical binding]; other site 511062001894 Thermostable hemolysin; Region: T_hemolysin; pfam12261 511062001895 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 511062001896 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 511062001897 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 511062001898 Walker A/P-loop; other site 511062001899 ATP binding site [chemical binding]; other site 511062001900 Q-loop/lid; other site 511062001901 ABC transporter signature motif; other site 511062001902 Walker B; other site 511062001903 D-loop; other site 511062001904 H-loop/switch region; other site 511062001905 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 511062001906 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 511062001907 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 511062001908 ABC-ATPase subunit interface; other site 511062001909 dimer interface [polypeptide binding]; other site 511062001910 putative PBP binding regions; other site 511062001911 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 511062001912 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 511062001913 intersubunit interface [polypeptide binding]; other site 511062001914 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 511062001915 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 511062001916 N-terminal plug; other site 511062001917 ligand-binding site [chemical binding]; other site 511062001918 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 511062001919 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 511062001920 dimerization interface [polypeptide binding]; other site 511062001921 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 511062001922 dimer interface [polypeptide binding]; other site 511062001923 phosphorylation site [posttranslational modification] 511062001924 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 511062001925 ATP binding site [chemical binding]; other site 511062001926 Mg2+ binding site [ion binding]; other site 511062001927 G-X-G motif; other site 511062001928 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 511062001929 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062001930 active site 511062001931 phosphorylation site [posttranslational modification] 511062001932 intermolecular recognition site; other site 511062001933 dimerization interface [polypeptide binding]; other site 511062001934 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 511062001935 DNA binding site [nucleotide binding] 511062001936 glutathione reductase; Validated; Region: PRK06116 511062001937 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 511062001938 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 511062001939 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 511062001940 oligopeptidase A; Provisional; Region: PRK10911 511062001941 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 511062001942 active site 511062001943 Zn binding site [ion binding]; other site 511062001944 PAS domain; Region: PAS_9; pfam13426 511062001945 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 511062001946 PAS domain; Region: PAS_9; pfam13426 511062001947 putative active site [active] 511062001948 heme pocket [chemical binding]; other site 511062001949 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062001950 metal binding site [ion binding]; metal-binding site 511062001951 active site 511062001952 I-site; other site 511062001953 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 511062001954 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 511062001955 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 511062001956 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 511062001957 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062001958 dimer interface [polypeptide binding]; other site 511062001959 putative CheW interface [polypeptide binding]; other site 511062001960 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 511062001961 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 511062001962 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 511062001963 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 511062001964 NADP binding site [chemical binding]; other site 511062001965 dimer interface [polypeptide binding]; other site 511062001966 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 511062001967 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062001968 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062001969 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 511062001970 substrate binding pocket [chemical binding]; other site 511062001971 dimerization interface [polypeptide binding]; other site 511062001972 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 511062001973 Ligand Binding Site [chemical binding]; other site 511062001974 Ion transport protein; Region: Ion_trans; pfam00520 511062001975 Ion channel; Region: Ion_trans_2; pfam07885 511062001976 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 511062001977 S-adenosylmethionine binding site [chemical binding]; other site 511062001978 Predicted flavoproteins [General function prediction only]; Region: COG2081 511062001979 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 511062001980 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 511062001981 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 511062001982 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062001983 catalytic residue [active] 511062001984 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062001985 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 511062001986 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 511062001987 dimerization interface [polypeptide binding]; other site 511062001988 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 511062001989 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 511062001990 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 511062001991 maleylacetoacetate isomerase; Region: maiA; TIGR01262 511062001992 C-terminal domain interface [polypeptide binding]; other site 511062001993 GSH binding site (G-site) [chemical binding]; other site 511062001994 putative dimer interface [polypeptide binding]; other site 511062001995 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 511062001996 N-terminal domain interface [polypeptide binding]; other site 511062001997 dimer interface [polypeptide binding]; other site 511062001998 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 511062001999 salicylate hydroxylase; Provisional; Region: PRK08163 511062002000 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 511062002001 Gentisate 1,2-dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3435 511062002002 Cupin domain; Region: Cupin_2; pfam07883 511062002003 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 511062002004 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 511062002005 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 511062002006 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 511062002007 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 511062002008 DctM-like transporters; Region: DctM; pfam06808 511062002009 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 511062002010 Porin subfamily; Region: Porin_2; pfam02530 511062002011 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 511062002012 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 511062002013 active site 511062002014 catalytic tetrad [active] 511062002015 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 511062002016 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 511062002017 putative active site [active] 511062002018 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 511062002019 EVE domain; Region: EVE; cl00728 511062002020 putative hydrolase; Provisional; Region: PRK10976 511062002021 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 511062002022 active site 511062002023 motif I; other site 511062002024 motif II; other site 511062002025 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 511062002026 motif II; other site 511062002027 lysophospholipase L2; Provisional; Region: PRK10749 511062002028 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 511062002029 Serine hydrolase; Region: Ser_hydrolase; cl17834 511062002030 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 511062002031 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 511062002032 Zn2+ binding site [ion binding]; other site 511062002033 Mg2+ binding site [ion binding]; other site 511062002034 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 511062002035 synthetase active site [active] 511062002036 NTP binding site [chemical binding]; other site 511062002037 metal binding site [ion binding]; metal-binding site 511062002038 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 511062002039 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 511062002040 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 511062002041 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 511062002042 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 511062002043 catalytic site [active] 511062002044 G-X2-G-X-G-K; other site 511062002045 Cache domain; Region: Cache_1; pfam02743 511062002046 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 511062002047 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062002048 dimer interface [polypeptide binding]; other site 511062002049 putative CheW interface [polypeptide binding]; other site 511062002050 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 511062002051 Cytochrome P450; Region: p450; cl12078 511062002052 Mannosyltransferase OCH1 and related enzymes [Cell envelope biogenesis, outer membrane]; Region: OCH1; COG3774 511062002053 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 511062002054 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 511062002055 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 511062002056 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 511062002057 hypothetical protein; Provisional; Region: PRK11820 511062002058 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 511062002059 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 511062002060 ribonuclease PH; Reviewed; Region: rph; PRK00173 511062002061 Ribonuclease PH; Region: RNase_PH_bact; cd11362 511062002062 hexamer interface [polypeptide binding]; other site 511062002063 active site 511062002064 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 511062002065 active site 511062002066 mechanosensitive channel MscS; Provisional; Region: PRK10334 511062002067 Conserved TM helix; Region: TM_helix; pfam05552 511062002068 Mechanosensitive ion channel; Region: MS_channel; pfam00924 511062002069 division inhibitor protein; Provisional; Region: slmA; PRK09480 511062002070 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 511062002071 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 511062002072 trimer interface [polypeptide binding]; other site 511062002073 active site 511062002074 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 511062002075 Flavoprotein; Region: Flavoprotein; pfam02441 511062002076 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 511062002077 hypothetical protein; Reviewed; Region: PRK00024 511062002078 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 511062002079 MPN+ (JAMM) motif; other site 511062002080 Zinc-binding site [ion binding]; other site 511062002081 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 511062002082 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 511062002083 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 511062002084 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 511062002085 DNA binding site [nucleotide binding] 511062002086 catalytic residue [active] 511062002087 H2TH interface [polypeptide binding]; other site 511062002088 putative catalytic residues [active] 511062002089 turnover-facilitating residue; other site 511062002090 intercalation triad [nucleotide binding]; other site 511062002091 8OG recognition residue [nucleotide binding]; other site 511062002092 putative reading head residues; other site 511062002093 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 511062002094 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 511062002095 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 511062002096 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 511062002097 active site 511062002098 (T/H)XGH motif; other site 511062002099 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 511062002100 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 511062002101 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 511062002102 putative active site [active] 511062002103 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 511062002104 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 511062002105 putative metal binding site; other site 511062002106 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 511062002107 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 511062002108 putative active site [active] 511062002109 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 511062002110 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; cl17488 511062002111 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 511062002112 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 511062002113 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 511062002114 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 511062002115 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 511062002116 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 511062002117 putative active site [active] 511062002118 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 511062002119 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 511062002120 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 511062002121 trimer interface [polypeptide binding]; other site 511062002122 active site 511062002123 substrate binding site [chemical binding]; other site 511062002124 CoA binding site [chemical binding]; other site 511062002125 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 511062002126 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 511062002127 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 511062002128 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 511062002129 putative active site [active] 511062002130 putative metal binding site [ion binding]; other site 511062002131 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 511062002132 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 511062002133 NADP binding site [chemical binding]; other site 511062002134 homopentamer interface [polypeptide binding]; other site 511062002135 substrate binding site [chemical binding]; other site 511062002136 active site 511062002137 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 511062002138 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 511062002139 substrate-cofactor binding pocket; other site 511062002140 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062002141 catalytic residue [active] 511062002142 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 511062002143 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 511062002144 NAD(P) binding site [chemical binding]; other site 511062002145 Transposase; Region: HTH_Tnp_1; pfam01527 511062002146 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 511062002147 Protein of unknown function (DUF674); Region: DUF674; pfam05056 511062002148 Integrase core domain; Region: rve; pfam00665 511062002149 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 511062002150 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 511062002151 dimerization interface [polypeptide binding]; other site 511062002152 ligand binding site [chemical binding]; other site 511062002153 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 511062002154 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 511062002155 TM-ABC transporter signature motif; other site 511062002156 leucine/isoleucine/valine transporter permease subunit; Provisional; Region: livM; PRK11301 511062002157 Domain of unknown function (DUF3382); Region: DUF3382; pfam11862 511062002158 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 511062002159 TM-ABC transporter signature motif; other site 511062002160 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livG; PRK11300 511062002161 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 511062002162 Walker A/P-loop; other site 511062002163 ATP binding site [chemical binding]; other site 511062002164 Q-loop/lid; other site 511062002165 ABC transporter signature motif; other site 511062002166 Walker B; other site 511062002167 D-loop; other site 511062002168 H-loop/switch region; other site 511062002169 leucine/isoleucine/valine transporter ATP-binding subunit; Provisional; Region: livF; PRK11614 511062002170 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 511062002171 Walker A/P-loop; other site 511062002172 ATP binding site [chemical binding]; other site 511062002173 Q-loop/lid; other site 511062002174 ABC transporter signature motif; other site 511062002175 Walker B; other site 511062002176 D-loop; other site 511062002177 H-loop/switch region; other site 511062002178 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 511062002179 active site residue [active] 511062002180 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 511062002181 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 511062002182 Rhomboid family; Region: Rhomboid; pfam01694 511062002183 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 511062002184 Chorismate lyase; Region: Chor_lyase; cl01230 511062002185 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 511062002186 UbiA prenyltransferase family; Region: UbiA; pfam01040 511062002187 LexA repressor; Validated; Region: PRK00215 511062002188 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 511062002189 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 511062002190 Catalytic site [active] 511062002191 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00139 511062002192 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 511062002193 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 511062002194 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 511062002195 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 511062002196 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 511062002197 Subunit I/III interface [polypeptide binding]; other site 511062002198 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 511062002199 D-pathway; other site 511062002200 Subunit I/VIIc interface [polypeptide binding]; other site 511062002201 Subunit I/IV interface [polypeptide binding]; other site 511062002202 Subunit I/II interface [polypeptide binding]; other site 511062002203 Low-spin heme (heme a) binding site [chemical binding]; other site 511062002204 Subunit I/VIIa interface [polypeptide binding]; other site 511062002205 Subunit I/VIa interface [polypeptide binding]; other site 511062002206 Dimer interface; other site 511062002207 Putative water exit pathway; other site 511062002208 Binuclear center (heme a3/CuB) [ion binding]; other site 511062002209 K-pathway; other site 511062002210 Subunit I/Vb interface [polypeptide binding]; other site 511062002211 Putative proton exit pathway; other site 511062002212 Subunit I/VIb interface; other site 511062002213 Subunit I/VIc interface [polypeptide binding]; other site 511062002214 Electron transfer pathway; other site 511062002215 Subunit I/VIIIb interface [polypeptide binding]; other site 511062002216 Subunit I/VIIb interface [polypeptide binding]; other site 511062002217 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 511062002218 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 511062002219 Subunit III/VIIa interface [polypeptide binding]; other site 511062002220 Phospholipid binding site [chemical binding]; other site 511062002221 Subunit I/III interface [polypeptide binding]; other site 511062002222 Subunit III/VIb interface [polypeptide binding]; other site 511062002223 Subunit III/VIa interface; other site 511062002224 Subunit III/Vb interface [polypeptide binding]; other site 511062002225 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 511062002226 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 511062002227 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 511062002228 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 511062002229 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 511062002230 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 511062002231 Cu(I) binding site [ion binding]; other site 511062002232 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 511062002233 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 511062002234 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 511062002235 Cation efflux family; Region: Cation_efflux; cl00316 511062002236 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 511062002237 serine acetyltransferase; Provisional; Region: cysE; PRK11132 511062002238 Serine acetyltransferase, N-terminal; Region: SATase_N; pfam06426 511062002239 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 511062002240 trimer interface [polypeptide binding]; other site 511062002241 active site 511062002242 substrate binding site [chemical binding]; other site 511062002243 CoA binding site [chemical binding]; other site 511062002244 Protein of unknown function (DUF904); Region: DUF904; pfam06005 511062002245 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 511062002246 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 511062002247 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 511062002248 Walker A motif; other site 511062002249 ATP binding site [chemical binding]; other site 511062002250 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 511062002251 Walker B motif; other site 511062002252 arginine finger; other site 511062002253 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 511062002254 ATP-dependent protease subunit HslV; Provisional; Region: PRK05456 511062002255 active site 511062002256 Sporulation related domain; Region: SPOR; pfam05036 511062002257 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 511062002258 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 511062002259 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 511062002260 active site 511062002261 HIGH motif; other site 511062002262 KMSK motif region; other site 511062002263 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 511062002264 tRNA binding surface [nucleotide binding]; other site 511062002265 anticodon binding site; other site 511062002266 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 511062002267 primosome assembly protein PriA; Validated; Region: PRK05580 511062002268 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 511062002269 ATP binding site [chemical binding]; other site 511062002270 putative Mg++ binding site [ion binding]; other site 511062002271 helicase superfamily c-terminal domain; Region: HELICc; smart00490 511062002272 nucleotide binding region [chemical binding]; other site 511062002273 ATP-binding site [chemical binding]; other site 511062002274 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 511062002275 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 511062002276 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 511062002277 Malic enzyme, N-terminal domain; Region: malic; pfam00390 511062002278 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 511062002279 putative NAD(P) binding site [chemical binding]; other site 511062002280 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 511062002281 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 511062002282 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 511062002283 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 511062002284 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 511062002285 S-adenosylmethionine binding site [chemical binding]; other site 511062002286 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 511062002287 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 511062002288 Moco binding site; other site 511062002289 metal coordination site [ion binding]; other site 511062002290 dimerization interface [polypeptide binding]; other site 511062002291 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 511062002292 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 511062002293 N-terminal plug; other site 511062002294 ligand-binding site [chemical binding]; other site 511062002295 glutamate racemase; Provisional; Region: PRK00865 511062002296 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 511062002297 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 511062002298 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 511062002299 active site 511062002300 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062002301 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 511062002302 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 511062002303 dimerization interface [polypeptide binding]; other site 511062002304 Predicted permeases [General function prediction only]; Region: COG0679 511062002305 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 511062002306 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 511062002307 OmpW family; Region: OmpW; cl17427 511062002308 hydroxyglutarate oxidase; Provisional; Region: PRK11728 511062002309 Predicted dehydrogenase [General function prediction only]; Region: COG0579 511062002310 carbon starvation induced protein; Validated; Region: PRK02963 511062002311 substrate binding pocket [chemical binding]; other site 511062002312 active site 511062002313 iron coordination sites [ion binding]; other site 511062002314 DNA-binding transcriptional regulator CsiR; Provisional; Region: PRK11534 511062002315 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 511062002316 DNA-binding site [nucleotide binding]; DNA binding site 511062002317 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 511062002318 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine synthases; Region: URO-D_CIMS_like; cl00464 511062002319 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 511062002320 FAD binding site [chemical binding]; other site 511062002321 zinc/cadmium/mercury/lead-transporting ATPase; Provisional; Region: zntA; PRK11033 511062002322 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 511062002323 metal-binding site [ion binding] 511062002324 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 511062002325 haloacid dehalogenase-like hydrolase; Region: HAD; pfam12710 511062002326 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 511062002327 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 511062002328 homodimer interface [polypeptide binding]; other site 511062002329 substrate-cofactor binding pocket; other site 511062002330 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062002331 catalytic residue [active] 511062002332 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 511062002333 dimerization interface [polypeptide binding]; other site 511062002334 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 511062002335 dimer interface [polypeptide binding]; other site 511062002336 phosphorylation site [posttranslational modification] 511062002337 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 511062002338 ATP binding site [chemical binding]; other site 511062002339 Mg2+ binding site [ion binding]; other site 511062002340 G-X-G motif; other site 511062002341 osmolarity response regulator; Provisional; Region: ompR; PRK09468 511062002342 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062002343 active site 511062002344 phosphorylation site [posttranslational modification] 511062002345 intermolecular recognition site; other site 511062002346 dimerization interface [polypeptide binding]; other site 511062002347 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 511062002348 DNA binding site [nucleotide binding] 511062002349 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 511062002350 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 511062002351 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 511062002352 IucA / IucC family; Region: IucA_IucC; pfam04183 511062002353 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 511062002354 IucA / IucC family; Region: IucA_IucC; pfam04183 511062002355 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 511062002356 acyl-CoA synthetase; Validated; Region: PRK08308 511062002357 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 511062002358 acyl-activating enzyme (AAE) consensus motif; other site 511062002359 AMP binding site [chemical binding]; other site 511062002360 active site 511062002361 CoA binding site [chemical binding]; other site 511062002362 acyl carrier protein; Provisional; Region: PRK07639 511062002363 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 511062002364 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 511062002365 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 511062002366 dimerization interface [polypeptide binding]; other site 511062002367 putative Zn2+ binding site [ion binding]; other site 511062002368 putative DNA binding site [nucleotide binding]; other site 511062002369 AsnC family; Region: AsnC_trans_reg; pfam01037 511062002370 asparagine synthetase AsnA; Provisional; Region: PRK05425 511062002371 motif 1; other site 511062002372 dimer interface [polypeptide binding]; other site 511062002373 active site 511062002374 motif 2; other site 511062002375 motif 3; other site 511062002376 FOG: CBS domain [General function prediction only]; Region: COG0517 511062002377 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 511062002378 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 511062002379 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 511062002380 dimer interface [polypeptide binding]; other site 511062002381 phosphorylation site [posttranslational modification] 511062002382 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 511062002383 ATP binding site [chemical binding]; other site 511062002384 Mg2+ binding site [ion binding]; other site 511062002385 G-X-G motif; other site 511062002386 response regulator GlrR; Provisional; Region: PRK15115 511062002387 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062002388 active site 511062002389 phosphorylation site [posttranslational modification] 511062002390 intermolecular recognition site; other site 511062002391 dimerization interface [polypeptide binding]; other site 511062002392 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 511062002393 Walker A motif; other site 511062002394 ATP binding site [chemical binding]; other site 511062002395 Walker B motif; other site 511062002396 arginine finger; other site 511062002397 TMAO/DMSO reductase; Reviewed; Region: PRK05363 511062002398 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 511062002399 Moco binding site; other site 511062002400 metal coordination site [ion binding]; other site 511062002401 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 511062002402 DNA topoisomerase III; Provisional; Region: PRK07726 511062002403 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 511062002404 active site 511062002405 putative interdomain interaction site [polypeptide binding]; other site 511062002406 putative metal-binding site [ion binding]; other site 511062002407 putative nucleotide binding site [chemical binding]; other site 511062002408 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 511062002409 domain I; other site 511062002410 DNA binding groove [nucleotide binding] 511062002411 phosphate binding site [ion binding]; other site 511062002412 domain II; other site 511062002413 domain III; other site 511062002414 nucleotide binding site [chemical binding]; other site 511062002415 catalytic site [active] 511062002416 domain IV; other site 511062002417 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 511062002418 Predicted amidohydrolase [General function prediction only]; Region: COG0388 511062002419 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 511062002420 putative active site [active] 511062002421 catalytic triad [active] 511062002422 putative dimer interface [polypeptide binding]; other site 511062002423 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 511062002424 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 511062002425 FAD binding domain; Region: FAD_binding_4; pfam01565 511062002426 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 511062002427 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 511062002428 Biotin operon repressor [Transcription]; Region: BirA; COG1654 511062002429 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 511062002430 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 511062002431 pantothenate kinase; Provisional; Region: PRK05439 511062002432 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 511062002433 ATP-binding site [chemical binding]; other site 511062002434 CoA-binding site [chemical binding]; other site 511062002435 Mg2+-binding site [ion binding]; other site 511062002436 elongation factor Tu; Reviewed; Region: PRK00049 511062002437 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 511062002438 G1 box; other site 511062002439 GEF interaction site [polypeptide binding]; other site 511062002440 GTP/Mg2+ binding site [chemical binding]; other site 511062002441 Switch I region; other site 511062002442 G2 box; other site 511062002443 G3 box; other site 511062002444 Switch II region; other site 511062002445 G4 box; other site 511062002446 G5 box; other site 511062002447 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 511062002448 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 511062002449 Antibiotic Binding Site [chemical binding]; other site 511062002450 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 511062002451 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 511062002452 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 511062002453 putative homodimer interface [polypeptide binding]; other site 511062002454 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 511062002455 heterodimer interface [polypeptide binding]; other site 511062002456 homodimer interface [polypeptide binding]; other site 511062002457 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 511062002458 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 511062002459 23S rRNA interface [nucleotide binding]; other site 511062002460 L7/L12 interface [polypeptide binding]; other site 511062002461 putative thiostrepton binding site; other site 511062002462 L25 interface [polypeptide binding]; other site 511062002463 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 511062002464 mRNA/rRNA interface [nucleotide binding]; other site 511062002465 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 511062002466 23S rRNA interface [nucleotide binding]; other site 511062002467 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 511062002468 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 511062002469 core dimer interface [polypeptide binding]; other site 511062002470 peripheral dimer interface [polypeptide binding]; other site 511062002471 L10 interface [polypeptide binding]; other site 511062002472 L11 interface [polypeptide binding]; other site 511062002473 putative EF-Tu interaction site [polypeptide binding]; other site 511062002474 putative EF-G interaction site [polypeptide binding]; other site 511062002475 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 511062002476 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 511062002477 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 511062002478 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 511062002479 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 511062002480 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 511062002481 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 511062002482 RPB3 interaction site [polypeptide binding]; other site 511062002483 RPB1 interaction site [polypeptide binding]; other site 511062002484 RPB11 interaction site [polypeptide binding]; other site 511062002485 RPB10 interaction site [polypeptide binding]; other site 511062002486 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 511062002487 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 511062002488 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 511062002489 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 511062002490 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 511062002491 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 511062002492 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 511062002493 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 511062002494 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 511062002495 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 511062002496 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 511062002497 DNA binding site [nucleotide binding] 511062002498 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 511062002499 Integrase core domain; Region: rve; pfam00665 511062002500 Integrase core domain; Region: rve_3; pfam13683 511062002501 Transposase; Region: HTH_Tnp_1; pfam01527 511062002502 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 511062002503 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 511062002504 Flavodoxin; Region: Flavodoxin_1; pfam00258 511062002505 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 511062002506 FAD binding pocket [chemical binding]; other site 511062002507 FAD binding motif [chemical binding]; other site 511062002508 catalytic residues [active] 511062002509 NAD binding pocket [chemical binding]; other site 511062002510 phosphate binding motif [ion binding]; other site 511062002511 beta-alpha-beta structure motif; other site 511062002512 sulfite reductase subunit beta; Provisional; Region: PRK13504 511062002513 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 511062002514 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 511062002515 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 511062002516 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 511062002517 Active Sites [active] 511062002518 siroheme synthase; Provisional; Region: cysG; PRK10637 511062002519 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 511062002520 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 511062002521 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 511062002522 active site 511062002523 SAM binding site [chemical binding]; other site 511062002524 homodimer interface [polypeptide binding]; other site 511062002525 Protein of unknown function (DUF2806); Region: DUF2806; cl12560 511062002526 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 511062002527 dimer interface [polypeptide binding]; other site 511062002528 substrate binding site [chemical binding]; other site 511062002529 metal binding sites [ion binding]; metal-binding site 511062002530 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 511062002531 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 511062002532 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 511062002533 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 511062002534 aromatic acid decarboxylase; Validated; Region: PRK05920 511062002535 Flavoprotein; Region: Flavoprotein; pfam02441 511062002536 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 511062002537 active site 511062002538 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 511062002539 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 511062002540 Walker A/P-loop; other site 511062002541 ATP binding site [chemical binding]; other site 511062002542 Q-loop/lid; other site 511062002543 ABC transporter signature motif; other site 511062002544 Walker B; other site 511062002545 D-loop; other site 511062002546 H-loop/switch region; other site 511062002547 inner membrane transport permease; Provisional; Region: PRK15066 511062002548 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 511062002549 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 511062002550 Transposase; Region: DEDD_Tnp_IS110; pfam01548 511062002551 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 511062002552 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 511062002553 tetramerization interface [polypeptide binding]; other site 511062002554 active site 511062002555 pantoate--beta-alanine ligase; Region: panC; TIGR00018 511062002556 Pantoate-beta-alanine ligase; Region: PanC; cd00560 511062002557 active site 511062002558 ATP-binding site [chemical binding]; other site 511062002559 pantoate-binding site; other site 511062002560 HXXH motif; other site 511062002561 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 511062002562 oligomerization interface [polypeptide binding]; other site 511062002563 active site 511062002564 metal binding site [ion binding]; metal-binding site 511062002565 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 511062002566 catalytic center binding site [active] 511062002567 ATP binding site [chemical binding]; other site 511062002568 poly(A) polymerase; Region: pcnB; TIGR01942 511062002569 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 511062002570 active site 511062002571 NTP binding site [chemical binding]; other site 511062002572 metal binding triad [ion binding]; metal-binding site 511062002573 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 511062002574 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 511062002575 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 511062002576 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 511062002577 active site 511062002578 HIGH motif; other site 511062002579 nucleotide binding site [chemical binding]; other site 511062002580 KMSKS motif; other site 511062002581 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 511062002582 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 511062002583 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 511062002584 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 511062002585 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 511062002586 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062002587 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062002588 metal binding site [ion binding]; metal-binding site 511062002589 active site 511062002590 I-site; other site 511062002591 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 511062002592 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 511062002593 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 511062002594 ATP binding site [chemical binding]; other site 511062002595 putative Mg++ binding site [ion binding]; other site 511062002596 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 511062002597 nucleotide binding region [chemical binding]; other site 511062002598 ATP-binding site [chemical binding]; other site 511062002599 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 511062002600 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 511062002601 Transglycosylase; Region: Transgly; pfam00912 511062002602 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 511062002603 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 511062002604 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 511062002605 active site 511062002606 metal binding site [ion binding]; metal-binding site 511062002607 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 511062002608 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 511062002609 inhibitor-cofactor binding pocket; inhibition site 511062002610 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062002611 catalytic residue [active] 511062002612 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 511062002613 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 511062002614 C-terminal domain interface [polypeptide binding]; other site 511062002615 GSH binding site (G-site) [chemical binding]; other site 511062002616 dimer interface [polypeptide binding]; other site 511062002617 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 511062002618 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 511062002619 putative peptidase; Provisional; Region: PRK11649 511062002620 Peptidase family M23; Region: Peptidase_M23; pfam01551 511062002621 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 511062002622 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 511062002623 active site 511062002624 HIGH motif; other site 511062002625 dimer interface [polypeptide binding]; other site 511062002626 KMSKS motif; other site 511062002627 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 511062002628 RNA binding surface [nucleotide binding]; other site 511062002629 UPF0126 domain; Region: UPF0126; pfam03458 511062002630 hypothetical protein; Provisional; Region: PRK10578 511062002631 UPF0126 domain; Region: UPF0126; pfam03458 511062002632 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 511062002633 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 511062002634 cobalamin binding residues [chemical binding]; other site 511062002635 putative BtuC binding residues; other site 511062002636 dimer interface [polypeptide binding]; other site 511062002637 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 511062002638 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 511062002639 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 511062002640 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 511062002641 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 511062002642 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 511062002643 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 511062002644 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 511062002645 active site 511062002646 dimer interface [polypeptide binding]; other site 511062002647 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 511062002648 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 511062002649 active site 511062002650 FMN binding site [chemical binding]; other site 511062002651 substrate binding site [chemical binding]; other site 511062002652 3Fe-4S cluster binding site [ion binding]; other site 511062002653 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 511062002654 domain interface; other site 511062002655 aerobic respiration control sensor protein ArcB; Provisional; Region: PRK11091 511062002656 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 511062002657 putative active site [active] 511062002658 heme pocket [chemical binding]; other site 511062002659 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 511062002660 dimer interface [polypeptide binding]; other site 511062002661 phosphorylation site [posttranslational modification] 511062002662 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 511062002663 ATP binding site [chemical binding]; other site 511062002664 Mg2+ binding site [ion binding]; other site 511062002665 G-X-G motif; other site 511062002666 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062002667 active site 511062002668 phosphorylation site [posttranslational modification] 511062002669 intermolecular recognition site; other site 511062002670 dimerization interface [polypeptide binding]; other site 511062002671 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 511062002672 putative binding surface; other site 511062002673 active site 511062002674 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 511062002675 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 511062002676 Zn2+ binding site [ion binding]; other site 511062002677 Mg2+ binding site [ion binding]; other site 511062002678 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 511062002679 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 511062002680 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 511062002681 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 511062002682 heterodimer interface [polypeptide binding]; other site 511062002683 homodimer interface [polypeptide binding]; other site 511062002684 DL-methionine transporter substrate-binding subunit; Provisional; Region: metQ; PRK11063 511062002685 NLPA lipoprotein; Region: Lipoprotein_9; cl17547 511062002686 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 511062002687 dimer interface [polypeptide binding]; other site 511062002688 conserved gate region; other site 511062002689 ABC-ATPase subunit interface; other site 511062002690 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 511062002691 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 511062002692 Walker A/P-loop; other site 511062002693 ATP binding site [chemical binding]; other site 511062002694 Q-loop/lid; other site 511062002695 ABC transporter signature motif; other site 511062002696 Walker B; other site 511062002697 D-loop; other site 511062002698 H-loop/switch region; other site 511062002699 NIL domain; Region: NIL; pfam09383 511062002700 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 511062002701 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 511062002702 dimer interface [polypeptide binding]; other site 511062002703 conserved gate region; other site 511062002704 putative PBP binding loops; other site 511062002705 ABC-ATPase subunit interface; other site 511062002706 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 511062002707 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 511062002708 dimer interface [polypeptide binding]; other site 511062002709 conserved gate region; other site 511062002710 putative PBP binding loops; other site 511062002711 ABC-ATPase subunit interface; other site 511062002712 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 511062002713 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 511062002714 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 511062002715 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 511062002716 Walker A/P-loop; other site 511062002717 ATP binding site [chemical binding]; other site 511062002718 Q-loop/lid; other site 511062002719 ABC transporter signature motif; other site 511062002720 Walker B; other site 511062002721 D-loop; other site 511062002722 H-loop/switch region; other site 511062002723 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 511062002724 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 511062002725 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 511062002726 Walker A/P-loop; other site 511062002727 ATP binding site [chemical binding]; other site 511062002728 Q-loop/lid; other site 511062002729 ABC transporter signature motif; other site 511062002730 Walker B; other site 511062002731 D-loop; other site 511062002732 H-loop/switch region; other site 511062002733 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 511062002734 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 511062002735 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 511062002736 active site 511062002737 motif I; other site 511062002738 motif II; other site 511062002739 xanthine permease; Region: pbuX; TIGR03173 511062002740 hydroxydechloroatrazine ethylaminohydrolase; Reviewed; Region: PRK08203 511062002741 TRZ/ATZ family contains enzymes from the atrazine degradation pathway and related hydrolases. Atrazine, a chlorinated herbizide, can be catabolized by a variety of different bacteria. The first three steps of the atrazine dehalogenation pathway are...; Region: ATZ_TRZ_like; cd01298 511062002742 active site 511062002743 putative substrate binding pocket [chemical binding]; other site 511062002744 hypothetical protein; Provisional; Region: PRK03673 511062002745 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 511062002746 putative MPT binding site; other site 511062002747 homoserine O-succinyltransferase; Provisional; Region: PRK05368 511062002748 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 511062002749 proposed active site lysine [active] 511062002750 conserved cys residue [active] 511062002751 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 511062002752 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 511062002753 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 511062002754 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 511062002755 substrate binding pocket [chemical binding]; other site 511062002756 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 511062002757 B12 binding site [chemical binding]; other site 511062002758 cobalt ligand [ion binding]; other site 511062002759 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 511062002760 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 511062002761 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 511062002762 Sporulation related domain; Region: SPOR; pfam05036 511062002763 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 511062002764 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 511062002765 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 511062002766 DNA binding site [nucleotide binding] 511062002767 active site 511062002768 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 511062002769 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 511062002770 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 511062002771 Cl- selectivity filter; other site 511062002772 Cl- binding residues [ion binding]; other site 511062002773 pore gating glutamate residue; other site 511062002774 dimer interface [polypeptide binding]; other site 511062002775 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 511062002776 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 511062002777 Permease; Region: Permease; pfam02405 511062002778 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 511062002779 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062002780 Walker A/P-loop; other site 511062002781 ATP binding site [chemical binding]; other site 511062002782 Q-loop/lid; other site 511062002783 ABC transporter signature motif; other site 511062002784 Walker B; other site 511062002785 D-loop; other site 511062002786 H-loop/switch region; other site 511062002787 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 511062002788 mce related protein; Region: MCE; pfam02470 511062002789 Protein of unknown function (DUF330); Region: DUF330; cl01135 511062002790 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 511062002791 O-Antigen ligase; Region: Wzy_C; pfam04932 511062002792 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 511062002793 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 511062002794 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 511062002795 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 511062002796 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 511062002797 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 511062002798 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 511062002799 Major Facilitator Superfamily; Region: MFS_1; pfam07690 511062002800 putative substrate translocation pore; other site 511062002801 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 511062002802 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 511062002803 dimer interface [polypeptide binding]; other site 511062002804 ssDNA binding site [nucleotide binding]; other site 511062002805 tetramer (dimer of dimers) interface [polypeptide binding]; other site 511062002806 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 511062002807 regulatory protein CsrD; Provisional; Region: PRK11059 511062002808 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062002809 metal binding site [ion binding]; metal-binding site 511062002810 active site 511062002811 I-site; other site 511062002812 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 511062002813 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 511062002814 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 511062002815 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 511062002816 catalytic residue [active] 511062002817 rod shape-determining protein MreB; Provisional; Region: PRK13927 511062002818 MreB and similar proteins; Region: MreB_like; cd10225 511062002819 nucleotide binding site [chemical binding]; other site 511062002820 Mg binding site [ion binding]; other site 511062002821 putative protofilament interaction site [polypeptide binding]; other site 511062002822 RodZ interaction site [polypeptide binding]; other site 511062002823 rod shape-determining protein MreC; Provisional; Region: PRK13922 511062002824 rod shape-determining protein MreC; Region: MreC; pfam04085 511062002825 rod shape-determining protein MreD; Region: MreD; cl01087 511062002826 Maf-like protein; Region: Maf; pfam02545 511062002827 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 511062002828 active site 511062002829 dimer interface [polypeptide binding]; other site 511062002830 ribonuclease G; Provisional; Region: PRK11712 511062002831 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 511062002832 homodimer interface [polypeptide binding]; other site 511062002833 oligonucleotide binding site [chemical binding]; other site 511062002834 TIGR02099 family protein; Region: TIGR02099 511062002835 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 511062002836 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 511062002837 nitrilase; Region: PLN02798 511062002838 putative active site [active] 511062002839 catalytic triad [active] 511062002840 dimer interface [polypeptide binding]; other site 511062002841 protease TldD; Provisional; Region: tldD; PRK10735 511062002842 hypothetical protein; Provisional; Region: PRK05255 511062002843 peptidase PmbA; Provisional; Region: PRK11040 511062002844 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 511062002845 MgtE intracellular N domain; Region: MgtE_N; smart00924 511062002846 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 511062002847 Divalent cation transporter; Region: MgtE; pfam01769 511062002848 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 511062002849 regulatory protein interface [polypeptide binding]; other site 511062002850 active site 511062002851 regulatory phosphorylation site [posttranslational modification]; other site 511062002852 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 511062002853 AAA domain; Region: AAA_18; pfam13238 511062002854 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 511062002855 active site 511062002856 phosphorylation site [posttranslational modification] 511062002857 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 511062002858 30S subunit binding site; other site 511062002859 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 511062002860 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 511062002861 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 511062002862 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 511062002863 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 511062002864 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 511062002865 Walker A/P-loop; other site 511062002866 ATP binding site [chemical binding]; other site 511062002867 Q-loop/lid; other site 511062002868 ABC transporter signature motif; other site 511062002869 Walker B; other site 511062002870 D-loop; other site 511062002871 H-loop/switch region; other site 511062002872 OstA-like protein; Region: OstA; cl00844 511062002873 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 511062002874 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 511062002875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 511062002876 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 511062002877 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 511062002878 active site 511062002879 motif I; other site 511062002880 motif II; other site 511062002881 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 511062002882 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 511062002883 putative active site [active] 511062002884 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 511062002885 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 511062002886 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 511062002887 Walker A/P-loop; other site 511062002888 ATP binding site [chemical binding]; other site 511062002889 Q-loop/lid; other site 511062002890 ABC transporter signature motif; other site 511062002891 Walker B; other site 511062002892 D-loop; other site 511062002893 H-loop/switch region; other site 511062002894 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 511062002895 Permease; Region: Permease; cl00510 511062002896 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 511062002897 mce related protein; Region: MCE; pfam02470 511062002898 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 511062002899 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 511062002900 BolA-like protein; Region: BolA; cl00386 511062002901 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 511062002902 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 511062002903 hinge; other site 511062002904 active site 511062002905 Transposase; Region: HTH_Tnp_1; pfam01527 511062002906 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 511062002907 Protein of unknown function (DUF674); Region: DUF674; pfam05056 511062002908 Integrase core domain; Region: rve; pfam00665 511062002909 Integrase core domain; Region: rve_3; pfam13683 511062002910 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 511062002911 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 511062002912 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 511062002913 protein binding site [polypeptide binding]; other site 511062002914 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 511062002915 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 511062002916 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 511062002917 protein binding site [polypeptide binding]; other site 511062002918 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 511062002919 Predicted ATPase [General function prediction only]; Region: COG1485 511062002920 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 511062002921 23S rRNA interface [nucleotide binding]; other site 511062002922 L3 interface [polypeptide binding]; other site 511062002923 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 511062002924 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 511062002925 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 511062002926 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 511062002927 [2Fe-2S] cluster binding site [ion binding]; other site 511062002928 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 511062002929 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 511062002930 Qi binding site; other site 511062002931 intrachain domain interface; other site 511062002932 interchain domain interface [polypeptide binding]; other site 511062002933 heme bH binding site [chemical binding]; other site 511062002934 heme bL binding site [chemical binding]; other site 511062002935 Qo binding site; other site 511062002936 interchain domain interface [polypeptide binding]; other site 511062002937 intrachain domain interface; other site 511062002938 Qi binding site; other site 511062002939 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 511062002940 Qo binding site; other site 511062002941 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 511062002942 stringent starvation protein A; Provisional; Region: sspA; PRK09481 511062002943 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 511062002944 C-terminal domain interface [polypeptide binding]; other site 511062002945 putative GSH binding site (G-site) [chemical binding]; other site 511062002946 dimer interface [polypeptide binding]; other site 511062002947 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 511062002948 dimer interface [polypeptide binding]; other site 511062002949 N-terminal domain interface [polypeptide binding]; other site 511062002950 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 511062002951 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 511062002952 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 511062002953 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 511062002954 outer membrane lipoprotein; Provisional; Region: PRK11023 511062002955 BON domain; Region: BON; pfam04972 511062002956 BON domain; Region: BON; pfam04972 511062002957 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 511062002958 dimer interface [polypeptide binding]; other site 511062002959 active site 511062002960 hypothetical protein; Reviewed; Region: PRK12497 511062002961 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 511062002962 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 511062002963 putative ligand binding site [chemical binding]; other site 511062002964 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 511062002965 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 511062002966 putative SAM binding site [chemical binding]; other site 511062002967 putative homodimer interface [polypeptide binding]; other site 511062002968 Cache domain; Region: Cache_1; pfam02743 511062002969 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 511062002970 dimerization interface [polypeptide binding]; other site 511062002971 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 511062002972 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062002973 dimer interface [polypeptide binding]; other site 511062002974 putative CheW interface [polypeptide binding]; other site 511062002975 cell division protein MraZ; Reviewed; Region: PRK00326 511062002976 MraZ protein; Region: MraZ; pfam02381 511062002977 MraZ protein; Region: MraZ; pfam02381 511062002978 MraW methylase family; Region: Methyltransf_5; pfam01795 511062002979 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 511062002980 Cell division protein FtsL; Region: FtsL; pfam04999 511062002981 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 511062002982 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 511062002983 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 511062002984 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 511062002985 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 511062002986 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 511062002987 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 511062002988 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 511062002989 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 511062002990 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 511062002991 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 511062002992 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 511062002993 Mg++ binding site [ion binding]; other site 511062002994 putative catalytic motif [active] 511062002995 putative substrate binding site [chemical binding]; other site 511062002996 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 511062002997 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 511062002998 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 511062002999 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 511062003000 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 511062003001 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 511062003002 active site 511062003003 homodimer interface [polypeptide binding]; other site 511062003004 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 511062003005 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 511062003006 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 511062003007 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 511062003008 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 511062003009 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 511062003010 ATP-grasp domain; Region: ATP-grasp_4; cl17255 511062003011 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 511062003012 Cell division protein FtsQ; Region: FtsQ; pfam03799 511062003013 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 511062003014 Cell division protein FtsA; Region: FtsA; smart00842 511062003015 Cell division protein FtsA; Region: FtsA; pfam14450 511062003016 cell division protein FtsZ; Validated; Region: PRK09330 511062003017 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 511062003018 nucleotide binding site [chemical binding]; other site 511062003019 SulA interaction site; other site 511062003020 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 511062003021 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 511062003022 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 511062003023 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 511062003024 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; cl17351 511062003025 nucleotide binding region [chemical binding]; other site 511062003026 ATP-binding site [chemical binding]; other site 511062003027 SEC-C motif; Region: SEC-C; pfam02810 511062003028 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 511062003029 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062003030 dimer interface [polypeptide binding]; other site 511062003031 putative CheW interface [polypeptide binding]; other site 511062003032 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 511062003033 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 511062003034 putative acyl-acceptor binding pocket; other site 511062003035 RNase E inhibitor protein; Provisional; Region: PRK11191 511062003036 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 511062003037 lipoprotein; Provisional; Region: PRK10540 511062003038 SCP_PR-1_like: SCP-like extracellular protein domain, PR-1 like subfamily. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), which accumulates after infections with pathogens, and may act as an anti-fungal...; Region: SCP_PR-1_like; cd05381 511062003039 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 511062003040 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 511062003041 HIGH motif; other site 511062003042 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 511062003043 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 511062003044 active site 511062003045 KMSKS motif; other site 511062003046 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 511062003047 tRNA binding surface [nucleotide binding]; other site 511062003048 anticodon binding site; other site 511062003049 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 511062003050 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 511062003051 multifunctional aminopeptidase A; Provisional; Region: PRK00913 511062003052 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 511062003053 interface (dimer of trimers) [polypeptide binding]; other site 511062003054 Substrate-binding/catalytic site; other site 511062003055 Zn-binding sites [ion binding]; other site 511062003056 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 511062003057 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 511062003058 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 511062003059 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 511062003060 RDD family; Region: RDD; pfam06271 511062003061 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 511062003062 nucleoside/Zn binding site; other site 511062003063 dimer interface [polypeptide binding]; other site 511062003064 catalytic motif [active] 511062003065 TRAM domain; Region: TRAM; pfam01938 511062003066 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 511062003067 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 511062003068 S-adenosylmethionine binding site [chemical binding]; other site 511062003069 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 511062003070 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 511062003071 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 511062003072 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 511062003073 S-adenosylmethionine binding site [chemical binding]; other site 511062003074 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 511062003075 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 511062003076 dimer interface [polypeptide binding]; other site 511062003077 active site 511062003078 catalytic residue [active] 511062003079 bacterial Hfq-like; Region: Hfq; cd01716 511062003080 hexamer interface [polypeptide binding]; other site 511062003081 Sm1 motif; other site 511062003082 RNA binding site [nucleotide binding]; other site 511062003083 Sm2 motif; other site 511062003084 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 511062003085 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 511062003086 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 511062003087 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 511062003088 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 511062003089 DNA-binding site [nucleotide binding]; DNA binding site 511062003090 RNA-binding motif; other site 511062003091 oxidative damage protection protein; Provisional; Region: PRK05408 511062003092 adenine DNA glycosylase; Provisional; Region: PRK10880 511062003093 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 511062003094 minor groove reading motif; other site 511062003095 helix-hairpin-helix signature motif; other site 511062003096 substrate binding pocket [chemical binding]; other site 511062003097 active site 511062003098 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 511062003099 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 511062003100 DNA binding and oxoG recognition site [nucleotide binding] 511062003101 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 511062003102 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 511062003103 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062003104 homodimer interface [polypeptide binding]; other site 511062003105 catalytic residue [active] 511062003106 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 511062003107 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 511062003108 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 511062003109 active site 511062003110 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 511062003111 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 511062003112 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 511062003113 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 511062003114 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062003115 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062003116 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 511062003117 dimerization interface [polypeptide binding]; other site 511062003118 putative global regulator; Reviewed; Region: PRK09559 511062003119 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 511062003120 Uncharacterized conserved protein [Function unknown]; Region: COG2938 511062003121 L-aspartate oxidase; Provisional; Region: PRK09077 511062003122 L-aspartate oxidase; Provisional; Region: PRK06175 511062003123 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 511062003124 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 511062003125 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 511062003126 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 511062003127 DNA binding residues [nucleotide binding] 511062003128 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 511062003129 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 511062003130 anti-sigma E factor; Provisional; Region: rseB; PRK09455 511062003131 MucB/RseB family; Region: MucB_RseB; pfam03888 511062003132 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 511062003133 GTP-binding protein LepA; Provisional; Region: PRK05433 511062003134 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 511062003135 G1 box; other site 511062003136 putative GEF interaction site [polypeptide binding]; other site 511062003137 GTP/Mg2+ binding site [chemical binding]; other site 511062003138 Switch I region; other site 511062003139 G2 box; other site 511062003140 G3 box; other site 511062003141 Switch II region; other site 511062003142 G4 box; other site 511062003143 G5 box; other site 511062003144 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 511062003145 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 511062003146 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 511062003147 signal peptidase I; Provisional; Region: PRK10861 511062003148 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 511062003149 Catalytic site [active] 511062003150 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 511062003151 ribonuclease III; Reviewed; Region: rnc; PRK00102 511062003152 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 511062003153 dimerization interface [polypeptide binding]; other site 511062003154 active site 511062003155 metal binding site [ion binding]; metal-binding site 511062003156 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 511062003157 dsRNA binding site [nucleotide binding]; other site 511062003158 GTPase Era; Reviewed; Region: era; PRK00089 511062003159 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 511062003160 G1 box; other site 511062003161 GTP/Mg2+ binding site [chemical binding]; other site 511062003162 Switch I region; other site 511062003163 G2 box; other site 511062003164 Switch II region; other site 511062003165 G3 box; other site 511062003166 G4 box; other site 511062003167 G5 box; other site 511062003168 KH domain; Region: KH_2; pfam07650 511062003169 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 511062003170 Recombination protein O N terminal; Region: RecO_N; pfam11967 511062003171 Recombination protein O C terminal; Region: RecO_C; pfam02565 511062003172 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 511062003173 active site 511062003174 hydrophilic channel; other site 511062003175 dimerization interface [polypeptide binding]; other site 511062003176 catalytic residues [active] 511062003177 active site lid [active] 511062003178 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 511062003179 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 511062003180 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 511062003181 dimerization interface [polypeptide binding]; other site 511062003182 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 511062003183 dimer interface [polypeptide binding]; other site 511062003184 phosphorylation site [posttranslational modification] 511062003185 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 511062003186 ATP binding site [chemical binding]; other site 511062003187 Mg2+ binding site [ion binding]; other site 511062003188 G-X-G motif; other site 511062003189 Uncharacterized domain of BarA-like signal transduction histidine kinases [Signal transduction mechanisms]; Region: COG4999 511062003190 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062003191 active site 511062003192 phosphorylation site [posttranslational modification] 511062003193 intermolecular recognition site; other site 511062003194 dimerization interface [polypeptide binding]; other site 511062003195 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 511062003196 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 511062003197 TRAM domain; Region: TRAM; cl01282 511062003198 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 511062003199 HD domain; Region: HD_4; pfam13328 511062003200 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 511062003201 synthetase active site [active] 511062003202 NTP binding site [chemical binding]; other site 511062003203 metal binding site [ion binding]; metal-binding site 511062003204 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 511062003205 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 511062003206 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 511062003207 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 511062003208 homodimer interface [polypeptide binding]; other site 511062003209 metal binding site [ion binding]; metal-binding site 511062003210 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 511062003211 homodimer interface [polypeptide binding]; other site 511062003212 active site 511062003213 putative chemical substrate binding site [chemical binding]; other site 511062003214 metal binding site [ion binding]; metal-binding site 511062003215 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 511062003216 Sel1 repeat; Region: Sel1; cl02723 511062003217 Transcriptional regulator; Region: Rrf2; cl17282 511062003218 Rrf2 family protein; Region: rrf2_super; TIGR00738 511062003219 hypothetical protein; Provisional; Region: PRK11573 511062003220 Domain of unknown function DUF21; Region: DUF21; pfam01595 511062003221 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 511062003222 Transporter associated domain; Region: CorC_HlyC; smart01091 511062003223 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4137 511062003224 signal recognition particle protein; Provisional; Region: PRK10867 511062003225 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 511062003226 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 511062003227 P loop; other site 511062003228 GTP binding site [chemical binding]; other site 511062003229 Signal peptide binding domain; Region: SRP_SPB; pfam02978 511062003230 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 511062003231 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 511062003232 RimM N-terminal domain; Region: RimM; pfam01782 511062003233 PRC-barrel domain; Region: PRC; pfam05239 511062003234 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 511062003235 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 511062003236 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 511062003237 Major Facilitator Superfamily; Region: MFS_1; pfam07690 511062003238 putative substrate translocation pore; other site 511062003239 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 511062003240 putative DNA-binding cleft [nucleotide binding]; other site 511062003241 putative DNA clevage site; other site 511062003242 molecular lever; other site 511062003243 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 511062003244 putative active site [active] 511062003245 Ap4A binding site [chemical binding]; other site 511062003246 nudix motif; other site 511062003247 putative metal binding site [ion binding]; other site 511062003248 GAF domain; Region: GAF; pfam01590 511062003249 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 511062003250 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 511062003251 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 511062003252 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 511062003253 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 511062003254 thymidylate synthase; Reviewed; Region: thyA; PRK01827 511062003255 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 511062003256 dimerization interface [polypeptide binding]; other site 511062003257 active site 511062003258 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 511062003259 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 511062003260 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062003261 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 511062003262 putative dimerization interface [polypeptide binding]; other site 511062003263 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 511062003264 dimerization interface [polypeptide binding]; other site 511062003265 putative DNA binding site [nucleotide binding]; other site 511062003266 putative Zn2+ binding site [ion binding]; other site 511062003267 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 511062003268 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 511062003269 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 511062003270 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 511062003271 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 511062003272 active site 511062003273 Riboflavin kinase; Region: Flavokinase; pfam01687 511062003274 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 511062003275 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 511062003276 active site 511062003277 HIGH motif; other site 511062003278 nucleotide binding site [chemical binding]; other site 511062003279 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 511062003280 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 511062003281 active site 511062003282 KMSKS motif; other site 511062003283 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 511062003284 tRNA binding surface [nucleotide binding]; other site 511062003285 anticodon binding site; other site 511062003286 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 511062003287 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 511062003288 lipoprotein signal peptidase; Provisional; Region: PRK14787 511062003289 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 511062003290 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 511062003291 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 511062003292 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 511062003293 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 511062003294 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 511062003295 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 511062003296 Type II transport protein GspH; Region: GspH; pfam12019 511062003297 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 511062003298 NAD synthetase; Provisional; Region: PRK13981 511062003299 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 511062003300 multimer interface [polypeptide binding]; other site 511062003301 active site 511062003302 catalytic triad [active] 511062003303 protein interface 1 [polypeptide binding]; other site 511062003304 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 511062003305 homodimer interface [polypeptide binding]; other site 511062003306 NAD binding pocket [chemical binding]; other site 511062003307 ATP binding pocket [chemical binding]; other site 511062003308 Mg binding site [ion binding]; other site 511062003309 active-site loop [active] 511062003310 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 511062003311 Nitrogen regulatory protein P-II; Region: P-II; smart00938 511062003312 S-ribosylhomocysteinase; Provisional; Region: PRK02260 511062003313 exoribonuclease R; Provisional; Region: PRK11642 511062003314 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 511062003315 RNB domain; Region: RNB; pfam00773 511062003316 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 511062003317 RNA binding site [nucleotide binding]; other site 511062003318 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 511062003319 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 511062003320 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 511062003321 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 511062003322 EamA-like transporter family; Region: EamA; pfam00892 511062003323 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 511062003324 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 511062003325 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 511062003326 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 511062003327 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 511062003328 ferredoxin-NADP reductase; Provisional; Region: PRK10926 511062003329 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 511062003330 FAD binding pocket [chemical binding]; other site 511062003331 FAD binding motif [chemical binding]; other site 511062003332 phosphate binding motif [ion binding]; other site 511062003333 beta-alpha-beta structure motif; other site 511062003334 NAD binding pocket [chemical binding]; other site 511062003335 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 511062003336 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 511062003337 putative NAD(P) binding site [chemical binding]; other site 511062003338 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 511062003339 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 511062003340 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 511062003341 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 511062003342 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 511062003343 glutamate--cysteine ligase; Provisional; Region: PRK02107 511062003344 outer membrane biogenesis protein BamD; Provisional; Region: PRK10866 511062003345 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 511062003346 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 511062003347 RNA binding surface [nucleotide binding]; other site 511062003348 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 511062003349 active site 511062003350 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 511062003351 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 511062003352 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 511062003353 Clp amino terminal domain; Region: Clp_N; pfam02861 511062003354 Clp amino terminal domain; Region: Clp_N; pfam02861 511062003355 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 511062003356 Walker A motif; other site 511062003357 ATP binding site [chemical binding]; other site 511062003358 Walker B motif; other site 511062003359 arginine finger; other site 511062003360 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 511062003361 Walker A motif; other site 511062003362 ATP binding site [chemical binding]; other site 511062003363 Walker B motif; other site 511062003364 arginine finger; other site 511062003365 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 511062003366 NnrS protein; Region: NnrS; pfam05940 511062003367 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 511062003368 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 511062003369 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 511062003370 Walker A/P-loop; other site 511062003371 ATP binding site [chemical binding]; other site 511062003372 Q-loop/lid; other site 511062003373 ABC transporter signature motif; other site 511062003374 Walker B; other site 511062003375 D-loop; other site 511062003376 H-loop/switch region; other site 511062003377 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 511062003378 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 511062003379 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 511062003380 HlyD family secretion protein; Region: HlyD_3; pfam13437 511062003381 aspartate carbamoyltransferase regulatory subunit; Reviewed; Region: PRK00893 511062003382 Aspartate carbamoyltransferase regulatory chain, allosteric domain; Region: PyrI; pfam01948 511062003383 Aspartate carbamoyltransferase regulatory chain, metal binding domain; Region: PyrI_C; pfam02748 511062003384 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 511062003385 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 511062003386 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 511062003387 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 511062003388 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 511062003389 Coenzyme A binding pocket [chemical binding]; other site 511062003390 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 511062003391 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 511062003392 Peptidase family M23; Region: Peptidase_M23; pfam01551 511062003393 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 511062003394 NAD(P) transhydrogenase subunit alpha; Provisional; Region: pntA; PRK09424 511062003395 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 511062003396 ligand binding site [chemical binding]; other site 511062003397 homodimer interface [polypeptide binding]; other site 511062003398 NAD(P) binding site [chemical binding]; other site 511062003399 trimer interface B [polypeptide binding]; other site 511062003400 trimer interface A [polypeptide binding]; other site 511062003401 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 511062003402 pyridine nucleotide transhydrogenase; Provisional; Region: pntB; PRK09444 511062003403 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 511062003404 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 511062003405 active site 511062003406 homotetramer interface [polypeptide binding]; other site 511062003407 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 511062003408 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062003409 active site 511062003410 phosphorylation site [posttranslational modification] 511062003411 intermolecular recognition site; other site 511062003412 dimerization interface [polypeptide binding]; other site 511062003413 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 511062003414 DNA binding site [nucleotide binding] 511062003415 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 511062003416 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 511062003417 dimerization interface [polypeptide binding]; other site 511062003418 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 511062003419 dimer interface [polypeptide binding]; other site 511062003420 phosphorylation site [posttranslational modification] 511062003421 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 511062003422 ATP binding site [chemical binding]; other site 511062003423 G-X-G motif; other site 511062003424 AzlC protein; Region: AzlC; pfam03591 511062003425 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 511062003426 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 511062003427 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062003428 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 511062003429 Walker A/P-loop; other site 511062003430 ATP binding site [chemical binding]; other site 511062003431 Q-loop/lid; other site 511062003432 ABC transporter signature motif; other site 511062003433 Walker B; other site 511062003434 D-loop; other site 511062003435 H-loop/switch region; other site 511062003436 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 511062003437 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 511062003438 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 511062003439 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 511062003440 NAD(P) binding site [chemical binding]; other site 511062003441 active site 511062003442 Predicted membrane protein [Function unknown]; Region: COG3748 511062003443 Protein of unknown function (DUF989); Region: DUF989; pfam06181 511062003444 Cytochrome c; Region: Cytochrom_C; pfam00034 511062003445 DTW domain; Region: DTW; cl01221 511062003446 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 511062003447 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 511062003448 G1 box; other site 511062003449 putative GEF interaction site [polypeptide binding]; other site 511062003450 GTP/Mg2+ binding site [chemical binding]; other site 511062003451 Switch I region; other site 511062003452 G2 box; other site 511062003453 G3 box; other site 511062003454 Switch II region; other site 511062003455 G4 box; other site 511062003456 G5 box; other site 511062003457 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 511062003458 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 511062003459 active site 511062003460 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 511062003461 intersubunit interface [polypeptide binding]; other site 511062003462 active site 511062003463 catalytic residue [active] 511062003464 phosphopentomutase; Provisional; Region: PRK05362 511062003465 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 511062003466 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 511062003467 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 511062003468 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 511062003469 phosphoserine phosphatase SerB; Region: serB; TIGR00338 511062003470 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 511062003471 motif II; other site 511062003472 PilZ domain; Region: PilZ; pfam07238 511062003473 PilZ domain; Region: PilZ; pfam07238 511062003474 DNA repair protein RadA; Provisional; Region: PRK11823 511062003475 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 511062003476 Walker A motif/ATP binding site; other site 511062003477 ATP binding site [chemical binding]; other site 511062003478 Walker B motif; other site 511062003479 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 511062003480 PilZ domain; Region: PilZ; pfam07238 511062003481 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 511062003482 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 511062003483 substrate binding site [chemical binding]; other site 511062003484 active site 511062003485 putative peptidase; Provisional; Region: PRK11649 511062003486 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 511062003487 Peptidase family M23; Region: Peptidase_M23; pfam01551 511062003488 ABC-type Zn2+ transport system, periplasmic component/surface adhesin [Inorganic ion transport and metabolism]; Region: ZnuA; COG4531 511062003489 Zinc binding protein ZnuA. These proteins have been shown to function as initial receptors in the ABC uptake of Zn2+. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct fold and ligand binding mechanism; Region: ZnuA; cd01019 511062003490 metal binding site [ion binding]; metal-binding site 511062003491 high-affinity zinc transporter ATPase; Reviewed; Region: znuC; PRK09544 511062003492 ATP-binding cassette domain of the metal-type transporters; Region: ABC_Metallic_Cations; cd03235 511062003493 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 511062003494 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 511062003495 ABC-ATPase subunit interface; other site 511062003496 dimer interface [polypeptide binding]; other site 511062003497 putative PBP binding regions; other site 511062003498 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 511062003499 putative uracil binding site [chemical binding]; other site 511062003500 putative active site [active] 511062003501 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 511062003502 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 511062003503 NAD binding site [chemical binding]; other site 511062003504 ligand binding site [chemical binding]; other site 511062003505 catalytic site [active] 511062003506 Protein of unknown function (DUF416); Region: DUF416; pfam04222 511062003507 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 511062003508 MarR family; Region: MarR; pfam01047 511062003509 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 511062003510 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 511062003511 DNA-binding site [nucleotide binding]; DNA binding site 511062003512 UTRA domain; Region: UTRA; pfam07702 511062003513 YaeQ protein; Region: YaeQ; pfam07152 511062003514 imidazolonepropionase; Validated; Region: PRK09356 511062003515 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 511062003516 active site 511062003517 urocanate hydratase; Provisional; Region: PRK05414 511062003518 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 511062003519 active sites [active] 511062003520 tetramer interface [polypeptide binding]; other site 511062003521 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 511062003522 ATP binding site [chemical binding]; other site 511062003523 active site 511062003524 substrate binding site [chemical binding]; other site 511062003525 Uncharacterized conserved protein [Function unknown]; Region: COG1359 511062003526 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 511062003527 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 511062003528 ligand binding site [chemical binding]; other site 511062003529 flexible hinge region; other site 511062003530 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 511062003531 putative switch regulator; other site 511062003532 non-specific DNA interactions [nucleotide binding]; other site 511062003533 DNA binding site [nucleotide binding] 511062003534 sequence specific DNA binding site [nucleotide binding]; other site 511062003535 putative cAMP binding site [chemical binding]; other site 511062003536 OsmC-like protein; Region: OsmC; cl00767 511062003537 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 511062003538 phosphoribulokinase; Provisional; Region: PRK15453 511062003539 active site 511062003540 hypothetical protein; Provisional; Region: PRK04966 511062003541 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 511062003542 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 511062003543 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 511062003544 putative acyl-acceptor binding pocket; other site 511062003545 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 511062003546 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062003547 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 511062003548 dimerization interface [polypeptide binding]; other site 511062003549 substrate binding pocket [chemical binding]; other site 511062003550 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 511062003551 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 511062003552 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 511062003553 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 511062003554 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 511062003555 ABC transporter; Region: ABC_tran_2; pfam12848 511062003556 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 511062003557 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 511062003558 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 511062003559 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 511062003560 Integrase core domain; Region: rve; pfam00665 511062003561 Integrase core domain; Region: rve_3; pfam13683 511062003562 Transposase; Region: HTH_Tnp_1; pfam01527 511062003563 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 511062003564 SlyX; Region: SlyX; pfam04102 511062003565 FOG: WD40 repeat [General function prediction only]; Region: COG2319 511062003566 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 511062003567 structural tetrad; other site 511062003568 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 511062003569 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 511062003570 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 511062003571 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 511062003572 GIY-YIG motif/motif A; other site 511062003573 putative active site [active] 511062003574 putative metal binding site [ion binding]; other site 511062003575 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 511062003576 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 511062003577 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 511062003578 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 511062003579 putative efflux protein, MATE family; Region: matE; TIGR00797 511062003580 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 511062003581 oligomerisation interface [polypeptide binding]; other site 511062003582 mobile loop; other site 511062003583 roof hairpin; other site 511062003584 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 511062003585 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 511062003586 ring oligomerisation interface [polypeptide binding]; other site 511062003587 ATP/Mg binding site [chemical binding]; other site 511062003588 stacking interactions; other site 511062003589 hinge regions; other site 511062003590 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 511062003591 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062003592 metal binding site [ion binding]; metal-binding site 511062003593 active site 511062003594 I-site; other site 511062003595 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 511062003596 Lysine 2,3-aminomutase [Amino acid transport and metabolism]; Region: KamA; COG1509 511062003597 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 511062003598 FeS/SAM binding site; other site 511062003599 elongation factor P; Validated; Region: PRK00529 511062003600 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 511062003601 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 511062003602 RNA binding site [nucleotide binding]; other site 511062003603 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 511062003604 RNA binding site [nucleotide binding]; other site 511062003605 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 511062003606 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 511062003607 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 511062003608 Transposase; Region: HTH_Tnp_1; pfam01527 511062003609 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 511062003610 Integrase core domain; Region: rve; pfam00665 511062003611 Integrase core domain; Region: rve_3; pfam13683 511062003612 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05096 511062003613 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 511062003614 active site 511062003615 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 511062003616 dimer interface [polypeptide binding]; other site 511062003617 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 511062003618 metal binding site [ion binding]; metal-binding site 511062003619 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 511062003620 poxB regulator PoxA; Provisional; Region: PRK09350 511062003621 motif 1; other site 511062003622 dimer interface [polypeptide binding]; other site 511062003623 active site 511062003624 motif 2; other site 511062003625 motif 3; other site 511062003626 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 511062003627 Mechanosensitive ion channel porin domain; Region: MscS_porin; pfam12795 511062003628 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 511062003629 Mechanosensitive ion channel; Region: MS_channel; pfam00924 511062003630 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 511062003631 GTPase RsgA; Reviewed; Region: PRK12288 511062003632 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 511062003633 RNA binding site [nucleotide binding]; other site 511062003634 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 511062003635 GTPase/Zn-binding domain interface [polypeptide binding]; other site 511062003636 GTP/Mg2+ binding site [chemical binding]; other site 511062003637 G4 box; other site 511062003638 G5 box; other site 511062003639 G1 box; other site 511062003640 Switch I region; other site 511062003641 G2 box; other site 511062003642 G3 box; other site 511062003643 Switch II region; other site 511062003644 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 511062003645 catalytic site [active] 511062003646 putative active site [active] 511062003647 putative substrate binding site [chemical binding]; other site 511062003648 dimer interface [polypeptide binding]; other site 511062003649 Subfamily of the nitroreductase family that includes BluB protein in Rhodobacter capsulatus is involved in the conversion of cobinamide to cobalamin in Cobalamin (vitamin B12) biosynthesis. Nitroreductases typically reduce their substrates by using NAD(P)...; Region: BluB; cd02145 511062003650 putative FMN binding site [chemical binding]; other site 511062003651 epoxyqueuosine reductase; Region: TIGR00276 511062003652 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 511062003653 putative carbohydrate kinase; Provisional; Region: PRK10565 511062003654 Uncharacterized conserved protein [Function unknown]; Region: COG0062 511062003655 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 511062003656 putative substrate binding site [chemical binding]; other site 511062003657 putative ATP binding site [chemical binding]; other site 511062003658 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 511062003659 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 511062003660 AMIN domain; Region: AMIN; pfam11741 511062003661 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 511062003662 active site 511062003663 metal binding site [ion binding]; metal-binding site 511062003664 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 511062003665 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 511062003666 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 511062003667 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 511062003668 ATP binding site [chemical binding]; other site 511062003669 Mg2+ binding site [ion binding]; other site 511062003670 G-X-G motif; other site 511062003671 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 511062003672 ATP binding site [chemical binding]; other site 511062003673 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 511062003674 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 511062003675 bacterial Hfq-like; Region: Hfq; cd01716 511062003676 hexamer interface [polypeptide binding]; other site 511062003677 Sm1 motif; other site 511062003678 RNA binding site [nucleotide binding]; other site 511062003679 Sm2 motif; other site 511062003680 GTPase HflX; Provisional; Region: PRK11058 511062003681 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 511062003682 HflX GTPase family; Region: HflX; cd01878 511062003683 G1 box; other site 511062003684 GTP/Mg2+ binding site [chemical binding]; other site 511062003685 Switch I region; other site 511062003686 G2 box; other site 511062003687 G3 box; other site 511062003688 Switch II region; other site 511062003689 G4 box; other site 511062003690 G5 box; other site 511062003691 FtsH protease regulator HflK; Provisional; Region: PRK10930 511062003692 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 511062003693 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 511062003694 FtsH protease regulator HflC; Provisional; Region: PRK11029 511062003695 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 511062003696 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 511062003697 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 511062003698 GDP-binding site [chemical binding]; other site 511062003699 ACT binding site; other site 511062003700 IMP binding site; other site 511062003701 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 511062003702 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 511062003703 substrate binding pocket [chemical binding]; other site 511062003704 chain length determination region; other site 511062003705 substrate-Mg2+ binding site; other site 511062003706 catalytic residues [active] 511062003707 aspartate-rich region 1; other site 511062003708 active site lid residues [active] 511062003709 aspartate-rich region 2; other site 511062003710 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 511062003711 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 511062003712 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 511062003713 GTPase CgtA; Reviewed; Region: obgE; PRK12298 511062003714 GTP1/OBG; Region: GTP1_OBG; pfam01018 511062003715 Obg GTPase; Region: Obg; cd01898 511062003716 G1 box; other site 511062003717 GTP/Mg2+ binding site [chemical binding]; other site 511062003718 Switch I region; other site 511062003719 G2 box; other site 511062003720 G3 box; other site 511062003721 Switch II region; other site 511062003722 G4 box; other site 511062003723 G5 box; other site 511062003724 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 511062003725 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 511062003726 folate binding site [chemical binding]; other site 511062003727 NADP+ binding site [chemical binding]; other site 511062003728 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 511062003729 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 511062003730 active site 511062003731 metal binding site [ion binding]; metal-binding site 511062003732 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 511062003733 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 511062003734 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 511062003735 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 511062003736 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 511062003737 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 511062003738 SurA N-terminal domain; Region: SurA_N; pfam09312 511062003739 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 511062003740 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 511062003741 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 511062003742 OstA-like protein; Region: OstA; cl00844 511062003743 Organic solvent tolerance protein; Region: OstA_C; pfam04453 511062003744 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 511062003745 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 511062003746 putative metal binding site [ion binding]; other site 511062003747 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 511062003748 HSP70 interaction site [polypeptide binding]; other site 511062003749 Integrase core domain; Region: rve; pfam00665 511062003750 Integrase core domain; Region: rve_3; pfam13683 511062003751 Transposase; Region: HTH_Tnp_1; pfam01527 511062003752 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 511062003753 glycerate dehydrogenase; Provisional; Region: PRK06487 511062003754 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 511062003755 putative ligand binding site [chemical binding]; other site 511062003756 putative NAD binding site [chemical binding]; other site 511062003757 catalytic site [active] 511062003758 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 511062003759 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 511062003760 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 511062003761 active site 511062003762 ATP-dependent helicase HepA; Validated; Region: PRK04914 511062003763 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 511062003764 ATP binding site [chemical binding]; other site 511062003765 putative Mg++ binding site [ion binding]; other site 511062003766 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 511062003767 nucleotide binding region [chemical binding]; other site 511062003768 ATP-binding site [chemical binding]; other site 511062003769 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 511062003770 homotrimer interface [polypeptide binding]; other site 511062003771 Walker A motif; other site 511062003772 GTP binding site [chemical binding]; other site 511062003773 Walker B motif; other site 511062003774 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 511062003775 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 511062003776 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 511062003777 active site 511062003778 HIGH motif; other site 511062003779 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 511062003780 active site 511062003781 KMSKS motif; other site 511062003782 potential protein location (hypothetical protein GU3_05550 [Oceanimonas sp. GK1]) that overlaps RNA (tRNA-A) 511062003783 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 511062003784 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 511062003785 active site 511062003786 catalytic triad [active] 511062003787 oxyanion hole [active] 511062003788 switch loop; other site 511062003789 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 511062003790 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 511062003791 Walker A/P-loop; other site 511062003792 ATP binding site [chemical binding]; other site 511062003793 Q-loop/lid; other site 511062003794 ABC transporter signature motif; other site 511062003795 Walker B; other site 511062003796 D-loop; other site 511062003797 H-loop/switch region; other site 511062003798 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 511062003799 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 511062003800 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 511062003801 putative NAD(P) binding site [chemical binding]; other site 511062003802 putative active site [active] 511062003803 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 511062003804 dimer interface [polypeptide binding]; other site 511062003805 catalytic triad [active] 511062003806 peroxidatic and resolving cysteines [active] 511062003807 Protein of unknown function, DUF412; Region: DUF412; pfam04217 511062003808 propionate/acetate kinase; Provisional; Region: PRK12379 511062003809 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 511062003810 phosphate acetyltransferase; Reviewed; Region: PRK05632 511062003811 DRTGG domain; Region: DRTGG; pfam07085 511062003812 phosphate acetyltransferase; Region: pta; TIGR00651 511062003813 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 511062003814 D-ala-D-ala dipeptidase; Region: Peptidase_M15; cl00813 511062003815 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 511062003816 amino acid carrier protein; Region: agcS; TIGR00835 511062003817 succinic semialdehyde dehydrogenase; Region: PLN02278 511062003818 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 511062003819 tetramerization interface [polypeptide binding]; other site 511062003820 NAD(P) binding site [chemical binding]; other site 511062003821 catalytic residues [active] 511062003822 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 511062003823 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 511062003824 putative heme-binding domain, Pirellula/Verrucomicrobium type; Region: CxxCH_TIGR02603 511062003825 Domain of unknown function (DUF336); Region: DUF336; cl01249 511062003826 This model contains proteins with the VRR-NUC domain; Region: VRR_NUC; smart00990 511062003827 Methyltransferase domain; Region: Methyltransf_23; pfam13489 511062003828 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 511062003829 S-adenosylmethionine binding site [chemical binding]; other site 511062003830 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 511062003831 PLD-like domain; Region: PLDc_2; pfam13091 511062003832 putative active site [active] 511062003833 catalytic site [active] 511062003834 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 511062003835 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 511062003836 ATP binding site [chemical binding]; other site 511062003837 putative Mg++ binding site [ion binding]; other site 511062003838 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 511062003839 nucleotide binding region [chemical binding]; other site 511062003840 ATP-binding site [chemical binding]; other site 511062003841 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 511062003842 Catalytic site [active] 511062003843 Inorganic pyrophosphatase; Region: Pyrophosphatase; pfam00719 511062003844 dimer interface [polypeptide binding]; other site 511062003845 substrate binding site [chemical binding]; other site 511062003846 metal binding sites [ion binding]; metal-binding site 511062003847 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 511062003848 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 511062003849 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 511062003850 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 511062003851 FMN binding site [chemical binding]; other site 511062003852 active site 511062003853 catalytic residues [active] 511062003854 substrate binding site [chemical binding]; other site 511062003855 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 511062003856 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 511062003857 S-adenosylmethionine binding site [chemical binding]; other site 511062003858 Na(+)/pantothenate cotransporters: PanF of Escherichia coli and related proteins; solute binding domain; Region: SLC5sbd_PanF; cd10327 511062003859 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 511062003860 Na binding site [ion binding]; other site 511062003861 Protein of unknown function (DUF997); Region: DUF997; cl01614 511062003862 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 511062003863 homotrimer interaction site [polypeptide binding]; other site 511062003864 putative active site [active] 511062003865 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 511062003866 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 511062003867 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 511062003868 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 511062003869 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 511062003870 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 511062003871 carboxyltransferase (CT) interaction site; other site 511062003872 biotinylation site [posttranslational modification]; other site 511062003873 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 511062003874 Dehydroquinase class II; Region: DHquinase_II; pfam01220 511062003875 active site 511062003876 trimer interface [polypeptide binding]; other site 511062003877 dimer interface [polypeptide binding]; other site 511062003878 acetyl-CoA synthetase; Provisional; Region: PRK00174 511062003879 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 511062003880 active site 511062003881 CoA binding site [chemical binding]; other site 511062003882 acyl-activating enzyme (AAE) consensus motif; other site 511062003883 AMP binding site [chemical binding]; other site 511062003884 acetate binding site [chemical binding]; other site 511062003885 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 511062003886 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 511062003887 active site 511062003888 catalytic site [active] 511062003889 substrate binding site [chemical binding]; other site 511062003890 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 511062003891 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 511062003892 ligand binding site [chemical binding]; other site 511062003893 flexible hinge region; other site 511062003894 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the bacterial CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain. Members of CAP_ED, include CAP...; Region: CBS_pair_CAP-ED_DUF294_assoc_bac; cd04589 511062003895 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 511062003896 metal binding triad; other site 511062003897 Predicted membrane protein [Function unknown]; Region: COG1238 511062003898 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 511062003899 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 511062003900 catalytic triad [active] 511062003901 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 511062003902 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 511062003903 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 511062003904 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 511062003905 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 511062003906 dimer interface [polypeptide binding]; other site 511062003907 active site 511062003908 glycine-pyridoxal phosphate binding site [chemical binding]; other site 511062003909 folate binding site [chemical binding]; other site 511062003910 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 511062003911 ATP cone domain; Region: ATP-cone; pfam03477 511062003912 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 511062003913 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 511062003914 catalytic motif [active] 511062003915 Zn binding site [ion binding]; other site 511062003916 RibD C-terminal domain; Region: RibD_C; cl17279 511062003917 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 511062003918 Lumazine binding domain; Region: Lum_binding; pfam00677 511062003919 Lumazine binding domain; Region: Lum_binding; pfam00677 511062003920 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 511062003921 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 511062003922 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 511062003923 dimerization interface [polypeptide binding]; other site 511062003924 active site 511062003925 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 511062003926 dimerization interface [polypeptide binding]; other site 511062003927 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 511062003928 Domain of unknown function (DUF1987); Region: DUF1987; pfam09345 511062003929 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062003930 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062003931 metal binding site [ion binding]; metal-binding site 511062003932 active site 511062003933 I-site; other site 511062003934 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 511062003935 putative hydrolase; Provisional; Region: PRK11460 511062003936 HopJ type III effector protein; Region: HopJ; pfam08888 511062003937 EamA-like transporter family; Region: EamA; pfam00892 511062003938 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 511062003939 EamA-like transporter family; Region: EamA; pfam00892 511062003940 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 511062003941 homopentamer interface [polypeptide binding]; other site 511062003942 active site 511062003943 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 511062003944 putative RNA binding site [nucleotide binding]; other site 511062003945 thiamine monophosphate kinase; Provisional; Region: PRK05731 511062003946 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 511062003947 ATP binding site [chemical binding]; other site 511062003948 dimerization interface [polypeptide binding]; other site 511062003949 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 511062003950 tetramer interfaces [polypeptide binding]; other site 511062003951 binuclear metal-binding site [ion binding]; other site 511062003952 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 511062003953 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 511062003954 Walker A/P-loop; other site 511062003955 ATP binding site [chemical binding]; other site 511062003956 Q-loop/lid; other site 511062003957 ABC transporter signature motif; other site 511062003958 Walker B; other site 511062003959 D-loop; other site 511062003960 H-loop/switch region; other site 511062003961 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 511062003962 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 511062003963 Walker A/P-loop; other site 511062003964 ATP binding site [chemical binding]; other site 511062003965 Q-loop/lid; other site 511062003966 ABC transporter signature motif; other site 511062003967 Walker B; other site 511062003968 D-loop; other site 511062003969 H-loop/switch region; other site 511062003970 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 511062003971 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 511062003972 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_2; cd08498 511062003973 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 511062003974 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 511062003975 dimer interface [polypeptide binding]; other site 511062003976 conserved gate region; other site 511062003977 putative PBP binding loops; other site 511062003978 ABC-ATPase subunit interface; other site 511062003979 dipeptide transporter; Provisional; Region: PRK10913 511062003980 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 511062003981 dimer interface [polypeptide binding]; other site 511062003982 conserved gate region; other site 511062003983 putative PBP binding loops; other site 511062003984 ABC-ATPase subunit interface; other site 511062003985 Predicted membrane protein [Function unknown]; Region: COG3431 511062003986 elongation factor G; Reviewed; Region: PRK00007 511062003987 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 511062003988 G1 box; other site 511062003989 putative GEF interaction site [polypeptide binding]; other site 511062003990 GTP/Mg2+ binding site [chemical binding]; other site 511062003991 Switch I region; other site 511062003992 G2 box; other site 511062003993 G3 box; other site 511062003994 Switch II region; other site 511062003995 G4 box; other site 511062003996 G5 box; other site 511062003997 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 511062003998 Elongation Factor G-like domain IV. This family includes the translational elongation factor termed EF-2 (for Archaea and Eukarya) and EF-G (for Bacteria), ribosomal protection proteins that mediate tetracycline resistance and, an evolutionarily...; Region: EFG_like_IV; cl02789 511062003999 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 511062004000 Predicted transcriptional regulator containing an HTH domain and an uncharacterized domain shared with the mammalian protein Schlafen [Transcription]; Region: COG2865 511062004001 Divergent AAA domain; Region: AAA_4; pfam04326 511062004002 ATP-dependent DNA helicase recG C-terminal; Region: HATPase_c_4; pfam13749 511062004003 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 511062004004 S-adenosylmethionine binding site [chemical binding]; other site 511062004005 Lysine efflux permease [General function prediction only]; Region: COG1279 511062004006 Cupin domain; Region: Cupin_2; pfam07883 511062004007 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 511062004008 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 511062004009 TPP-binding site; other site 511062004010 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 511062004011 PYR/PP interface [polypeptide binding]; other site 511062004012 dimer interface [polypeptide binding]; other site 511062004013 TPP binding site [chemical binding]; other site 511062004014 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 511062004015 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 511062004016 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 511062004017 substrate binding pocket [chemical binding]; other site 511062004018 chain length determination region; other site 511062004019 substrate-Mg2+ binding site; other site 511062004020 catalytic residues [active] 511062004021 aspartate-rich region 1; other site 511062004022 active site lid residues [active] 511062004023 aspartate-rich region 2; other site 511062004024 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 511062004025 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 511062004026 flagellar motor protein PomA; Reviewed; Region: PRK08990 511062004027 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 511062004028 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 511062004029 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 511062004030 ligand binding site [chemical binding]; other site 511062004031 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 511062004032 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 511062004033 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 511062004034 Ligand Binding Site [chemical binding]; other site 511062004035 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 511062004036 active site residue [active] 511062004037 Transposase; Region: HTH_Tnp_1; pfam01527 511062004038 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 511062004039 Protein of unknown function (DUF674); Region: DUF674; pfam05056 511062004040 Integrase core domain; Region: rve; pfam00665 511062004041 Integrase core domain; Region: rve_3; pfam13683 511062004042 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 511062004043 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 511062004044 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 511062004045 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 511062004046 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 511062004047 muropeptide transporter; Reviewed; Region: ampG; PRK11902 511062004048 muropeptide transporter; Validated; Region: ampG; cl17669 511062004049 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 511062004050 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 511062004051 substrate binding site [chemical binding]; other site 511062004052 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 511062004053 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 511062004054 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 511062004055 S-adenosylmethionine binding site [chemical binding]; other site 511062004056 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 511062004057 BolA-like protein; Region: BolA; cl00386 511062004058 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 511062004059 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 511062004060 E3 interaction surface; other site 511062004061 lipoyl attachment site [posttranslational modification]; other site 511062004062 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 511062004063 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 511062004064 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 511062004065 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 511062004066 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 511062004067 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 511062004068 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 511062004069 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 511062004070 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 511062004071 FAD binding pocket [chemical binding]; other site 511062004072 FAD binding motif [chemical binding]; other site 511062004073 phosphate binding motif [ion binding]; other site 511062004074 beta-alpha-beta structure motif; other site 511062004075 NAD binding pocket [chemical binding]; other site 511062004076 thiamine biosynthesis lipoprotein ApbE; Provisional; Region: PRK10461 511062004077 ApbE family; Region: ApbE; pfam02424 511062004078 Protein of unknown function (DUF539); Region: DUF539; cl01129 511062004079 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 511062004080 active site 511062004081 DNA polymerase IV; Validated; Region: PRK02406 511062004082 DNA binding site [nucleotide binding] 511062004083 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 511062004084 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 511062004085 metal binding site [ion binding]; metal-binding site 511062004086 dimer interface [polypeptide binding]; other site 511062004087 Cache domain; Region: Cache_2; pfam08269 511062004088 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 511062004089 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 511062004090 dimerization interface [polypeptide binding]; other site 511062004091 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062004092 dimer interface [polypeptide binding]; other site 511062004093 putative CheW interface [polypeptide binding]; other site 511062004094 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 511062004095 active site 511062004096 fermentation/respiration switch protein; Reviewed; Region: frsA; PRK05077 511062004097 Transcriptional regulator Crl; Region: Crl; cl11653 511062004098 gamma-glutamyl kinase; Provisional; Region: PRK05429 511062004099 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 511062004100 nucleotide binding site [chemical binding]; other site 511062004101 homotetrameric interface [polypeptide binding]; other site 511062004102 putative phosphate binding site [ion binding]; other site 511062004103 putative allosteric binding site; other site 511062004104 PUA domain; Region: PUA; pfam01472 511062004105 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 511062004106 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 511062004107 putative catalytic cysteine [active] 511062004108 TlpA-like family, suppressor for copper sensitivity D protein (ScsD) and actinobacterial DsbE homolog subfamily; composed of ScsD, the DsbE homolog of Mycobacterium tuberculosis (MtbDsbE) and similar proteins, all containing a redox-active CXXC motif; Region: TlpA_like_ScsD_MtbDsbE; cd03011 511062004109 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 511062004110 catalytic residues [active] 511062004111 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 511062004112 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 511062004113 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 511062004114 DsbD alpha interface [polypeptide binding]; other site 511062004115 catalytic residues [active] 511062004116 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 511062004117 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 511062004118 hypothetical protein; Validated; Region: PRK00124 511062004119 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 511062004120 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 511062004121 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 511062004122 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 511062004123 lipoyl synthase; Provisional; Region: PRK05481 511062004124 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 511062004125 FeS/SAM binding site; other site 511062004126 lipoate-protein ligase B; Provisional; Region: PRK14342 511062004127 hypothetical protein; Provisional; Region: PRK04998 511062004128 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 511062004129 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 511062004130 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 511062004131 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 511062004132 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 511062004133 Sporulation related domain; Region: SPOR; pfam05036 511062004134 Transglycosylase SLT domain; Region: SLT_2; pfam13406 511062004135 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 511062004136 N-acetyl-D-glucosamine binding site [chemical binding]; other site 511062004137 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 511062004138 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 511062004139 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 511062004140 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 511062004141 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 511062004142 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 511062004143 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 511062004144 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 511062004145 active site 511062004146 (T/H)XGH motif; other site 511062004147 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 511062004148 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 511062004149 Lipopolysaccharide-assembly; Region: LptE; cl01125 511062004150 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 511062004151 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 511062004152 HIGH motif; other site 511062004153 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 511062004154 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 511062004155 active site 511062004156 KMSKS motif; other site 511062004157 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 511062004158 tRNA binding surface [nucleotide binding]; other site 511062004159 chaperonin_like superfamily. 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. There are 2 main chaperonin groups. The symmetry of type I...; Region: chaperonin_like; cl02777 511062004160 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 511062004161 Outer membrane efflux protein; Region: OEP; pfam02321 511062004162 Outer membrane efflux protein; Region: OEP; pfam02321 511062004163 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 511062004164 HlyD family secretion protein; Region: HlyD_3; pfam13437 511062004165 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 511062004166 Cadherin tandem repeat domain; Region: Cadherin_repeat; cd11304 511062004167 Ca2+ binding site [ion binding]; other site 511062004168 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 511062004169 Autotransporter-associated beta strand repeat; Region: Autotrns_rpt; pfam12951 511062004170 VCBS repeat; Region: VCBS_repeat; TIGR01965 511062004171 VCBS repeat; Region: VCBS_repeat; TIGR01965 511062004172 VCBS repeat; Region: VCBS_repeat; TIGR01965 511062004173 VCBS repeat; Region: VCBS_repeat; TIGR01965 511062004174 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 511062004175 HlyD family secretion protein; Region: HlyD_3; pfam13437 511062004176 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 511062004177 HlyD family secretion protein; Region: HlyD_3; pfam13437 511062004178 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 511062004179 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 511062004180 putative active site [active] 511062004181 catalytic triad [active] 511062004182 putative dimer interface [polypeptide binding]; other site 511062004183 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 511062004184 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 511062004185 Transporter associated domain; Region: CorC_HlyC; smart01091 511062004186 metal-binding heat shock protein; Provisional; Region: PRK00016 511062004187 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 511062004188 PhoH-like protein; Region: PhoH; pfam02562 511062004189 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 511062004190 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 511062004191 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 511062004192 FeS/SAM binding site; other site 511062004193 TRAM domain; Region: TRAM; pfam01938 511062004194 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 511062004195 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 511062004196 GTP-binding protein YchF; Reviewed; Region: PRK09601 511062004197 YchF GTPase; Region: YchF; cd01900 511062004198 G1 box; other site 511062004199 GTP/Mg2+ binding site [chemical binding]; other site 511062004200 Switch I region; other site 511062004201 G2 box; other site 511062004202 Switch II region; other site 511062004203 G3 box; other site 511062004204 G4 box; other site 511062004205 G5 box; other site 511062004206 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 511062004207 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 511062004208 putative active site [active] 511062004209 catalytic residue [active] 511062004210 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 511062004211 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 511062004212 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 511062004213 active site 511062004214 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 511062004215 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 511062004216 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 511062004217 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 511062004218 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 511062004219 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 511062004220 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 511062004221 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 511062004222 tRNA; other site 511062004223 putative tRNA binding site [nucleotide binding]; other site 511062004224 putative NADP binding site [chemical binding]; other site 511062004225 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 511062004226 peptide chain release factor 1; Validated; Region: prfA; PRK00591 511062004227 This domain is found in peptide chain release factors; Region: PCRF; smart00937 511062004228 RF-1 domain; Region: RF-1; pfam00472 511062004229 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 511062004230 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 511062004231 S-adenosylmethionine binding site [chemical binding]; other site 511062004232 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 511062004233 Tetratricopeptide repeat; Region: TPR_9; pfam13371 511062004234 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 511062004235 binding surface 511062004236 TPR motif; other site 511062004237 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 511062004238 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK12457 511062004239 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 511062004240 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 511062004241 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 511062004242 dimer interface [polypeptide binding]; other site 511062004243 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 511062004244 active site residues [active] 511062004245 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 511062004246 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 511062004247 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 511062004248 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 511062004249 Coenzyme A binding pocket [chemical binding]; other site 511062004250 Uncharacterized protein containing a von Willebrand factor type A (vWA) domain [General function prediction only]; Region: COG2425 511062004251 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 511062004252 metal ion-dependent adhesion site (MIDAS); other site 511062004253 MoxR-like ATPases [General function prediction only]; Region: COG0714 511062004254 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 511062004255 Walker A motif; other site 511062004256 ATP binding site [chemical binding]; other site 511062004257 Walker B motif; other site 511062004258 arginine finger; other site 511062004259 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 511062004260 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 511062004261 N-terminal plug; other site 511062004262 ligand-binding site [chemical binding]; other site 511062004263 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 511062004264 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 511062004265 ABC-ATPase subunit interface; other site 511062004266 dimer interface [polypeptide binding]; other site 511062004267 putative PBP binding regions; other site 511062004268 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 511062004269 ABC-ATPase subunit interface; other site 511062004270 dimer interface [polypeptide binding]; other site 511062004271 putative PBP binding regions; other site 511062004272 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 511062004273 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 511062004274 siderophore binding site; other site 511062004275 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 511062004276 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 511062004277 Walker A/P-loop; other site 511062004278 ATP binding site [chemical binding]; other site 511062004279 Q-loop/lid; other site 511062004280 ABC transporter signature motif; other site 511062004281 Walker B; other site 511062004282 D-loop; other site 511062004283 H-loop/switch region; other site 511062004284 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 511062004285 dimer interface [polypeptide binding]; other site 511062004286 active site 511062004287 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 511062004288 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 511062004289 putative active site [active] 511062004290 putative dimer interface [polypeptide binding]; other site 511062004291 AAA domain; Region: AAA_32; pfam13654 511062004292 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 511062004293 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 511062004294 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 511062004295 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 511062004296 active site 511062004297 substrate binding site [chemical binding]; other site 511062004298 cosubstrate binding site; other site 511062004299 catalytic site [active] 511062004300 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 511062004301 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 511062004302 dimerization interface [polypeptide binding]; other site 511062004303 putative ATP binding site [chemical binding]; other site 511062004304 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 511062004305 active site 511062004306 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 511062004307 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 511062004308 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 511062004309 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 511062004310 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 511062004311 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 511062004312 ArsC family; Region: ArsC; pfam03960 511062004313 catalytic residues [active] 511062004314 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 511062004315 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 511062004316 catalytic residues [active] 511062004317 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 511062004318 Peptidase family M48; Region: Peptidase_M48; cl12018 511062004319 SirA-like protein; Region: SirA; pfam01206 511062004320 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 511062004321 Domain of unknown function DUF20; Region: UPF0118; pfam01594 511062004322 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 511062004323 Na2 binding site [ion binding]; other site 511062004324 putative substrate binding site 1 [chemical binding]; other site 511062004325 Na binding site 1 [ion binding]; other site 511062004326 putative substrate binding site 2 [chemical binding]; other site 511062004327 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 511062004328 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 511062004329 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 511062004330 NlpC/P60 family; Region: NLPC_P60; pfam00877 511062004331 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 511062004332 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 511062004333 Sulfatase; Region: Sulfatase; cl17466 511062004334 hypothetical protein; Provisional; Region: PRK13689 511062004335 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 511062004336 Nucleoid-associated protein [General function prediction only]; Region: COG3081 511062004337 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 511062004338 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 511062004339 catalytic residue [active] 511062004340 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 511062004341 catalytic residues [active] 511062004342 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 511062004343 peroxiredoxin; Region: AhpC; TIGR03137 511062004344 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 511062004345 dimer interface [polypeptide binding]; other site 511062004346 decamer (pentamer of dimers) interface [polypeptide binding]; other site 511062004347 catalytic triad [active] 511062004348 peroxidatic and resolving cysteines [active] 511062004349 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 511062004350 tetramer interface [polypeptide binding]; other site 511062004351 active site 511062004352 Mg2+/Mn2+ binding site [ion binding]; other site 511062004353 isocitrate lyase; Region: PLN02892 511062004354 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 511062004355 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 511062004356 tetramer interface [polypeptide binding]; other site 511062004357 TPP-binding site [chemical binding]; other site 511062004358 heterodimer interface [polypeptide binding]; other site 511062004359 phosphorylation loop region [posttranslational modification] 511062004360 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 511062004361 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 511062004362 alpha subunit interface [polypeptide binding]; other site 511062004363 TPP binding site [chemical binding]; other site 511062004364 heterodimer interface [polypeptide binding]; other site 511062004365 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 511062004366 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 511062004367 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 511062004368 E3 interaction surface; other site 511062004369 lipoyl attachment site [posttranslational modification]; other site 511062004370 e3 binding domain; Region: E3_binding; pfam02817 511062004371 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 511062004372 Catalytic domain of Protein Kinases; Region: PKc; cd00180 511062004373 active site 511062004374 ATP binding site [chemical binding]; other site 511062004375 substrate binding site [chemical binding]; other site 511062004376 activation loop (A-loop); other site 511062004377 Protein of unknown function, DUF479; Region: DUF479; cl01203 511062004378 FOG: CBS domain [General function prediction only]; Region: COG0517 511062004379 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 511062004380 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 511062004381 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 511062004382 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 511062004383 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 511062004384 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 511062004385 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 511062004386 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 511062004387 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 511062004388 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 511062004389 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 511062004390 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 511062004391 Protein export membrane protein; Region: SecD_SecF; pfam02355 511062004392 TPR repeat; Region: TPR_11; pfam13414 511062004393 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 511062004394 binding surface 511062004395 TPR motif; other site 511062004396 TPR repeat; Region: TPR_11; pfam13414 511062004397 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 511062004398 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 511062004399 Transcriptional regulator; Region: Rrf2; cl17282 511062004400 Rrf2 family protein; Region: rrf2_super; TIGR00738 511062004401 cysteine desulfurase; Provisional; Region: PRK14012 511062004402 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 511062004403 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 511062004404 catalytic residue [active] 511062004405 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 511062004406 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 511062004407 trimerization site [polypeptide binding]; other site 511062004408 active site 511062004409 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 511062004410 co-chaperone HscB; Provisional; Region: hscB; PRK05014 511062004411 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 511062004412 HSP70 interaction site [polypeptide binding]; other site 511062004413 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 511062004414 chaperone protein HscA; Provisional; Region: hscA; PRK05183 511062004415 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 511062004416 nucleotide binding site [chemical binding]; other site 511062004417 putative NEF/HSP70 interaction site [polypeptide binding]; other site 511062004418 SBD interface [polypeptide binding]; other site 511062004419 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 511062004420 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 511062004421 catalytic loop [active] 511062004422 iron binding site [ion binding]; other site 511062004423 FeS assembly protein IscX; Region: iscX_yfhJ; TIGR03412 511062004424 aminopeptidase B; Provisional; Region: PRK05015 511062004425 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 511062004426 interface (dimer of trimers) [polypeptide binding]; other site 511062004427 Substrate-binding/catalytic site; other site 511062004428 Zn-binding sites [ion binding]; other site 511062004429 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 511062004430 active site 511062004431 multimer interface [polypeptide binding]; other site 511062004432 xanthine permease; Region: pbuX; TIGR03173 511062004433 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 511062004434 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 511062004435 FeS/SAM binding site; other site 511062004436 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 511062004437 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 511062004438 binding surface 511062004439 TPR motif; other site 511062004440 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 511062004441 binding surface 511062004442 TPR motif; other site 511062004443 cytoskeletal protein RodZ; Provisional; Region: PRK10856 511062004444 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 511062004445 non-specific DNA binding site [nucleotide binding]; other site 511062004446 salt bridge; other site 511062004447 sequence-specific DNA binding site [nucleotide binding]; other site 511062004448 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 511062004449 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 511062004450 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 511062004451 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 511062004452 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 511062004453 dimer interface [polypeptide binding]; other site 511062004454 motif 1; other site 511062004455 active site 511062004456 motif 2; other site 511062004457 motif 3; other site 511062004458 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 511062004459 anticodon binding site; other site 511062004460 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 511062004461 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 511062004462 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 511062004463 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 511062004464 Trp docking motif [polypeptide binding]; other site 511062004465 active site 511062004466 GTP-binding protein Der; Reviewed; Region: PRK00093 511062004467 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 511062004468 G1 box; other site 511062004469 GTP/Mg2+ binding site [chemical binding]; other site 511062004470 Switch I region; other site 511062004471 G2 box; other site 511062004472 Switch II region; other site 511062004473 G3 box; other site 511062004474 G4 box; other site 511062004475 G5 box; other site 511062004476 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 511062004477 G1 box; other site 511062004478 GTP/Mg2+ binding site [chemical binding]; other site 511062004479 Switch I region; other site 511062004480 G2 box; other site 511062004481 G3 box; other site 511062004482 Switch II region; other site 511062004483 G4 box; other site 511062004484 G5 box; other site 511062004485 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 511062004486 Ligand Binding Site [chemical binding]; other site 511062004487 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 511062004488 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 511062004489 substrate binding pocket [chemical binding]; other site 511062004490 membrane-bound complex binding site; other site 511062004491 hinge residues; other site 511062004492 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 511062004493 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 511062004494 N-acetyl-D-glucosamine binding site [chemical binding]; other site 511062004495 catalytic residue [active] 511062004496 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 511062004497 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 511062004498 dimerization interface [polypeptide binding]; other site 511062004499 ATP binding site [chemical binding]; other site 511062004500 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 511062004501 dimerization interface [polypeptide binding]; other site 511062004502 ATP binding site [chemical binding]; other site 511062004503 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 511062004504 putative active site [active] 511062004505 catalytic triad [active] 511062004506 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 511062004507 PAS domain; Region: PAS_9; pfam13426 511062004508 putative active site [active] 511062004509 heme pocket [chemical binding]; other site 511062004510 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062004511 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062004512 metal binding site [ion binding]; metal-binding site 511062004513 active site 511062004514 I-site; other site 511062004515 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 511062004516 Protein of unknown function (DUF1439); Region: DUF1439; cl06345 511062004517 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 511062004518 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 511062004519 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 511062004520 putative active site [active] 511062004521 catalytic site [active] 511062004522 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 511062004523 putative active site [active] 511062004524 catalytic site [active] 511062004525 aminotransferase AlaT; Validated; Region: PRK09265 511062004526 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 511062004527 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062004528 homodimer interface [polypeptide binding]; other site 511062004529 catalytic residue [active] 511062004530 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 511062004531 GSH binding site [chemical binding]; other site 511062004532 catalytic residues [active] 511062004533 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 511062004534 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 511062004535 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 511062004536 ATP binding site [chemical binding]; other site 511062004537 putative Mg++ binding site [ion binding]; other site 511062004538 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 511062004539 nucleotide binding region [chemical binding]; other site 511062004540 ATP-binding site [chemical binding]; other site 511062004541 Double zinc ribbon; Region: DZR; pfam12773 511062004542 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 511062004543 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 511062004544 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 511062004545 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 511062004546 PAS fold; Region: PAS_4; pfam08448 511062004547 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062004548 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062004549 metal binding site [ion binding]; metal-binding site 511062004550 active site 511062004551 I-site; other site 511062004552 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 511062004553 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062004554 active site 511062004555 phosphorylation site [posttranslational modification] 511062004556 intermolecular recognition site; other site 511062004557 dimerization interface [polypeptide binding]; other site 511062004558 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 511062004559 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 511062004560 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 511062004561 Sulfate transporter family; Region: Sulfate_transp; pfam00916 511062004562 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 511062004563 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 511062004564 23S rRNA pseudouridine synthase F; Provisional; Region: PRK10475 511062004565 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 511062004566 RNA binding surface [nucleotide binding]; other site 511062004567 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 511062004568 probable active site [active] 511062004569 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 511062004570 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 511062004571 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 511062004572 active site 511062004573 HIGH motif; other site 511062004574 dimer interface [polypeptide binding]; other site 511062004575 KMSKS motif; other site 511062004576 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 511062004577 RNA binding surface [nucleotide binding]; other site 511062004578 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 511062004579 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 511062004580 DNA binding residues [nucleotide binding] 511062004581 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 511062004582 FAD binding domain; Region: FAD_binding_4; pfam01565 511062004583 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 511062004584 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 511062004585 CoenzymeA binding site [chemical binding]; other site 511062004586 subunit interaction site [polypeptide binding]; other site 511062004587 PHB binding site; other site 511062004588 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 511062004589 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 511062004590 ATP binding site [chemical binding]; other site 511062004591 Mg++ binding site [ion binding]; other site 511062004592 motif III; other site 511062004593 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 511062004594 nucleotide binding region [chemical binding]; other site 511062004595 ATP-binding site [chemical binding]; other site 511062004596 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 511062004597 putative RNA binding site [nucleotide binding]; other site 511062004598 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 511062004599 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 511062004600 Prephenate dehydratase; Region: PDT; pfam00800 511062004601 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 511062004602 putative L-Phe binding site [chemical binding]; other site 511062004603 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 511062004604 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 511062004605 30S subunit binding site; other site 511062004606 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 511062004607 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 511062004608 N-acetyl-D-glucosamine binding site [chemical binding]; other site 511062004609 catalytic residue [active] 511062004610 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 511062004611 NADH(P)-binding; Region: NAD_binding_10; pfam13460 511062004612 NAD(P) binding site [chemical binding]; other site 511062004613 active site 511062004614 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 511062004615 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 511062004616 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 511062004617 N-acetyl-D-glucosamine binding site [chemical binding]; other site 511062004618 catalytic residue [active] 511062004619 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 511062004620 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 511062004621 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 511062004622 Methyltransferase domain; Region: Methyltransf_11; pfam08241 511062004623 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 511062004624 RNA/DNA hybrid binding site [nucleotide binding]; other site 511062004625 active site 511062004626 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 511062004627 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 511062004628 active site 511062004629 catalytic site [active] 511062004630 substrate binding site [chemical binding]; other site 511062004631 TIGR03503 family protein; Region: TIGR03503 511062004632 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 511062004633 Lyase class I_like superfamily: contains the lyase class I family, histidine ammonia-lyase and phenylalanine ammonia-lyase, which catalyze similar beta-elimination reactions; Region: Lyase_I_like; cl00013 511062004634 tetramer interface [polypeptide binding]; other site 511062004635 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 511062004636 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 511062004637 NAD(P) binding site [chemical binding]; other site 511062004638 catalytic residues [active] 511062004639 Transcriptional regulator [Transcription]; Region: IclR; COG1414 511062004640 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 511062004641 Bacterial transcriptional regulator; Region: IclR; pfam01614 511062004642 Escherichia coli lactaldehyde dehydrogenase AldA-like; Region: ALDH_LactADH-AldA; cd07088 511062004643 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 511062004644 NAD binding site [chemical binding]; other site 511062004645 catalytic residues [active] 511062004646 substrate binding site [chemical binding]; other site 511062004647 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 511062004648 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 511062004649 active site pocket [active] 511062004650 choline dehydrogenase; Validated; Region: PRK02106 511062004651 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 511062004652 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 511062004653 BCCT family transporter; Region: BCCT; pfam02028 511062004654 BCCT family transporter; Region: BCCT; pfam02028 511062004655 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 511062004656 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 511062004657 active site 511062004658 catalytic tetrad [active] 511062004659 putative choline sulfate-utilization transcription factor; Region: chol_sulf_TF; TIGR03418 511062004660 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062004661 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 511062004662 dimerization interface [polypeptide binding]; other site 511062004663 Uncharacterized conserved protein [Function unknown]; Region: COG0398 511062004664 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 511062004665 Zinc dependent phospholipase C/S1-P1 nuclease; Region: ZnPC_S1P1; cl16915 511062004666 mercuric reductase; Validated; Region: PRK06370 511062004667 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 511062004668 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 511062004669 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 511062004670 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 511062004671 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 511062004672 transferase 1, rSAM/selenodomain-associated; Region: glyco_like_cofC; TIGR04282 511062004673 GT_2_like_a represents a glycosyltransferase family-2 subfamily with unknown function; Region: GT_2_like_a; cd02522 511062004674 transferase 2, rSAM/selenodomain-associated; Region: glyco_like_mftF; TIGR04283 511062004675 Probable Catalytic site; other site 511062004676 radical SAM/Cys-rich domain protein; Region: rSAM_SeCys; TIGR04167 511062004677 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 511062004678 FeS/SAM binding site; other site 511062004679 Protein of unknown function (DUF3641); Region: DUF3641; pfam12345 511062004680 methylthioribose kinase; Reviewed; Region: mtnK; PRK09550 511062004681 Phosphotransferase enzyme family; Region: APH; pfam01636 511062004682 Domain of unknown function DUF21; Region: DUF21; pfam01595 511062004683 FOG: CBS domain [General function prediction only]; Region: COG0517 511062004684 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 511062004685 hypothetical protein; Provisional; Region: PRK05208 511062004686 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 511062004687 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 511062004688 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 511062004689 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 511062004690 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 511062004691 motif II; other site 511062004692 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 511062004693 BCCT family transporter; Region: BCCT; pfam02028 511062004694 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 511062004695 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 511062004696 ligand binding site [chemical binding]; other site 511062004697 flexible hinge region; other site 511062004698 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 511062004699 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 511062004700 metal binding triad; other site 511062004701 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 511062004702 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 511062004703 active site 511062004704 catalytic site [active] 511062004705 substrate binding site [chemical binding]; other site 511062004706 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 511062004707 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 511062004708 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062004709 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 511062004710 dimerization interface [polypeptide binding]; other site 511062004711 substrate binding pocket [chemical binding]; other site 511062004712 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 511062004713 Protein of unknown function (DUF423); Region: DUF423; pfam04241 511062004714 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 511062004715 FtsJ-like methyltransferase; Region: FtsJ; cl17430 511062004716 isocitrate dehydrogenase; Provisional; Region: PRK08997 511062004717 tartrate dehydrogenase; Region: TTC; TIGR02089 511062004718 flap endonuclease-like protein; Provisional; Region: PRK09482 511062004719 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 511062004720 active site 511062004721 metal binding site 1 [ion binding]; metal-binding site 511062004722 putative 5' ssDNA interaction site; other site 511062004723 metal binding site 3; metal-binding site 511062004724 metal binding site 2 [ion binding]; metal-binding site 511062004725 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 511062004726 putative DNA binding site [nucleotide binding]; other site 511062004727 putative metal binding site [ion binding]; other site 511062004728 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 511062004729 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 511062004730 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062004731 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062004732 metal binding site [ion binding]; metal-binding site 511062004733 active site 511062004734 I-site; other site 511062004735 Tetratricopeptide repeat; Region: TPR_12; pfam13424 511062004736 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 511062004737 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 511062004738 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 511062004739 Syd protein (SUKH-2); Region: Syd; pfam07348 511062004740 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 511062004741 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 511062004742 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 511062004743 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 511062004744 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 511062004745 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 511062004746 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 511062004747 probable active site [active] 511062004748 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 511062004749 glutaminase; Provisional; Region: PRK00971 511062004750 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 511062004751 S1 domain; Region: S1_2; pfam13509 511062004752 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 511062004753 S1 domain; Region: S1_2; pfam13509 511062004754 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 511062004755 transmembrane helices; other site 511062004756 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 511062004757 TrkA-C domain; Region: TrkA_C; pfam02080 511062004758 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 511062004759 Protein of unknown function (DUF3081); Region: DUF3081; pfam11280 511062004760 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 511062004761 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 511062004762 ATP binding site [chemical binding]; other site 511062004763 Mg++ binding site [ion binding]; other site 511062004764 motif III; other site 511062004765 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 511062004766 nucleotide binding region [chemical binding]; other site 511062004767 ATP-binding site [chemical binding]; other site 511062004768 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 511062004769 putative RNA binding site [nucleotide binding]; other site 511062004770 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_gpp; TIGR03536 511062004771 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 511062004772 putative trimer interface [polypeptide binding]; other site 511062004773 putative CoA binding site [chemical binding]; other site 511062004774 PII uridylyl-transferase; Provisional; Region: PRK05007 511062004775 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 511062004776 metal binding triad; other site 511062004777 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 511062004778 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 511062004779 Zn2+ binding site [ion binding]; other site 511062004780 Mg2+ binding site [ion binding]; other site 511062004781 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 511062004782 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 511062004783 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 511062004784 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 511062004785 DNA-binding site [nucleotide binding]; DNA binding site 511062004786 RNA-binding motif; other site 511062004787 ATP-dependent Clp protease adaptor protein ClpS; Reviewed; Region: clpS; PRK00033 511062004788 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 511062004789 Clp amino terminal domain; Region: Clp_N; pfam02861 511062004790 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 511062004791 Walker A motif; other site 511062004792 ATP binding site [chemical binding]; other site 511062004793 Walker B motif; other site 511062004794 arginine finger; other site 511062004795 Phytoreovirus S7 protein; Region: Phytoreo_S7; pfam07236 511062004796 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 511062004797 Walker A motif; other site 511062004798 ATP binding site [chemical binding]; other site 511062004799 Walker B motif; other site 511062004800 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 511062004801 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 511062004802 rRNA binding site [nucleotide binding]; other site 511062004803 predicted 30S ribosome binding site; other site 511062004804 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 511062004805 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 511062004806 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 511062004807 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 511062004808 putative transporter; Provisional; Region: PRK11660 511062004809 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 511062004810 Sulfate transporter family; Region: Sulfate_transp; pfam00916 511062004811 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 511062004812 thioredoxin reductase; Provisional; Region: PRK10262 511062004813 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 511062004814 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 511062004815 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 511062004816 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 511062004817 putative DNA binding site [nucleotide binding]; other site 511062004818 putative Zn2+ binding site [ion binding]; other site 511062004819 AsnC family; Region: AsnC_trans_reg; pfam01037 511062004820 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 511062004821 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 511062004822 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 511062004823 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 511062004824 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 511062004825 recombination factor protein RarA; Reviewed; Region: PRK13342 511062004826 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 511062004827 Walker A motif; other site 511062004828 ATP binding site [chemical binding]; other site 511062004829 Walker B motif; other site 511062004830 arginine finger; other site 511062004831 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 511062004832 seryl-tRNA synthetase; Provisional; Region: PRK05431 511062004833 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 511062004834 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 511062004835 dimer interface [polypeptide binding]; other site 511062004836 active site 511062004837 motif 1; other site 511062004838 motif 2; other site 511062004839 motif 3; other site 511062004840 Colicin V production protein; Region: Colicin_V; cl00567 511062004841 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 511062004842 amidophosphoribosyltransferase; Provisional; Region: PRK09246 511062004843 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 511062004844 active site 511062004845 tetramer interface [polypeptide binding]; other site 511062004846 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 511062004847 active site 511062004848 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 511062004849 PAS fold; Region: PAS_4; pfam08448 511062004850 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 511062004851 PAS domain; Region: PAS_9; pfam13426 511062004852 putative active site [active] 511062004853 heme pocket [chemical binding]; other site 511062004854 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062004855 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062004856 metal binding site [ion binding]; metal-binding site 511062004857 active site 511062004858 I-site; other site 511062004859 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 511062004860 Cache domain; Region: Cache_1; pfam02743 511062004861 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062004862 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062004863 metal binding site [ion binding]; metal-binding site 511062004864 active site 511062004865 I-site; other site 511062004866 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062004867 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062004868 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 511062004869 putative effector binding pocket; other site 511062004870 dimerization interface [polypeptide binding]; other site 511062004871 Predicted membrane protein [Function unknown]; Region: COG2259 511062004872 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 511062004873 putative active site [active] 511062004874 metal binding site [ion binding]; metal-binding site 511062004875 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 511062004876 Toxin YafO, type II toxin-antitoxin system; Region: YafO_toxin; cl08066 511062004877 EcoKI restriction-modification system protein HsdS; Provisional; Region: PRK09737 511062004878 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 511062004879 HsdM N-terminal domain; Region: HsdM_N; pfam12161 511062004880 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 511062004881 Methyltransferase domain; Region: Methyltransf_26; pfam13659 511062004882 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 511062004883 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 511062004884 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 511062004885 ATP binding site [chemical binding]; other site 511062004886 putative Mg++ binding site [ion binding]; other site 511062004887 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 511062004888 SmpB-tmRNA interface; other site 511062004889 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 511062004890 putative coenzyme Q binding site [chemical binding]; other site 511062004891 hypothetical protein; Validated; Region: PRK01777 511062004892 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 511062004893 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 511062004894 uridine phosphorylase; Provisional; Region: PRK11178 511062004895 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 511062004896 recombination and repair protein; Provisional; Region: PRK10869 511062004897 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 511062004898 Walker A/P-loop; other site 511062004899 ATP binding site [chemical binding]; other site 511062004900 Q-loop/lid; other site 511062004901 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 511062004902 ABC transporter signature motif; other site 511062004903 Walker B; other site 511062004904 D-loop; other site 511062004905 H-loop/switch region; other site 511062004906 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 511062004907 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 511062004908 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 511062004909 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 511062004910 dimer interface [polypeptide binding]; other site 511062004911 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 511062004912 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 511062004913 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 511062004914 nucleotide binding site [chemical binding]; other site 511062004915 chaperone protein DnaJ; Provisional; Region: PRK10767 511062004916 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 511062004917 HSP70 interaction site [polypeptide binding]; other site 511062004918 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 511062004919 substrate binding site [polypeptide binding]; other site 511062004920 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 511062004921 Zn binding sites [ion binding]; other site 511062004922 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 511062004923 dimer interface [polypeptide binding]; other site 511062004924 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 511062004925 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 511062004926 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 511062004927 PilZ domain; Region: PilZ; pfam07238 511062004928 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 511062004929 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 511062004930 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 511062004931 S-adenosylmethionine binding site [chemical binding]; other site 511062004932 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 511062004933 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 511062004934 Walker A motif; other site 511062004935 ATP binding site [chemical binding]; other site 511062004936 Walker B motif; other site 511062004937 arginine finger; other site 511062004938 Peptidase family M41; Region: Peptidase_M41; pfam01434 511062004939 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 511062004940 dihydropteroate synthase; Region: DHPS; TIGR01496 511062004941 substrate binding pocket [chemical binding]; other site 511062004942 dimer interface [polypeptide binding]; other site 511062004943 inhibitor binding site; inhibition site 511062004944 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 511062004945 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 511062004946 active site 511062004947 substrate binding site [chemical binding]; other site 511062004948 metal binding site [ion binding]; metal-binding site 511062004949 Preprotein translocase SecG subunit; Region: SecG; pfam03840 511062004950 ribosome maturation protein RimP; Reviewed; Region: PRK00092 511062004951 Sm and related proteins; Region: Sm_like; cl00259 511062004952 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 511062004953 putative oligomer interface [polypeptide binding]; other site 511062004954 putative RNA binding site [nucleotide binding]; other site 511062004955 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 511062004956 NusA N-terminal domain; Region: NusA_N; pfam08529 511062004957 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 511062004958 RNA binding site [nucleotide binding]; other site 511062004959 homodimer interface [polypeptide binding]; other site 511062004960 NusA-like KH domain; Region: KH_5; pfam13184 511062004961 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 511062004962 G-X-X-G motif; other site 511062004963 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 511062004964 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 511062004965 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 511062004966 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 511062004967 translation initiation factor IF-2; Region: IF-2; TIGR00487 511062004968 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 511062004969 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 511062004970 G1 box; other site 511062004971 putative GEF interaction site [polypeptide binding]; other site 511062004972 GTP/Mg2+ binding site [chemical binding]; other site 511062004973 Switch I region; other site 511062004974 G2 box; other site 511062004975 G3 box; other site 511062004976 Switch II region; other site 511062004977 G4 box; other site 511062004978 G5 box; other site 511062004979 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 511062004980 Translation-initiation factor 2; Region: IF-2; pfam11987 511062004981 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 511062004982 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 511062004983 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 511062004984 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 511062004985 RNA binding site [nucleotide binding]; other site 511062004986 active site 511062004987 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 511062004988 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 511062004989 16S/18S rRNA binding site [nucleotide binding]; other site 511062004990 S13e-L30e interaction site [polypeptide binding]; other site 511062004991 25S rRNA binding site [nucleotide binding]; other site 511062004992 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 511062004993 CRISPR/Cas system-associated RAMP superfamily protein Cas5; Region: Cas5_I; cl12040 511062004994 Domain of unknown function (DUF4194); Region: DUF4194; pfam13835 511062004995 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 511062004996 P-loop containing region of AAA domain; Region: AAA_29; pfam13555 511062004997 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 511062004998 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4924 511062004999 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 511062005000 Uncharacterized protein conserved in bacteria C-term(DUF2220); Region: DUF2220; pfam09983 511062005001 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 511062005002 Transposase; Region: DEDD_Tnp_IS110; pfam01548 511062005003 Homeodomain-like domain; Region: HTH_23; pfam13384 511062005004 Winged helix-turn helix; Region: HTH_29; pfam13551 511062005005 Homeodomain-like domain; Region: HTH_32; pfam13565 511062005006 DDE superfamily endonuclease; Region: DDE_3; pfam13358 511062005007 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 511062005008 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 511062005009 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 511062005010 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 511062005011 RNase E interface [polypeptide binding]; other site 511062005012 trimer interface [polypeptide binding]; other site 511062005013 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 511062005014 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 511062005015 RNase E interface [polypeptide binding]; other site 511062005016 trimer interface [polypeptide binding]; other site 511062005017 active site 511062005018 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 511062005019 putative nucleic acid binding region [nucleotide binding]; other site 511062005020 G-X-X-G motif; other site 511062005021 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 511062005022 RNA binding site [nucleotide binding]; other site 511062005023 domain interface; other site 511062005024 pyridoxamine 5'-phosphate oxidase; Provisional; Region: PRK05679 511062005025 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 511062005026 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 511062005027 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 511062005028 Coenzyme A binding pocket [chemical binding]; other site 511062005029 Uncharacterized conserved protein [Function unknown]; Region: COG2850 511062005030 A domain family that is part of the cupin metalloenzyme superfamily; Region: JmjC; smart00558 511062005031 Cupin domain; Region: Cupin_2; cl17218 511062005032 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 511062005033 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 511062005034 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 511062005035 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 511062005036 putative catalytic residues [active] 511062005037 putative nucleotide binding site [chemical binding]; other site 511062005038 putative aspartate binding site [chemical binding]; other site 511062005039 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 511062005040 dimer interface [polypeptide binding]; other site 511062005041 putative threonine allosteric regulatory site; other site 511062005042 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 511062005043 putative threonine allosteric regulatory site; other site 511062005044 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 511062005045 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 511062005046 homoserine kinase; Provisional; Region: PRK01212 511062005047 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 511062005048 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 511062005049 threonine synthase; Validated; Region: PRK09225 511062005050 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 511062005051 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 511062005052 catalytic residue [active] 511062005053 Predicted deacylase [General function prediction only]; Region: COG3608 511062005054 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 511062005055 putative active site [active] 511062005056 Zn binding site [ion binding]; other site 511062005057 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 511062005058 RimK-like ATP-grasp domain; Region: RimK; pfam08443 511062005059 aconitate hydratase; Validated; Region: PRK09277 511062005060 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 511062005061 substrate binding site [chemical binding]; other site 511062005062 ligand binding site [chemical binding]; other site 511062005063 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 511062005064 substrate binding site [chemical binding]; other site 511062005065 DNA-binding transcriptional regulator ModE; Provisional; Region: PRK10676 511062005066 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; COG2005 511062005067 molybdenum-pterin binding domain; Region: Mop; TIGR00638 511062005068 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 511062005069 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 511062005070 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 511062005071 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 511062005072 putative PBP binding loops; other site 511062005073 ABC-ATPase subunit interface; other site 511062005074 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062005075 molybdenum ABC transporter, ATP-binding protein; Region: modC_ABC; TIGR02142 511062005076 Walker A/P-loop; other site 511062005077 ATP binding site [chemical binding]; other site 511062005078 Q-loop/lid; other site 511062005079 ABC transporter signature motif; other site 511062005080 Walker B; other site 511062005081 D-loop; other site 511062005082 H-loop/switch region; other site 511062005083 TOBE domain; Region: TOBE; cl01440 511062005084 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 511062005085 tetramer (dimer of dimers) interface [polypeptide binding]; other site 511062005086 active site 511062005087 dimer interface [polypeptide binding]; other site 511062005088 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 511062005089 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 511062005090 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 511062005091 Cell division protein ZapA; Region: ZapA; cl01146 511062005092 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 511062005093 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 511062005094 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 511062005095 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 511062005096 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 511062005097 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 511062005098 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 511062005099 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 511062005100 lipoyl attachment site [posttranslational modification]; other site 511062005101 glycine dehydrogenase; Provisional; Region: PRK05367 511062005102 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 511062005103 tetramer interface [polypeptide binding]; other site 511062005104 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062005105 catalytic residue [active] 511062005106 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 511062005107 tetramer interface [polypeptide binding]; other site 511062005108 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062005109 catalytic residue [active] 511062005110 Protein required for attachment to host cells; Region: Host_attach; pfam10116 511062005111 YceI-like domain; Region: YceI; pfam04264 511062005112 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 511062005113 Protein of unknown function (DUF1469); Region: DUF1469; pfam07332 511062005114 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 511062005115 Walker A motif; other site 511062005116 ATP binding site [chemical binding]; other site 511062005117 primosomal protein DnaI; Provisional; Region: PRK02854 511062005118 Response regulator receiver domain; Region: Response_reg; pfam00072 511062005119 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062005120 active site 511062005121 phosphorylation site [posttranslational modification] 511062005122 intermolecular recognition site; other site 511062005123 dimerization interface [polypeptide binding]; other site 511062005124 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 511062005125 active site 511062005126 tetramer interface; other site 511062005127 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 511062005128 Helix-hairpin-helix motif; Region: HHH; pfam00633 511062005129 YciI-like protein; Reviewed; Region: PRK11370 511062005130 intracellular septation protein A; Reviewed; Region: PRK00259 511062005131 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 511062005132 EamA-like transporter family; Region: EamA; pfam00892 511062005133 transcriptional repressor RbsR; Provisional; Region: PRK10423 511062005134 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 511062005135 DNA binding site [nucleotide binding] 511062005136 domain linker motif; other site 511062005137 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 511062005138 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 511062005139 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 511062005140 substrate binding site [chemical binding]; other site 511062005141 dimer interface [polypeptide binding]; other site 511062005142 ATP binding site [chemical binding]; other site 511062005143 D-ribose transporter subunit RbsB; Provisional; Region: PRK10653 511062005144 Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs; Region: PBP1_ribose_binding; cd06323 511062005145 ligand binding site [chemical binding]; other site 511062005146 dimerization interface [polypeptide binding]; other site 511062005147 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 511062005148 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 511062005149 TM-ABC transporter signature motif; other site 511062005150 D-ribose transporter ATP binding protein; Provisional; Region: PRK10762 511062005151 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 511062005152 Walker A/P-loop; other site 511062005153 ATP binding site [chemical binding]; other site 511062005154 Q-loop/lid; other site 511062005155 ABC transporter signature motif; other site 511062005156 Walker B; other site 511062005157 D-loop; other site 511062005158 H-loop/switch region; other site 511062005159 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 511062005160 D-ribose pyranase; Provisional; Region: PRK11797 511062005161 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 511062005162 active site 511062005163 dinuclear metal binding site [ion binding]; other site 511062005164 dimerization interface [polypeptide binding]; other site 511062005165 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 511062005166 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 511062005167 Walker A/P-loop; other site 511062005168 ATP binding site [chemical binding]; other site 511062005169 Q-loop/lid; other site 511062005170 ABC transporter signature motif; other site 511062005171 Walker B; other site 511062005172 D-loop; other site 511062005173 H-loop/switch region; other site 511062005174 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 511062005175 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 511062005176 Walker A/P-loop; other site 511062005177 ATP binding site [chemical binding]; other site 511062005178 Q-loop/lid; other site 511062005179 ABC transporter signature motif; other site 511062005180 Walker B; other site 511062005181 D-loop; other site 511062005182 H-loop/switch region; other site 511062005183 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 511062005184 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 511062005185 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 511062005186 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 511062005187 dimer interface [polypeptide binding]; other site 511062005188 conserved gate region; other site 511062005189 putative PBP binding loops; other site 511062005190 ABC-ATPase subunit interface; other site 511062005191 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 511062005192 dimer interface [polypeptide binding]; other site 511062005193 conserved gate region; other site 511062005194 putative PBP binding loops; other site 511062005195 ABC-ATPase subunit interface; other site 511062005196 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 511062005197 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 511062005198 peptide binding site [polypeptide binding]; other site 511062005199 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 511062005200 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 511062005201 Walker A motif; other site 511062005202 ATP binding site [chemical binding]; other site 511062005203 Walker B motif; other site 511062005204 arginine finger; other site 511062005205 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 511062005206 phage shock protein A; Region: phageshock_pspA; TIGR02977 511062005207 phage shock protein B; Provisional; Region: pspB; PRK09458 511062005208 phage shock protein C; Region: phageshock_pspC; TIGR02978 511062005209 PspC domain; Region: PspC; pfam04024 511062005210 YcjX-like family, DUF463; Region: DUF463; pfam04317 511062005211 hypothetical protein; Provisional; Region: PRK05415 511062005212 Domain of unknown function (DUF697); Region: DUF697; cl12064 511062005213 Protein of unknown function (DUF533); Region: DUF533; pfam04391 511062005214 tellurium resistance terB-like protein, subgroup 3; Region: terB_like_YebE; cd07178 511062005215 putative metal binding site [ion binding]; other site 511062005216 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 511062005217 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 511062005218 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 511062005219 homodimer interface [polypeptide binding]; other site 511062005220 NADP binding site [chemical binding]; other site 511062005221 substrate binding site [chemical binding]; other site 511062005222 Ion transport protein; Region: Ion_trans; pfam00520 511062005223 Ion channel; Region: Ion_trans_2; pfam07885 511062005224 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 511062005225 Double zinc ribbon; Region: DZR; pfam12773 511062005226 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 511062005227 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 511062005228 active site 511062005229 HIGH motif; other site 511062005230 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 511062005231 KMSKS motif; other site 511062005232 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 511062005233 tRNA binding surface [nucleotide binding]; other site 511062005234 anticodon binding site; other site 511062005235 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 511062005236 substrate binding site [chemical binding]; other site 511062005237 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 511062005238 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 511062005239 putative active site [active] 511062005240 putative metal binding site [ion binding]; other site 511062005241 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 511062005242 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 511062005243 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062005244 active site 511062005245 phosphorylation site [posttranslational modification] 511062005246 intermolecular recognition site; other site 511062005247 dimerization interface [polypeptide binding]; other site 511062005248 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 511062005249 DNA binding site [nucleotide binding] 511062005250 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 511062005251 dimer interface [polypeptide binding]; other site 511062005252 phosphorylation site [posttranslational modification] 511062005253 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 511062005254 ATP binding site [chemical binding]; other site 511062005255 Mg2+ binding site [ion binding]; other site 511062005256 G-X-G motif; other site 511062005257 Cation transport protein; Region: TrkH; pfam02386 511062005258 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 511062005259 TrkA-N domain; Region: TrkA_N; pfam02254 511062005260 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 511062005261 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 511062005262 Creatine amidinohydrolase. E.C.3.5.3.3. Hydrolyzes creatine to sarcosine and urea; Region: Creatinase; cd01090 511062005263 active site 511062005264 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 511062005265 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 511062005266 Na binding site [ion binding]; other site 511062005267 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 511062005268 PAS domain; Region: PAS_9; pfam13426 511062005269 putative active site [active] 511062005270 heme pocket [chemical binding]; other site 511062005271 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 511062005272 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 511062005273 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062005274 dimer interface [polypeptide binding]; other site 511062005275 putative CheW interface [polypeptide binding]; other site 511062005276 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062005277 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062005278 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 511062005279 dimerization interface [polypeptide binding]; other site 511062005280 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 511062005281 DEAD-like helicases superfamily; Region: DEXDc; smart00487 511062005282 ATP binding site [chemical binding]; other site 511062005283 Mg++ binding site [ion binding]; other site 511062005284 motif III; other site 511062005285 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 511062005286 nucleotide binding region [chemical binding]; other site 511062005287 ATP-binding site [chemical binding]; other site 511062005288 hypothetical protein; Provisional; Region: PRK11019 511062005289 Isochorismatase family; Region: Isochorismatase; pfam00857 511062005290 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; cl00220 511062005291 catalytic triad [active] 511062005292 conserved cis-peptide bond; other site 511062005293 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 511062005294 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 511062005295 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 511062005296 DctM-like transporters; Region: DctM; pfam06808 511062005297 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 511062005298 Isochorismatase family; Region: Isochorismatase; pfam00857 511062005299 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; cl00220 511062005300 catalytic triad [active] 511062005301 conserved cis-peptide bond; other site 511062005302 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 511062005303 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 511062005304 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 511062005305 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 511062005306 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 511062005307 nucleobase-cation-symport-1 (NCS1) transporter Mhp1-like; solute-binding domain; Region: SLC-NCS1sbd_Mhp1-like; cd11483 511062005308 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 511062005309 Na binding site [ion binding]; other site 511062005310 substrate binding site [chemical binding]; other site 511062005311 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 511062005312 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 511062005313 dimer interface [polypeptide binding]; other site 511062005314 active site 511062005315 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 511062005316 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062005317 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 511062005318 dimerization interface [polypeptide binding]; other site 511062005319 substrate binding pocket [chemical binding]; other site 511062005320 choline dehydrogenase; Validated; Region: PRK02106 511062005321 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 511062005322 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 511062005323 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 511062005324 tetrameric interface [polypeptide binding]; other site 511062005325 NAD binding site [chemical binding]; other site 511062005326 catalytic residues [active] 511062005327 transcriptional regulator BetI; Validated; Region: PRK00767 511062005328 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 511062005329 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 511062005330 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 511062005331 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 511062005332 NAD binding site [chemical binding]; other site 511062005333 catalytic Zn binding site [ion binding]; other site 511062005334 structural Zn binding site [ion binding]; other site 511062005335 formate dehydrogenase subunit gamma; Validated; Region: PRK05988 511062005336 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily, NAD-dependent formate dehydrogenase (FDH) gamma subunit; composed of proteins similar to the gamma subunit of NAD-linked FDH of Ralstonia eutropha, a...; Region: TRX_Fd_NuoE_FDH_gamma; cd03081 511062005337 putative dimer interface [polypeptide binding]; other site 511062005338 [2Fe-2S] cluster binding site [ion binding]; other site 511062005339 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NAD-dependent formate dehydrogenase (FDH) beta subunit; composed of proteins similar to the beta subunit of NAD-linked FDH of Ralstonia eutropha, a soluble enzyme that catalyzes the irreversible oxidation of...; Region: TRX_Fd_FDH_beta; cd03063 511062005340 putative dimer interface [polypeptide binding]; other site 511062005341 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 511062005342 SLBB domain; Region: SLBB; pfam10531 511062005343 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 511062005344 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 511062005345 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 511062005346 catalytic loop [active] 511062005347 iron binding site [ion binding]; other site 511062005348 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 511062005349 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 511062005350 [4Fe-4S] binding site [ion binding]; other site 511062005351 molybdopterin cofactor binding site; other site 511062005352 This CD includes formate dehydrogenases (Fdh) H and N; nitrate reductases, Nap and Nas; and other related proteins. Formate dehydrogenase H is a component of the anaerobic formate hydrogen lyase complex and catalyzes the reversible oxidation of formate...; Region: MopB_CT_Fdh-Nap-like; cd00508 511062005353 molybdopterin cofactor binding site; other site 511062005354 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 511062005355 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 511062005356 substrate binding pocket [chemical binding]; other site 511062005357 membrane-bound complex binding site; other site 511062005358 hinge residues; other site 511062005359 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 511062005360 ATP binding site [chemical binding]; other site 511062005361 Mg2+ binding site [ion binding]; other site 511062005362 G-X-G motif; other site 511062005363 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 511062005364 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062005365 active site 511062005366 phosphorylation site [posttranslational modification] 511062005367 intermolecular recognition site; other site 511062005368 dimerization interface [polypeptide binding]; other site 511062005369 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 511062005370 Walker A motif; other site 511062005371 ATP binding site [chemical binding]; other site 511062005372 Walker B motif; other site 511062005373 arginine finger; other site 511062005374 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 511062005375 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 511062005376 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 511062005377 BCCT family transporter; Region: BCCT; cl00569 511062005378 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 511062005379 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 511062005380 FAD binding pocket [chemical binding]; other site 511062005381 FAD binding motif [chemical binding]; other site 511062005382 phosphate binding motif [ion binding]; other site 511062005383 beta-alpha-beta structure motif; other site 511062005384 NAD binding pocket [chemical binding]; other site 511062005385 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 511062005386 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 511062005387 catalytic loop [active] 511062005388 iron binding site [ion binding]; other site 511062005389 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 511062005390 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 511062005391 [2Fe-2S] cluster binding site [ion binding]; other site 511062005392 C-terminal catalytic domain of GbcA (glycine betaine catabolism A) from Pseudomonas aeruginosa PAO1 and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_GbcA-like; cd08884 511062005393 putative alpha subunit interface [polypeptide binding]; other site 511062005394 putative active site [active] 511062005395 putative substrate binding site [chemical binding]; other site 511062005396 Fe binding site [ion binding]; other site 511062005397 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 511062005398 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 511062005399 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 511062005400 DctM-like transporters; Region: DctM; pfam06808 511062005401 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 511062005402 BCCT family transporter; Region: BCCT; pfam02028 511062005403 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 511062005404 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 511062005405 conserved cys residue [active] 511062005406 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 511062005407 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 511062005408 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 511062005409 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 511062005410 active site 511062005411 dimer interface [polypeptide binding]; other site 511062005412 The V4R (vinyl 4 reductase) domain is a predicted small molecular binding domain, that may bind to hydrocarbons; Region: V4R; smart00989 511062005413 mycofactocin system FadH/OYE family oxidoreductase 2; Region: mycofact_OYE_2; TIGR03997 511062005414 Old yellow enzyme (OYE)-related FMN binding domain, group 3. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_3_FMN; cd04734 511062005415 putative active site [active] 511062005416 putative FMN binding site [chemical binding]; other site 511062005417 putative substrate binding site [chemical binding]; other site 511062005418 putative catalytic residue [active] 511062005419 Domain of unknown function (DUF3483); Region: DUF3483; pfam11982 511062005420 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 511062005421 Cysteine-rich domain; Region: CCG; pfam02754 511062005422 Cysteine-rich domain; Region: CCG; pfam02754 511062005423 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 511062005424 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 511062005425 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 511062005426 multidrug resistance protein MdtH; Provisional; Region: PRK11646 511062005427 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 511062005428 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 511062005429 Walker A/P-loop; other site 511062005430 ATP binding site [chemical binding]; other site 511062005431 Q-loop/lid; other site 511062005432 ABC transporter signature motif; other site 511062005433 Walker B; other site 511062005434 D-loop; other site 511062005435 H-loop/switch region; other site 511062005436 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 511062005437 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 511062005438 dimer interface [polypeptide binding]; other site 511062005439 putative PBP binding regions; other site 511062005440 ABC-ATPase subunit interface; other site 511062005441 ferrichrome/ferrioxamine B periplasmic transporter; Provisional; Region: PRK14048 511062005442 Periplasmic binding protein TroA_f. 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_f; cd01139 511062005443 putative ligand binding residues [chemical binding]; other site 511062005444 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 511062005445 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK06476 511062005446 Proteolipid membrane potential modulator; Region: Pmp3; pfam01679 511062005447 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 511062005448 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 511062005449 Fic family protein [Function unknown]; Region: COG3177 511062005450 Fic/DOC family; Region: Fic; pfam02661 511062005451 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 511062005452 Homeodomain-like domain; Region: HTH_23; pfam13384 511062005453 Winged helix-turn helix; Region: HTH_29; pfam13551 511062005454 Homeodomain-like domain; Region: HTH_32; pfam13565 511062005455 DDE superfamily endonuclease; Region: DDE_3; pfam13358 511062005456 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 511062005457 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 511062005458 ATP binding site [chemical binding]; other site 511062005459 Mg++ binding site [ion binding]; other site 511062005460 motif III; other site 511062005461 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 511062005462 nucleotide binding region [chemical binding]; other site 511062005463 ATP-binding site [chemical binding]; other site 511062005464 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 511062005465 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 511062005466 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 511062005467 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 511062005468 putative cyanate transporter; Provisional; Region: cynX; PRK09705 511062005469 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 511062005470 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062005471 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 511062005472 dimerization interface [polypeptide binding]; other site 511062005473 substrate binding pocket [chemical binding]; other site 511062005474 BCCT family transporter; Region: BCCT; pfam02028 511062005475 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 511062005476 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 511062005477 [2Fe-2S] cluster binding site [ion binding]; other site 511062005478 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 511062005479 alpha subunit interface [polypeptide binding]; other site 511062005480 active site 511062005481 substrate binding site [chemical binding]; other site 511062005482 Fe binding site [ion binding]; other site 511062005483 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 511062005484 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 511062005485 NAD(P) binding site [chemical binding]; other site 511062005486 catalytic residues [active] 511062005487 catalytic residues [active] 511062005488 Rubredoxin [Energy production and conversion]; Region: COG1773 511062005489 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 511062005490 iron binding site [ion binding]; other site 511062005491 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 511062005492 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 511062005493 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 511062005494 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 511062005495 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 511062005496 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 511062005497 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 511062005498 non-specific DNA binding site [nucleotide binding]; other site 511062005499 salt bridge; other site 511062005500 sequence-specific DNA binding site [nucleotide binding]; other site 511062005501 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 511062005502 Aspartase; Region: Aspartase; cd01357 511062005503 active sites [active] 511062005504 tetramer interface [polypeptide binding]; other site 511062005505 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 511062005506 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 511062005507 ectoine utilization protein EutC; Validated; Region: PRK08291 511062005508 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 511062005509 hypothetical protein; Provisional; Region: PRK06815 511062005510 tetramer interface [polypeptide binding]; other site 511062005511 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062005512 catalytic residue [active] 511062005513 hypothetical protein; Provisional; Region: PRK07482 511062005514 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 511062005515 inhibitor-cofactor binding pocket; inhibition site 511062005516 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062005517 catalytic residue [active] 511062005518 succinic semialdehyde dehydrogenase; Region: PLN02278 511062005519 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 511062005520 tetramerization interface [polypeptide binding]; other site 511062005521 NAD(P) binding site [chemical binding]; other site 511062005522 catalytic residues [active] 511062005523 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 511062005524 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 511062005525 putative DNA binding site [nucleotide binding]; other site 511062005526 putative Zn2+ binding site [ion binding]; other site 511062005527 AsnC family; Region: AsnC_trans_reg; pfam01037 511062005528 ectoine utilization protein EutE; Region: ectoine_eutE; TIGR02994 511062005529 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_2; cd06252 511062005530 putative active site [active] 511062005531 Zn binding site [ion binding]; other site 511062005532 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 511062005533 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 511062005534 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 511062005535 active site 511062005536 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 511062005537 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 511062005538 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 511062005539 DctM-like transporters; Region: DctM; pfam06808 511062005540 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 511062005541 ectoine utilization protein EutD; Region: ectoine_eutD; TIGR02993 511062005542 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 511062005543 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 511062005544 active site 511062005545 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 511062005546 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 511062005547 tetramer interface [polypeptide binding]; other site 511062005548 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062005549 catalytic residue [active] 511062005550 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 511062005551 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 511062005552 NAD(P) binding site [chemical binding]; other site 511062005553 catalytic residues [active] 511062005554 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 511062005555 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 511062005556 metal binding site [ion binding]; metal-binding site 511062005557 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 511062005558 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 511062005559 HAMP domain; Region: HAMP; pfam00672 511062005560 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 511062005561 dimer interface [polypeptide binding]; other site 511062005562 phosphorylation site [posttranslational modification] 511062005563 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 511062005564 ATP binding site [chemical binding]; other site 511062005565 Mg2+ binding site [ion binding]; other site 511062005566 G-X-G motif; other site 511062005567 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062005568 Response regulator receiver domain; Region: Response_reg; pfam00072 511062005569 active site 511062005570 phosphorylation site [posttranslational modification] 511062005571 intermolecular recognition site; other site 511062005572 dimerization interface [polypeptide binding]; other site 511062005573 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 511062005574 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 511062005575 substrate binding pocket [chemical binding]; other site 511062005576 membrane-bound complex binding site; other site 511062005577 hinge residues; other site 511062005578 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 511062005579 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062005580 active site 511062005581 phosphorylation site [posttranslational modification] 511062005582 intermolecular recognition site; other site 511062005583 dimerization interface [polypeptide binding]; other site 511062005584 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 511062005585 DNA binding site [nucleotide binding] 511062005586 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 511062005587 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 511062005588 conserved cys residue [active] 511062005589 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 511062005590 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 511062005591 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 511062005592 dimer interface [polypeptide binding]; other site 511062005593 active site 511062005594 glycine-pyridoxal phosphate binding site [chemical binding]; other site 511062005595 folate binding site [chemical binding]; other site 511062005596 sarcosine oxidase, beta subunit family, heterotetrameric form; Region: soxB; TIGR01373 511062005597 hydroxyglutarate oxidase; Provisional; Region: PRK11728 511062005598 Sarcosine oxidase, delta subunit family; Region: SoxD; pfam04267 511062005599 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 511062005600 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 511062005601 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 511062005602 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 511062005603 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]; Region: COG4583 511062005604 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 511062005605 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 511062005606 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 511062005607 putative active site [active] 511062005608 putative substrate binding site [chemical binding]; other site 511062005609 putative cosubstrate binding site; other site 511062005610 catalytic site [active] 511062005611 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 511062005612 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 511062005613 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 511062005614 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 511062005615 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 511062005616 putative aromatic amino acid binding site; other site 511062005617 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 511062005618 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 511062005619 Walker A motif; other site 511062005620 ATP binding site [chemical binding]; other site 511062005621 Walker B motif; other site 511062005622 arginine finger; other site 511062005623 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 511062005624 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 511062005625 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 511062005626 DNA-binding site [nucleotide binding]; DNA binding site 511062005627 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 511062005628 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062005629 homodimer interface [polypeptide binding]; other site 511062005630 catalytic residue [active] 511062005631 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 511062005632 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 511062005633 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 511062005634 This domain is found in the extracellular portion of receptor-like proteins - such as serine/threonine kinases and adenylyl cyclases; Region: CHASE; smart01079 511062005635 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 511062005636 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 511062005637 putative active site [active] 511062005638 heme pocket [chemical binding]; other site 511062005639 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 511062005640 putative active site [active] 511062005641 heme pocket [chemical binding]; other site 511062005642 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062005643 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062005644 metal binding site [ion binding]; metal-binding site 511062005645 active site 511062005646 I-site; other site 511062005647 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 511062005648 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 511062005649 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 511062005650 active site 511062005651 catalytic tetrad [active] 511062005652 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 511062005653 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 511062005654 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 511062005655 Peptidase_C39 like family; Region: DUF3335; pfam11814 511062005656 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 511062005657 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 511062005658 ATP-grasp domain; Region: ATP-grasp_4; cl17255 511062005659 methionine sulfoxide reductase B; Provisional; Region: PRK00222 511062005660 SelR domain; Region: SelR; pfam01641 511062005661 methionine sulfoxide reductase A; Provisional; Region: PRK14054 511062005662 hypothetical protein; Provisional; Region: PRK10621 511062005663 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 511062005664 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 511062005665 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 511062005666 dimer interface [polypeptide binding]; other site 511062005667 putative PBP binding regions; other site 511062005668 ABC-ATPase subunit interface; other site 511062005669 vitamin B12-transporter ATPase; Provisional; Region: PRK03695 511062005670 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062005671 ABC transporter signature motif; other site 511062005672 Walker B; other site 511062005673 D-loop; other site 511062005674 H-loop/switch region; other site 511062005675 Integrase core domain; Region: rve; pfam00665 511062005676 Integrase core domain; Region: rve_3; pfam13683 511062005677 Transposase; Region: HTH_Tnp_1; pfam01527 511062005678 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 511062005679 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 511062005680 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 511062005681 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 511062005682 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 511062005683 active site 511062005684 metal binding site [ion binding]; metal-binding site 511062005685 Uncharacterized conserved protein [Function unknown]; Region: COG1359 511062005686 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 511062005687 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 511062005688 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cd00347 511062005689 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 511062005690 putative deacylase active site [active] 511062005691 tetrathionate reductase subunit A; Provisional; Region: PRK14991 511062005692 The MopB_Tetrathionate-Ra CD contains tetrathionate reductase, subunit A, (TtrA) and other related proteins. The Salmonella enterica tetrathionate reductase catalyses the reduction of trithionate but not sulfur or thiosulfate. Members of this CD belong...; Region: MopB_Tetrathionate-Ra; cd02758 511062005693 putative [Fe4-S4] binding site [ion binding]; other site 511062005694 putative molybdopterin cofactor binding site [chemical binding]; other site 511062005695 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 511062005696 putative molybdopterin cofactor binding site; other site 511062005697 tetrathionate reductase subunit C; Provisional; Region: PRK14992 511062005698 tetrathionate reductase subunit B; Provisional; Region: PRK14993 511062005699 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 511062005700 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 511062005701 dimer interface [polypeptide binding]; other site 511062005702 phosphorylation site [posttranslational modification] 511062005703 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 511062005704 ATP binding site [chemical binding]; other site 511062005705 Mg2+ binding site [ion binding]; other site 511062005706 G-X-G motif; other site 511062005707 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 511062005708 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062005709 active site 511062005710 phosphorylation site [posttranslational modification] 511062005711 intermolecular recognition site; other site 511062005712 dimerization interface [polypeptide binding]; other site 511062005713 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 511062005714 DNA binding residues [nucleotide binding] 511062005715 dimerization interface [polypeptide binding]; other site 511062005716 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 511062005717 hypothetical protein; Validated; Region: PRK00228 511062005718 glutathione synthetase; Provisional; Region: PRK05246 511062005719 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 511062005720 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 511062005721 RNA methyltransferase, RsmE family; Region: TIGR00046 511062005722 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 511062005723 DNA-specific endonuclease I; Provisional; Region: PRK15137 511062005724 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 511062005725 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 511062005726 catalytic triad [active] 511062005727 dimer interface [polypeptide binding]; other site 511062005728 SprT homologues; Region: SprT; cl01182 511062005729 hypothetical protein; Provisional; Region: PRK04860 511062005730 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 511062005731 Transposase; Region: DEDD_Tnp_IS110; pfam01548 511062005732 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 511062005733 S-adenosylmethionine synthetase; Validated; Region: PRK05250 511062005734 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 511062005735 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 511062005736 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 511062005737 transketolase; Reviewed; Region: PRK12753 511062005738 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 511062005739 TPP-binding site [chemical binding]; other site 511062005740 dimer interface [polypeptide binding]; other site 511062005741 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 511062005742 PYR/PP interface [polypeptide binding]; other site 511062005743 dimer interface [polypeptide binding]; other site 511062005744 TPP binding site [chemical binding]; other site 511062005745 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 511062005746 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 511062005747 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 511062005748 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 511062005749 DctM-like transporters; Region: DctM; pfam06808 511062005750 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 511062005751 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 511062005752 Transcriptional regulators [Transcription]; Region: GntR; COG1802 511062005753 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 511062005754 DNA-binding site [nucleotide binding]; DNA binding site 511062005755 FCD domain; Region: FCD; pfam07729 511062005756 dihydropyrimidinase; Provisional; Region: PRK13404 511062005757 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 511062005758 tetramer interface [polypeptide binding]; other site 511062005759 active site 511062005760 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 511062005761 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 511062005762 DctM-like transporters; Region: DctM; pfam06808 511062005763 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 511062005764 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 511062005765 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 511062005766 PAS domain; Region: PAS_9; pfam13426 511062005767 putative active site [active] 511062005768 heme pocket [chemical binding]; other site 511062005769 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062005770 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062005771 metal binding site [ion binding]; metal-binding site 511062005772 active site 511062005773 I-site; other site 511062005774 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 511062005775 Predicted transporter component [General function prediction only]; Region: COG2391 511062005776 Sulphur transport; Region: Sulf_transp; pfam04143 511062005777 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 511062005778 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 511062005779 catalytic triad [active] 511062005780 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 511062005781 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 511062005782 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 511062005783 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 511062005784 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 511062005785 DNA polymerase II; Reviewed; Region: PRK05762 511062005786 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 511062005787 active site 511062005788 catalytic site [active] 511062005789 substrate binding site [chemical binding]; other site 511062005790 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 511062005791 active site 511062005792 metal-binding site 511062005793 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 511062005794 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 511062005795 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 511062005796 metal binding site [ion binding]; metal-binding site 511062005797 dimer interface [polypeptide binding]; other site 511062005798 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 511062005799 ArsC family; Region: ArsC; pfam03960 511062005800 putative catalytic residues [active] 511062005801 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062005802 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062005803 metal binding site [ion binding]; metal-binding site 511062005804 active site 511062005805 I-site; other site 511062005806 malate dehydrogenase; Provisional; Region: PRK13529 511062005807 Malic enzyme, N-terminal domain; Region: malic; pfam00390 511062005808 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 511062005809 NAD(P) binding site [chemical binding]; other site 511062005810 oligopeptide ABC transporter substrate-binding protein OppA; Provisional; Region: PRK15104 511062005811 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 511062005812 peptide binding site [polypeptide binding]; other site 511062005813 oligopeptide transporter permease; Reviewed; Region: oppB; PRK09471 511062005814 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 511062005815 dimer interface [polypeptide binding]; other site 511062005816 conserved gate region; other site 511062005817 putative PBP binding loops; other site 511062005818 ABC-ATPase subunit interface; other site 511062005819 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 511062005820 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 511062005821 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 511062005822 dimer interface [polypeptide binding]; other site 511062005823 conserved gate region; other site 511062005824 ABC-ATPase subunit interface; other site 511062005825 oligopeptide transporter ATP-binding component; Provisional; Region: oppD; PRK09473 511062005826 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 511062005827 Walker A/P-loop; other site 511062005828 ATP binding site [chemical binding]; other site 511062005829 Q-loop/lid; other site 511062005830 ABC transporter signature motif; other site 511062005831 Walker B; other site 511062005832 D-loop; other site 511062005833 H-loop/switch region; other site 511062005834 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 511062005835 oligopeptide ABC transporter ATP-binding protein OppF; Provisional; Region: PRK15079 511062005836 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 511062005837 Walker A/P-loop; other site 511062005838 ATP binding site [chemical binding]; other site 511062005839 Q-loop/lid; other site 511062005840 ABC transporter signature motif; other site 511062005841 Walker B; other site 511062005842 D-loop; other site 511062005843 H-loop/switch region; other site 511062005844 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 511062005845 trigger factor; Provisional; Region: tig; PRK01490 511062005846 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 511062005847 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 511062005848 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 511062005849 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 511062005850 oligomer interface [polypeptide binding]; other site 511062005851 active site residues [active] 511062005852 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 511062005853 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 511062005854 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 511062005855 Walker A motif; other site 511062005856 ATP binding site [chemical binding]; other site 511062005857 Walker B motif; other site 511062005858 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 511062005859 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 511062005860 Found in ATP-dependent protease La (LON); Region: LON; smart00464 511062005861 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 511062005862 Walker A motif; other site 511062005863 ATP binding site [chemical binding]; other site 511062005864 Walker B motif; other site 511062005865 arginine finger; other site 511062005866 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 511062005867 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 511062005868 IHF dimer interface [polypeptide binding]; other site 511062005869 IHF - DNA interface [nucleotide binding]; other site 511062005870 periplasmic folding chaperone; Provisional; Region: PRK10788 511062005871 SurA N-terminal domain; Region: SurA_N_3; cl07813 511062005872 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 511062005873 response regulator; Provisional; Region: PRK09483 511062005874 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062005875 active site 511062005876 phosphorylation site [posttranslational modification] 511062005877 intermolecular recognition site; other site 511062005878 dimerization interface [polypeptide binding]; other site 511062005879 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 511062005880 DNA binding residues [nucleotide binding] 511062005881 dimerization interface [polypeptide binding]; other site 511062005882 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 511062005883 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 511062005884 GIY-YIG motif/motif A; other site 511062005885 active site 511062005886 catalytic site [active] 511062005887 putative DNA binding site [nucleotide binding]; other site 511062005888 metal binding site [ion binding]; metal-binding site 511062005889 UvrB/uvrC motif; Region: UVR; pfam02151 511062005890 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 511062005891 Helix-hairpin-helix motif; Region: HHH; pfam00633 511062005892 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 511062005893 Domain of unknown function (DUF4376); Region: DUF4376; pfam14301 511062005894 Phage tail-collar fibre protein; Region: DUF3751; pfam12571 511062005895 Phage tail protein (Tail_P2_I); Region: Tail_P2_I; cl01817 511062005896 Baseplate J-like protein; Region: Baseplate_J; cl01294 511062005897 Protein of unknown function (DUF2590); Region: DUF2590; pfam10761 511062005898 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 511062005899 Protein of unknown function (DUF2765); Region: DUF2765; pfam10963 511062005900 Peptidase M15; Region: Peptidase_M15_3; cl01194 511062005901 phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Region: C4_traR_proteo; TIGR02419 511062005902 Protein of unknown function (DUF2597); Region: DUF2597; pfam10772 511062005903 Protein of unknown function (DUF2586); Region: DUF2586; pfam10758 511062005904 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 511062005905 P2 phage tail completion protein R (GpR); Region: P2_Phage_GpR; pfam06891 511062005906 Phage head completion protein (GPL); Region: Phage_GPL; pfam05926 511062005907 Phage small terminase subunit; Region: Phage_term_smal; pfam05944 511062005908 capsid protein; Provisional; Region: N; PHA02538 511062005909 Phage capsid scaffolding protein (GPO) serine peptidase; Region: Phage_GPO; cl15838 511062005910 terminase ATPase subunit; Provisional; Region: P; PHA02535 511062005911 Putative ATPase subunit of terminase (gpP-like); Region: Terminase_5; pfam06056 511062005912 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 511062005913 Phage-related protein [Function unknown]; Region: COG4695; cl01923 511062005914 Phage portal protein; Region: Phage_portal; pfam04860 511062005915 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 511062005916 RES domain; Region: RES; smart00953 511062005917 Protein of unknown function (DUF2384); Region: DUF2384; cl17718 511062005918 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 511062005919 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 511062005920 Phage regulatory protein CII (CP76); Region: Phage_CP76; pfam06892 511062005921 Predicted transcriptional regulator [Transcription]; Region: COG2932 511062005922 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 511062005923 Catalytic site [active] 511062005924 integrase; Provisional; Region: int; PHA02601 511062005925 Phage HP1 integrase, C-terminal catalytic domain. Bacteriophage HP1 and related integrases are found in eubacteria, plasmids and temperate bacteriophages of the P2 family. They belong to the DNA breaking-rejoining enzyme superfamily, which includes...; Region: HP1_INT_C; cd00797 511062005926 dimer interface [polypeptide binding]; other site 511062005927 active site 511062005928 catalytic residues [active] 511062005929 Int/Topo IB signature motif; other site 511062005930 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3034 511062005931 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062005932 dimer interface [polypeptide binding]; other site 511062005933 putative CheW interface [polypeptide binding]; other site 511062005934 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 511062005935 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 511062005936 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 511062005937 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 511062005938 Walker A motif; other site 511062005939 ATP binding site [chemical binding]; other site 511062005940 Walker B motif; other site 511062005941 arginine finger; other site 511062005942 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 511062005943 DNA-binding interface [nucleotide binding]; DNA binding site 511062005944 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II and Staphylococcus aureus AldA1 (SACOL0154)-like; Region: ALDH_ACDHII_AcoD-like; cd07559 511062005945 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 511062005946 NAD(P) binding site [chemical binding]; other site 511062005947 catalytic residues [active] 511062005948 putative alcohol dehydrogenase; Provisional; Region: PRK09860 511062005949 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 511062005950 dimer interface [polypeptide binding]; other site 511062005951 active site 511062005952 metal binding site [ion binding]; metal-binding site 511062005953 Uncharacterized conserved protein [Function unknown]; Region: COG3461 511062005954 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 511062005955 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 511062005956 FOG: CBS domain [General function prediction only]; Region: COG0517 511062005957 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062005958 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062005959 metal binding site [ion binding]; metal-binding site 511062005960 active site 511062005961 I-site; other site 511062005962 Predicted permeases [General function prediction only]; Region: RarD; COG2962 511062005963 Multidrug resistance efflux transporter; Region: EmrE; pfam13536 511062005964 LysE type translocator; Region: LysE; cl00565 511062005965 Transglycosylase SLT domain; Region: SLT_2; pfam13406 511062005966 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 511062005967 N-acetyl-D-glucosamine binding site [chemical binding]; other site 511062005968 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 511062005969 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 511062005970 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 511062005971 Coenzyme A binding pocket [chemical binding]; other site 511062005972 formyltetrahydrofolate deformylase; Reviewed; Region: PRK13011 511062005973 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 511062005974 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 511062005975 putative active site [active] 511062005976 putative substrate binding site [chemical binding]; other site 511062005977 putative cosubstrate binding site; other site 511062005978 catalytic site [active] 511062005979 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 511062005980 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 511062005981 active site 511062005982 metal binding site [ion binding]; metal-binding site 511062005983 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 511062005984 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 511062005985 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062005986 metal binding site [ion binding]; metal-binding site 511062005987 active site 511062005988 I-site; other site 511062005989 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 511062005990 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A; Region: CS_ACL-C_CCL; cl00416 511062005991 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 511062005992 oxalacetate binding site [chemical binding]; other site 511062005993 citrylCoA binding site [chemical binding]; other site 511062005994 coenzyme A binding site [chemical binding]; other site 511062005995 catalytic triad [active] 511062005996 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 511062005997 2-methylcitrate dehydratase; Region: prpD; TIGR02330 511062005998 nucleobase-cation-symport-1 (NCS1) transporter Mhp1-like; solute-binding domain; Region: SLC-NCS1sbd_Mhp1-like; cd11483 511062005999 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 511062006000 Na binding site [ion binding]; other site 511062006001 substrate binding site [chemical binding]; other site 511062006002 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 511062006003 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 511062006004 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 511062006005 molybdopterin cofactor binding site [chemical binding]; other site 511062006006 substrate binding site [chemical binding]; other site 511062006007 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 511062006008 molybdopterin cofactor binding site; other site 511062006009 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 511062006010 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 511062006011 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 511062006012 UreD urease accessory protein; Region: UreD; pfam01774 511062006013 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 511062006014 alpha-gamma subunit interface [polypeptide binding]; other site 511062006015 beta-gamma subunit interface [polypeptide binding]; other site 511062006016 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 511062006017 gamma-beta subunit interface [polypeptide binding]; other site 511062006018 alpha-beta subunit interface [polypeptide binding]; other site 511062006019 urease subunit alpha; Reviewed; Region: ureC; PRK13207 511062006020 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 511062006021 subunit interactions [polypeptide binding]; other site 511062006022 active site 511062006023 flap region; other site 511062006024 urease accessory protein UreE; Provisional; Region: PRK14113 511062006025 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 511062006026 dimer interface [polypeptide binding]; other site 511062006027 catalytic residues [active] 511062006028 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 511062006029 UreF; Region: UreF; pfam01730 511062006030 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 511062006031 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 511062006032 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 511062006033 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 511062006034 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 511062006035 putative dimer interface [polypeptide binding]; other site 511062006036 putative anticodon binding site; other site 511062006037 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 511062006038 homodimer interface [polypeptide binding]; other site 511062006039 motif 1; other site 511062006040 motif 2; other site 511062006041 active site 511062006042 motif 3; other site 511062006043 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 511062006044 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 511062006045 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 511062006046 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 511062006047 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 511062006048 AAA ATPase domain; Region: AAA_16; pfam13191 511062006049 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 511062006050 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 511062006051 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 511062006052 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 511062006053 BON domain; Region: BON; pfam04972 511062006054 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 511062006055 Putative Flp pilus-assembly TadE/G-like; Region: Tad; pfam13400 511062006056 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 511062006057 TadE-like protein; Region: TadE; pfam07811 511062006058 AAA domain; Region: AAA_31; pfam13614 511062006059 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 511062006060 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 511062006061 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 511062006062 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 511062006063 ATP binding site [chemical binding]; other site 511062006064 Walker A motif; other site 511062006065 hexamer interface [polypeptide binding]; other site 511062006066 Walker B motif; other site 511062006067 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 511062006068 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 511062006069 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 511062006070 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 511062006071 Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]; Region: TadD; COG5010 511062006072 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 511062006073 binding surface 511062006074 TPR motif; other site 511062006075 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 511062006076 binding surface 511062006077 TPR motif; other site 511062006078 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 511062006079 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 511062006080 inhibitor-cofactor binding pocket; inhibition site 511062006081 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062006082 catalytic residue [active] 511062006083 biotin synthase; Provisional; Region: PRK15108 511062006084 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 511062006085 FeS/SAM binding site; other site 511062006086 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 511062006087 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 511062006088 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 511062006089 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 511062006090 catalytic residue [active] 511062006091 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 511062006092 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 511062006093 S-adenosylmethionine binding site [chemical binding]; other site 511062006094 AAA domain; Region: AAA_26; pfam13500 511062006095 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 511062006096 heat shock protein HtpX; Provisional; Region: PRK05457 511062006097 protein structure with unknown function; Region: DUF4144; pfam13642 511062006098 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 511062006099 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 511062006100 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 511062006101 cobalamin synthase; Reviewed; Region: cobS; PRK00235 511062006102 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 511062006103 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 511062006104 putative dimer interface [polypeptide binding]; other site 511062006105 active site pocket [active] 511062006106 putative cataytic base [active] 511062006107 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 511062006108 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 511062006109 Transglycosylase; Region: Transgly; cl17702 511062006110 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 511062006111 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 511062006112 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 511062006113 Walker A motif; other site 511062006114 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 511062006115 Surface antigen; Region: Bac_surface_Ag; pfam01103 511062006116 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 511062006117 Family of unknown function (DUF490); Region: DUF490; pfam04357 511062006118 Family of unknown function (DUF490); Region: DUF490; pfam04357 511062006119 O-Antigen ligase; Region: Wzy_C; pfam04932 511062006120 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 511062006121 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 511062006122 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 511062006123 active site 511062006124 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 511062006125 nucleotide binding site/active site [active] 511062006126 HIT family signature motif; other site 511062006127 catalytic residue [active] 511062006128 Protein of unknown function (DUF3897); Region: DUF3897; cl17494 511062006129 Choline Kinase (ChoK). The ChoK 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), RIO kinases, actin-fragmin kinase (AFK), and...; Region: ChoK; cd05151 511062006130 thiamine kinase; Region: ycfN_thiK; TIGR02721 511062006131 active site 511062006132 ATP binding site [chemical binding]; other site 511062006133 substrate binding site [chemical binding]; other site 511062006134 dimer interface [polypeptide binding]; other site 511062006135 beta-hexosaminidase; Provisional; Region: PRK05337 511062006136 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 511062006137 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 511062006138 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 511062006139 cobyric acid synthase; Provisional; Region: PRK00784 511062006140 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 511062006141 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 511062006142 catalytic triad [active] 511062006143 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 511062006144 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 511062006145 homodimer interface [polypeptide binding]; other site 511062006146 Walker A motif; other site 511062006147 ATP binding site [chemical binding]; other site 511062006148 hydroxycobalamin binding site [chemical binding]; other site 511062006149 Walker B motif; other site 511062006150 Predicted flavoprotein [General function prediction only]; Region: COG0431 511062006151 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 511062006152 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 511062006153 nucleotide binding site/active site [active] 511062006154 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062006155 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062006156 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 511062006157 dimerization interface [polypeptide binding]; other site 511062006158 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 511062006159 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 511062006160 active site 511062006161 metal binding site [ion binding]; metal-binding site 511062006162 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 511062006163 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 511062006164 putative lipid binding site [chemical binding]; other site 511062006165 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 511062006166 FAD dependent oxidoreductase; Region: DAO; pfam01266 511062006167 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 511062006168 transcription-repair coupling factor; Provisional; Region: PRK10689 511062006169 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 511062006170 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 511062006171 ATP binding site [chemical binding]; other site 511062006172 putative Mg++ binding site [ion binding]; other site 511062006173 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 511062006174 nucleotide binding region [chemical binding]; other site 511062006175 ATP-binding site [chemical binding]; other site 511062006176 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 511062006177 PilZ domain; Region: PilZ; cl01260 511062006178 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 511062006179 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 511062006180 FtsX-like permease family; Region: FtsX; pfam02687 511062006181 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 511062006182 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 511062006183 Walker A/P-loop; other site 511062006184 ATP binding site [chemical binding]; other site 511062006185 Q-loop/lid; other site 511062006186 ABC transporter signature motif; other site 511062006187 Walker B; other site 511062006188 D-loop; other site 511062006189 H-loop/switch region; other site 511062006190 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 511062006191 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 511062006192 FtsX-like permease family; Region: FtsX; pfam02687 511062006193 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 511062006194 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 511062006195 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 511062006196 Competence protein; Region: Competence; pfam03772 511062006197 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 511062006198 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 511062006199 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 511062006200 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 511062006201 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 511062006202 Walker A/P-loop; other site 511062006203 ATP binding site [chemical binding]; other site 511062006204 Q-loop/lid; other site 511062006205 ABC transporter signature motif; other site 511062006206 Walker B; other site 511062006207 D-loop; other site 511062006208 H-loop/switch region; other site 511062006209 tetraacyldisaccharide 4'-kinase; Region: lpxK; TIGR00682 511062006210 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 511062006211 Uncharacterized conserved protein [Function unknown]; Region: COG2835 511062006212 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 511062006213 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 511062006214 Ligand binding site; other site 511062006215 oligomer interface; other site 511062006216 fructose-1,6-bisphosphatase family protein; Region: PLN02628 511062006217 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 511062006218 AMP binding site [chemical binding]; other site 511062006219 metal binding site [ion binding]; metal-binding site 511062006220 active site 511062006221 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 511062006222 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 511062006223 putative dimer interface [polypeptide binding]; other site 511062006224 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 511062006225 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 511062006226 dimer interface [polypeptide binding]; other site 511062006227 active site 511062006228 citrylCoA binding site [chemical binding]; other site 511062006229 NADH binding [chemical binding]; other site 511062006230 cationic pore residues; other site 511062006231 oxalacetate/citrate binding site [chemical binding]; other site 511062006232 coenzyme A binding site [chemical binding]; other site 511062006233 catalytic triad [active] 511062006234 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 511062006235 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 511062006236 cardiolipin binding site; other site 511062006237 SdhC subunit interface [polypeptide binding]; other site 511062006238 proximal heme binding site [chemical binding]; other site 511062006239 Iron-sulfur protein interface; other site 511062006240 proximal quinone binding site [chemical binding]; other site 511062006241 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 511062006242 L-aspartate oxidase; Provisional; Region: PRK06175 511062006243 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 511062006244 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 511062006245 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 511062006246 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 511062006247 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 511062006248 TPP-binding site [chemical binding]; other site 511062006249 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 511062006250 dimer interface [polypeptide binding]; other site 511062006251 PYR/PP interface [polypeptide binding]; other site 511062006252 TPP binding site [chemical binding]; other site 511062006253 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 511062006254 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 511062006255 E3 interaction surface; other site 511062006256 lipoyl attachment site [posttranslational modification]; other site 511062006257 e3 binding domain; Region: E3_binding; pfam02817 511062006258 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 511062006259 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 511062006260 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 511062006261 CoA-ligase; Region: Ligase_CoA; pfam00549 511062006262 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 511062006263 CoA binding domain; Region: CoA_binding; pfam02629 511062006264 CoA-ligase; Region: Ligase_CoA; pfam00549 511062006265 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 511062006266 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 511062006267 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 511062006268 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 511062006269 putative deacylase active site [active] 511062006270 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 511062006271 dimerization interface [polypeptide binding]; other site 511062006272 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062006273 dimer interface [polypeptide binding]; other site 511062006274 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 511062006275 putative CheW interface [polypeptide binding]; other site 511062006276 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 511062006277 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 511062006278 generic binding surface II; other site 511062006279 generic binding surface I; other site 511062006280 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 511062006281 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 511062006282 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 511062006283 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 511062006284 active site 511062006285 GMP synthase; Reviewed; Region: guaA; PRK00074 511062006286 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 511062006287 AMP/PPi binding site [chemical binding]; other site 511062006288 candidate oxyanion hole; other site 511062006289 catalytic triad [active] 511062006290 potential glutamine specificity residues [chemical binding]; other site 511062006291 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 511062006292 ATP Binding subdomain [chemical binding]; other site 511062006293 Ligand Binding sites [chemical binding]; other site 511062006294 Dimerization subdomain; other site 511062006295 integrase; Provisional; Region: PRK09692 511062006296 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 511062006297 active site 511062006298 Int/Topo IB signature motif; other site 511062006299 Prophage CP4-57 regulatory protein (AlpA); Region: Phage_AlpA; pfam05930 511062006300 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 511062006301 Replication protein C (RepC); Region: RepC; pfam06504 511062006302 conjugal transfer relaxosome component TraJ; Provisional; Region: PRK13877 511062006303 conjugal transfer relaxase TraI; Provisional; Region: PRK13878 511062006304 Relaxase/Mobilisation nuclease domain; Region: Relaxase; pfam03432 511062006305 conjugal transfer protein TrbJ; Provisional; Region: PRK13879 511062006306 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; cl01503 511062006307 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like_2; cd04847 511062006308 active site 511062006309 catalytic triad [active] 511062006310 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 511062006311 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 511062006312 Walker A motif; other site 511062006313 ATP binding site [chemical binding]; other site 511062006314 Walker B motif; other site 511062006315 arginine finger; other site 511062006316 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 511062006317 non-specific DNA binding site [nucleotide binding]; other site 511062006318 salt bridge; other site 511062006319 sequence-specific DNA binding site [nucleotide binding]; other site 511062006320 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; pfam09952 511062006321 Predicted nucleotidyltransferase [General function prediction only]; Region: COG4849 511062006322 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 511062006323 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 511062006324 dimer interface [polypeptide binding]; other site 511062006325 phosphorylation site [posttranslational modification] 511062006326 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 511062006327 ATP binding site [chemical binding]; other site 511062006328 Mg2+ binding site [ion binding]; other site 511062006329 G-X-G motif; other site 511062006330 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 511062006331 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062006332 active site 511062006333 phosphorylation site [posttranslational modification] 511062006334 intermolecular recognition site; other site 511062006335 dimerization interface [polypeptide binding]; other site 511062006336 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 511062006337 DNA binding site [nucleotide binding] 511062006338 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 511062006339 Protein export membrane protein; Region: SecD_SecF; cl14618 511062006340 periplasmic multidrug efflux lipoprotein precursor; Reviewed; Region: PRK09578 511062006341 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 511062006342 HlyD family secretion protein; Region: HlyD_3; pfam13437 511062006343 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 511062006344 Integrase core domain; Region: rve; pfam00665 511062006345 Integrase core domain; Region: rve_3; pfam13683 511062006346 Transposase; Region: HTH_Tnp_1; pfam01527 511062006347 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 511062006348 multidrug efflux system protein MdtI; Provisional; Region: PRK10650 511062006349 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 511062006350 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062006351 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062006352 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 511062006353 dimerization interface [polypeptide binding]; other site 511062006354 asparagine synthetase B; Provisional; Region: asnB; PRK09431 511062006355 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 511062006356 active site 511062006357 dimer interface [polypeptide binding]; other site 511062006358 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 511062006359 Ligand Binding Site [chemical binding]; other site 511062006360 Molecular Tunnel; other site 511062006361 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 511062006362 Putative bacterial sensory transduction regulator; Region: YbjN; pfam10722 511062006363 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 511062006364 Ligand Binding Site [chemical binding]; other site 511062006365 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 511062006366 Ligand Binding Site [chemical binding]; other site 511062006367 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 511062006368 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 511062006369 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 511062006370 ABC transporter; Region: ABC_tran_2; pfam12848 511062006371 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 511062006372 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 511062006373 Ligand Binding Site [chemical binding]; other site 511062006374 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 511062006375 Ligand Binding Site [chemical binding]; other site 511062006376 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 511062006377 Ligand Binding Site [chemical binding]; other site 511062006378 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 511062006379 Ligand Binding Site [chemical binding]; other site 511062006380 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 511062006381 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 511062006382 Sulfate transporter family; Region: Sulfate_transp; pfam00916 511062006383 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 511062006384 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 511062006385 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 511062006386 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 511062006387 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 511062006388 TrkA-N domain; Region: TrkA_N; pfam02254 511062006389 UMP phosphatase; Provisional; Region: PRK10444 511062006390 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 511062006391 active site 511062006392 motif I; other site 511062006393 motif II; other site 511062006394 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 511062006395 Transglycosylase; Region: Transgly; cl17702 511062006396 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 511062006397 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 511062006398 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 511062006399 active site 511062006400 purine riboside binding site [chemical binding]; other site 511062006401 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 511062006402 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 511062006403 ligand binding site [chemical binding]; other site 511062006404 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 511062006405 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 511062006406 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 511062006407 putative acyl-acceptor binding pocket; other site 511062006408 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 511062006409 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 511062006410 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 511062006411 Na2 binding site [ion binding]; other site 511062006412 putative substrate binding site 1 [chemical binding]; other site 511062006413 Na binding site 1 [ion binding]; other site 511062006414 putative substrate binding site 2 [chemical binding]; other site 511062006415 Uncharacterized conserved small protein [Function unknown]; Region: COG5457 511062006416 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 511062006417 transmembrane helices; other site 511062006418 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 511062006419 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 511062006420 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 511062006421 dimer interface [polypeptide binding]; other site 511062006422 phosphorylation site [posttranslational modification] 511062006423 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 511062006424 ATP binding site [chemical binding]; other site 511062006425 Mg2+ binding site [ion binding]; other site 511062006426 G-X-G motif; other site 511062006427 Response regulator receiver domain; Region: Response_reg; pfam00072 511062006428 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062006429 active site 511062006430 phosphorylation site [posttranslational modification] 511062006431 intermolecular recognition site; other site 511062006432 dimerization interface [polypeptide binding]; other site 511062006433 Response regulator receiver domain; Region: Response_reg; pfam00072 511062006434 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062006435 active site 511062006436 phosphorylation site [posttranslational modification] 511062006437 intermolecular recognition site; other site 511062006438 dimerization interface [polypeptide binding]; other site 511062006439 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 511062006440 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 511062006441 hydroxyglutarate oxidase; Provisional; Region: PRK11728 511062006442 Predicted permeases [General function prediction only]; Region: COG0679 511062006443 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 511062006444 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 511062006445 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 511062006446 Na binding site [ion binding]; other site 511062006447 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 511062006448 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 511062006449 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 511062006450 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 511062006451 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 511062006452 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 511062006453 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 511062006454 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 511062006455 Walker A motif; other site 511062006456 ATP binding site [chemical binding]; other site 511062006457 Walker B motif; other site 511062006458 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 511062006459 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 511062006460 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 511062006461 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 511062006462 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 511062006463 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 511062006464 PAS domain; Region: PAS_9; pfam13426 511062006465 putative active site [active] 511062006466 heme pocket [chemical binding]; other site 511062006467 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062006468 metal binding site [ion binding]; metal-binding site 511062006469 active site 511062006470 I-site; other site 511062006471 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 511062006472 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 511062006473 glycerol kinase; Provisional; Region: glpK; PRK00047 511062006474 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 511062006475 N- and C-terminal domain interface [polypeptide binding]; other site 511062006476 active site 511062006477 MgATP binding site [chemical binding]; other site 511062006478 catalytic site [active] 511062006479 metal binding site [ion binding]; metal-binding site 511062006480 glycerol binding site [chemical binding]; other site 511062006481 homotetramer interface [polypeptide binding]; other site 511062006482 homodimer interface [polypeptide binding]; other site 511062006483 FBP binding site [chemical binding]; other site 511062006484 protein IIAGlc interface [polypeptide binding]; other site 511062006485 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 511062006486 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 511062006487 HAMP domain; Region: HAMP; pfam00672 511062006488 dimerization interface [polypeptide binding]; other site 511062006489 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 511062006490 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062006491 dimer interface [polypeptide binding]; other site 511062006492 putative CheW interface [polypeptide binding]; other site 511062006493 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 511062006494 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 511062006495 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 511062006496 active site residue [active] 511062006497 selenophosphate synthetase; Provisional; Region: PRK00943 511062006498 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 511062006499 dimerization interface [polypeptide binding]; other site 511062006500 putative ATP binding site [chemical binding]; other site 511062006501 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 511062006502 Putative RNA-binding Domain in PseudoUridine synthase and Archaeosine transglycosylase; Region: PUA; smart00359 511062006503 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 511062006504 putative RNA binding site [nucleotide binding]; other site 511062006505 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 511062006506 S-adenosylmethionine binding site [chemical binding]; other site 511062006507 Acylphosphatases [Energy production and conversion]; Region: AcyP; COG1254 511062006508 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 511062006509 Fumarase C-terminus; Region: Fumerase_C; pfam05683 511062006510 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 511062006511 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 511062006512 chorismate binding enzyme; Region: Chorismate_bind; cl10555 511062006513 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 511062006514 putative active site [active] 511062006515 putative CoA binding site [chemical binding]; other site 511062006516 nudix motif; other site 511062006517 metal binding site [ion binding]; metal-binding site 511062006518 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 511062006519 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 511062006520 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 511062006521 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 511062006522 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 511062006523 active site 511062006524 HIGH motif; other site 511062006525 KMSKS motif; other site 511062006526 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 511062006527 tRNA binding surface [nucleotide binding]; other site 511062006528 anticodon binding site; other site 511062006529 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 511062006530 dimer interface [polypeptide binding]; other site 511062006531 putative tRNA-binding site [nucleotide binding]; other site 511062006532 antiporter inner membrane protein; Provisional; Region: PRK11670 511062006533 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 511062006534 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 511062006535 trimer interface [polypeptide binding]; other site 511062006536 active site 511062006537 putative assembly protein; Provisional; Region: PRK10833 511062006538 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 511062006539 putative S-transferase; Provisional; Region: PRK11752 511062006540 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 511062006541 C-terminal domain interface [polypeptide binding]; other site 511062006542 GSH binding site (G-site) [chemical binding]; other site 511062006543 dimer interface [polypeptide binding]; other site 511062006544 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 511062006545 dimer interface [polypeptide binding]; other site 511062006546 N-terminal domain interface [polypeptide binding]; other site 511062006547 active site 511062006548 DNA-binding transcriptional regulator MetR; Provisional; Region: PRK15421 511062006549 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062006550 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 511062006551 putative dimerization interface [polypeptide binding]; other site 511062006552 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 511062006553 methionine synthase; Provisional; Region: PRK01207 511062006554 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 511062006555 substrate binding site [chemical binding]; other site 511062006556 THF binding site; other site 511062006557 zinc-binding site [ion binding]; other site 511062006558 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 511062006559 Low molecular weight phosphatase family; Region: LMWPc; cd00115 511062006560 active site 511062006561 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 511062006562 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 511062006563 homodimer interface [polypeptide binding]; other site 511062006564 oligonucleotide binding site [chemical binding]; other site 511062006565 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 511062006566 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 511062006567 RNA binding surface [nucleotide binding]; other site 511062006568 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 511062006569 active site 511062006570 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 511062006571 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 511062006572 active site 511062006573 motif I; other site 511062006574 motif II; other site 511062006575 Maf-like protein; Region: Maf; pfam02545 511062006576 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 511062006577 active site 511062006578 dimer interface [polypeptide binding]; other site 511062006579 hypothetical protein; Provisional; Region: PRK11193 511062006580 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 511062006581 putative phosphate acyltransferase; Provisional; Region: PRK05331 511062006582 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 511062006583 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 511062006584 dimer interface [polypeptide binding]; other site 511062006585 active site 511062006586 CoA binding pocket [chemical binding]; other site 511062006587 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 511062006588 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 511062006589 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 511062006590 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 511062006591 NAD(P) binding site [chemical binding]; other site 511062006592 homotetramer interface [polypeptide binding]; other site 511062006593 homodimer interface [polypeptide binding]; other site 511062006594 active site 511062006595 acyl carrier protein; Provisional; Region: acpP; PRK00982 511062006596 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 511062006597 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 511062006598 dimer interface [polypeptide binding]; other site 511062006599 active site 511062006600 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 511062006601 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 511062006602 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062006603 catalytic residue [active] 511062006604 YceG-like family; Region: YceG; pfam02618 511062006605 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 511062006606 dimerization interface [polypeptide binding]; other site 511062006607 thymidylate kinase; Validated; Region: tmk; PRK00698 511062006608 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 511062006609 TMP-binding site; other site 511062006610 ATP-binding site [chemical binding]; other site 511062006611 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 511062006612 DNA polymerase III subunit delta'; Validated; Region: PRK08485 511062006613 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 511062006614 active site 511062006615 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 511062006616 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 511062006617 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 511062006618 Transcriptional regulators [Transcription]; Region: GntR; COG1802 511062006619 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 511062006620 DNA-binding site [nucleotide binding]; DNA binding site 511062006621 FCD domain; Region: FCD; pfam07729 511062006622 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 511062006623 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 511062006624 tetramer interface [polypeptide binding]; other site 511062006625 active site 511062006626 Mg2+/Mn2+ binding site [ion binding]; other site 511062006627 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 511062006628 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 511062006629 dimer interface [polypeptide binding]; other site 511062006630 active site 511062006631 citrylCoA binding site [chemical binding]; other site 511062006632 oxalacetate/citrate binding site [chemical binding]; other site 511062006633 coenzyme A binding site [chemical binding]; other site 511062006634 catalytic triad [active] 511062006635 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 511062006636 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 511062006637 substrate binding site [chemical binding]; other site 511062006638 ligand binding site [chemical binding]; other site 511062006639 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 511062006640 substrate binding site [chemical binding]; other site 511062006641 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 511062006642 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 511062006643 Propionyl-CoA synthetase (PrpE); Region: PrpE; cd05967 511062006644 acyl-activating enzyme (AAE) consensus motif; other site 511062006645 putative AMP binding site [chemical binding]; other site 511062006646 putative active site [active] 511062006647 putative CoA binding site [chemical binding]; other site 511062006648 Fic family protein [Function unknown]; Region: COG3177 511062006649 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 511062006650 Fic/DOC family; Region: Fic; pfam02661 511062006651 Protein of unknown function (DUF503); Region: DUF503; pfam04456 511062006652 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 511062006653 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 511062006654 catalytic residues [active] 511062006655 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 511062006656 putative active site [active] 511062006657 Zn binding site [ion binding]; other site 511062006658 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 511062006659 Coenzyme A binding pocket [chemical binding]; other site 511062006660 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 511062006661 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 511062006662 Coenzyme A binding pocket [chemical binding]; other site 511062006663 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 511062006664 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 511062006665 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 511062006666 metal binding site [ion binding]; metal-binding site 511062006667 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 511062006668 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 511062006669 substrate binding site [chemical binding]; other site 511062006670 glutamase interaction surface [polypeptide binding]; other site 511062006671 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 511062006672 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 511062006673 catalytic residues [active] 511062006674 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 511062006675 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 511062006676 putative active site [active] 511062006677 oxyanion strand; other site 511062006678 catalytic triad [active] 511062006679 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 511062006680 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 511062006681 active site 511062006682 motif I; other site 511062006683 motif II; other site 511062006684 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 511062006685 4-fold oligomerization interface [polypeptide binding]; other site 511062006686 putative active site pocket [active] 511062006687 metal binding residues [ion binding]; metal-binding site 511062006688 3-fold/trimer interface [polypeptide binding]; other site 511062006689 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 511062006690 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 511062006691 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062006692 homodimer interface [polypeptide binding]; other site 511062006693 catalytic residue [active] 511062006694 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 511062006695 histidinol dehydrogenase; Region: hisD; TIGR00069 511062006696 NAD binding site [chemical binding]; other site 511062006697 dimerization interface [polypeptide binding]; other site 511062006698 product binding site; other site 511062006699 substrate binding site [chemical binding]; other site 511062006700 zinc binding site [ion binding]; other site 511062006701 catalytic residues [active] 511062006702 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 511062006703 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 511062006704 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 511062006705 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 511062006706 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 511062006707 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 511062006708 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 511062006709 PAS domain; Region: PAS_9; pfam13426 511062006710 putative active site [active] 511062006711 heme pocket [chemical binding]; other site 511062006712 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 511062006713 PAS domain; Region: PAS_9; pfam13426 511062006714 putative active site [active] 511062006715 heme pocket [chemical binding]; other site 511062006716 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062006717 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062006718 metal binding site [ion binding]; metal-binding site 511062006719 active site 511062006720 I-site; other site 511062006721 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 511062006722 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 511062006723 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 511062006724 ATP binding site [chemical binding]; other site 511062006725 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 511062006726 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 511062006727 Glycoprotease family; Region: Peptidase_M22; pfam00814 511062006728 ribonuclease D; Provisional; Region: PRK10829 511062006729 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 511062006730 catalytic site [active] 511062006731 putative active site [active] 511062006732 putative substrate binding site [chemical binding]; other site 511062006733 HRDC domain; Region: HRDC; pfam00570 511062006734 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 511062006735 cell division inhibitor MinD; Provisional; Region: PRK10818 511062006736 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 511062006737 Switch I; other site 511062006738 Switch II; other site 511062006739 septum formation inhibitor; Reviewed; Region: minC; PRK04804 511062006740 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 511062006741 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 511062006742 YcgL domain; Region: YcgL; pfam05166 511062006743 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 511062006744 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 511062006745 hypothetical protein; Provisional; Region: PRK05170 511062006746 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 511062006747 fatty acid metabolism regulator; Provisional; Region: PRK04984 511062006748 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 511062006749 DNA-binding site [nucleotide binding]; DNA binding site 511062006750 FadR C-terminal domain; Region: FadR_C; pfam07840 511062006751 SpoVR family protein; Provisional; Region: PRK11767 511062006752 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 511062006753 hypothetical protein; Provisional; Region: PRK05325 511062006754 PrkA family serine protein kinase; Provisional; Region: PRK15455 511062006755 AAA ATPase domain; Region: AAA_16; pfam13191 511062006756 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 511062006757 azoreductase; Reviewed; Region: PRK00170 511062006758 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 511062006759 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 511062006760 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 511062006761 inhibitor-cofactor binding pocket; inhibition site 511062006762 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062006763 catalytic residue [active] 511062006764 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 511062006765 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 511062006766 multidrug efflux protein; Reviewed; Region: PRK01766 511062006767 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 511062006768 cation binding site [ion binding]; other site 511062006769 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 511062006770 Lumazine binding domain; Region: Lum_binding; pfam00677 511062006771 Lumazine binding domain; Region: Lum_binding; pfam00677 511062006772 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 511062006773 pteridine reductase; Provisional; Region: PRK09135 511062006774 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 511062006775 NAD(P) binding site [chemical binding]; other site 511062006776 active site 511062006777 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 511062006778 Phosphotransferase enzyme family; Region: APH; pfam01636 511062006779 active site 511062006780 ATP binding site [chemical binding]; other site 511062006781 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 511062006782 putative metal binding site [ion binding]; other site 511062006783 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 511062006784 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 511062006785 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 511062006786 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 511062006787 active site 511062006788 dimer interface [polypeptide binding]; other site 511062006789 motif 1; other site 511062006790 motif 2; other site 511062006791 motif 3; other site 511062006792 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 511062006793 anticodon binding site; other site 511062006794 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 511062006795 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 511062006796 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 511062006797 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 511062006798 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 511062006799 23S rRNA binding site [nucleotide binding]; other site 511062006800 L21 binding site [polypeptide binding]; other site 511062006801 L13 binding site [polypeptide binding]; other site 511062006802 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 511062006803 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 511062006804 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 511062006805 dimer interface [polypeptide binding]; other site 511062006806 motif 1; other site 511062006807 active site 511062006808 motif 2; other site 511062006809 motif 3; other site 511062006810 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 511062006811 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 511062006812 putative tRNA-binding site [nucleotide binding]; other site 511062006813 B3/4 domain; Region: B3_4; pfam03483 511062006814 tRNA synthetase B5 domain; Region: B5; smart00874 511062006815 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 511062006816 dimer interface [polypeptide binding]; other site 511062006817 motif 1; other site 511062006818 motif 3; other site 511062006819 motif 2; other site 511062006820 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 511062006821 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 511062006822 IHF dimer interface [polypeptide binding]; other site 511062006823 IHF - DNA interface [nucleotide binding]; other site 511062006824 NAD-dependent deacetylase; Provisional; Region: PRK00481 511062006825 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 511062006826 NAD+ binding site [chemical binding]; other site 511062006827 substrate binding site [chemical binding]; other site 511062006828 Zn binding site [ion binding]; other site 511062006829 spermidine/putrescine ABC transporter periplasmic substrate-binding protein; Reviewed; Region: potD; PRK09501 511062006830 Bacterial extracellular solute-binding protein; Region: SBP_bac_6; pfam13343 511062006831 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 511062006832 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 511062006833 dimer interface [polypeptide binding]; other site 511062006834 conserved gate region; other site 511062006835 putative PBP binding loops; other site 511062006836 ABC-ATPase subunit interface; other site 511062006837 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 511062006838 dimer interface [polypeptide binding]; other site 511062006839 conserved gate region; other site 511062006840 putative PBP binding loops; other site 511062006841 ABC-ATPase subunit interface; other site 511062006842 putrescine/spermidine ABC transporter ATPase protein; Reviewed; Region: potA; PRK09452 511062006843 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062006844 Walker A/P-loop; other site 511062006845 ATP binding site [chemical binding]; other site 511062006846 Q-loop/lid; other site 511062006847 ABC transporter signature motif; other site 511062006848 Walker B; other site 511062006849 D-loop; other site 511062006850 H-loop/switch region; other site 511062006851 TOBE domain; Region: TOBE_2; pfam08402 511062006852 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 511062006853 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 511062006854 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 511062006855 Ligand Binding Site [chemical binding]; other site 511062006856 universal stress protein UspE; Provisional; Region: PRK11175 511062006857 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 511062006858 Ligand Binding Site [chemical binding]; other site 511062006859 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 511062006860 Ligand Binding Site [chemical binding]; other site 511062006861 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 511062006862 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 511062006863 ligand binding site [chemical binding]; other site 511062006864 flexible hinge region; other site 511062006865 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 511062006866 putative switch regulator; other site 511062006867 non-specific DNA interactions [nucleotide binding]; other site 511062006868 DNA binding site [nucleotide binding] 511062006869 sequence specific DNA binding site [nucleotide binding]; other site 511062006870 putative cAMP binding site [chemical binding]; other site 511062006871 Family description; Region: DsbD_2; pfam13386 511062006872 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 511062006873 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 511062006874 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 511062006875 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 511062006876 metal-binding site [ion binding] 511062006877 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 511062006878 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 511062006879 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 511062006880 FixH; Region: FixH; pfam05751 511062006881 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 511062006882 Cytochrome c; Region: Cytochrom_C; pfam00034 511062006883 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 511062006884 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 511062006885 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 511062006886 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 511062006887 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 511062006888 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 511062006889 Putative water exit pathway; other site 511062006890 Binuclear center (active site) [active] 511062006891 Putative proton exit pathway; other site 511062006892 Low-spin heme binding site [chemical binding]; other site 511062006893 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 511062006894 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 511062006895 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 511062006896 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 511062006897 Int/Topo IB signature motif; other site 511062006898 putative transcription regulator; Region: PHA01082 511062006899 Phage protein; Region: DUF3653; pfam12375 511062006900 phage assembly protein; Region: IV; PHA00019 511062006901 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 511062006902 Zonular occludens toxin (Zot); Region: Zot; cl17485 511062006903 Protein of unknown function (DUF2523); Region: DUF2523; pfam10734 511062006904 CTX phage RstB protein; Region: CTX_RstB; pfam07459 511062006905 Replication initiation factor; Region: Rep_trans; pfam02486 511062006906 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 511062006907 non-specific DNA binding site [nucleotide binding]; other site 511062006908 salt bridge; other site 511062006909 sequence-specific DNA binding site [nucleotide binding]; other site 511062006910 Domain of unknown function DUF77; Region: DUF77; pfam01910 511062006911 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 511062006912 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 511062006913 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 511062006914 active site 1 [active] 511062006915 dimer interface [polypeptide binding]; other site 511062006916 active site 2 [active] 511062006917 Ribosome modulation factor; Region: RMF; pfam04957 511062006918 ABC transporter ATPase component; Reviewed; Region: PRK11147 511062006919 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 511062006920 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062006921 Walker A/P-loop; other site 511062006922 ATP binding site [chemical binding]; other site 511062006923 Q-loop/lid; other site 511062006924 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 511062006925 ABC transporter signature motif; other site 511062006926 Walker B; other site 511062006927 D-loop; other site 511062006928 ABC transporter; Region: ABC_tran_2; pfam12848 511062006929 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 511062006930 Glutaredoxin-like domain (DUF836); Region: DUF836; pfam05768 511062006931 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 511062006932 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 511062006933 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 511062006934 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 511062006935 S-adenosylmethionine binding site [chemical binding]; other site 511062006936 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 511062006937 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 511062006938 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 511062006939 quinone interaction residues [chemical binding]; other site 511062006940 active site 511062006941 catalytic residues [active] 511062006942 FMN binding site [chemical binding]; other site 511062006943 substrate binding site [chemical binding]; other site 511062006944 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 511062006945 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 511062006946 aminopeptidase N; Provisional; Region: pepN; PRK14015 511062006947 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 511062006948 active site 511062006949 Zn binding site [ion binding]; other site 511062006950 carboxy-terminal protease; Provisional; Region: PRK11186 511062006951 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 511062006952 protein binding site [polypeptide binding]; other site 511062006953 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 511062006954 Catalytic dyad [active] 511062006955 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 511062006956 ProP expression regulator; Provisional; Region: PRK04950 511062006957 ProQ/FINO family; Region: ProQ; pfam04352 511062006958 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 511062006959 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 511062006960 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062006961 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 511062006962 Walker A/P-loop; other site 511062006963 ATP binding site [chemical binding]; other site 511062006964 Q-loop/lid; other site 511062006965 ABC transporter signature motif; other site 511062006966 Walker B; other site 511062006967 D-loop; other site 511062006968 H-loop/switch region; other site 511062006969 YebG protein; Region: YebG; pfam07130 511062006970 DNA replication terminus site-binding protein (Ter protein); Region: Ter; pfam05472 511062006971 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 511062006972 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 511062006973 putative substrate translocation pore; other site 511062006974 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 511062006975 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 511062006976 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062006977 homodimer interface [polypeptide binding]; other site 511062006978 catalytic residue [active] 511062006979 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 511062006980 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 511062006981 dimerization interface [polypeptide binding]; other site 511062006982 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 511062006983 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062006984 dimer interface [polypeptide binding]; other site 511062006985 putative CheW interface [polypeptide binding]; other site 511062006986 Uncharacterized paraquat-inducible protein A [Function unknown]; Region: PqiA; COG2995 511062006987 Paraquat-inducible protein A; Region: PqiA; pfam04403 511062006988 Paraquat-inducible protein A; Region: PqiA; pfam04403 511062006989 paraquat-inducible protein B; Provisional; Region: PRK10807 511062006990 mce related protein; Region: MCE; pfam02470 511062006991 mce related protein; Region: MCE; pfam02470 511062006992 mce related protein; Region: MCE; pfam02470 511062006993 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 511062006994 Protein of unknown function (DUF330); Region: DUF330; pfam03886 511062006995 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 511062006996 catalytic core [active] 511062006997 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 511062006998 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 511062006999 Mechanosensitive ion channel; Region: MS_channel; pfam00924 511062007000 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 511062007001 Cache domain; Region: Cache_1; pfam02743 511062007002 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 511062007003 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 511062007004 dimerization interface [polypeptide binding]; other site 511062007005 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062007006 dimer interface [polypeptide binding]; other site 511062007007 putative CheW interface [polypeptide binding]; other site 511062007008 Uncharacterized conserved protein [Function unknown]; Region: COG1683 511062007009 Choloylglycine hydrolase (CGH) is a bile salt-modifying enzyme that hydrolyzes non-peptide carbon-nitrogen bonds in choloylglycine and choloyltaurine, both of which are present in bile. CGH is present in a number of probiotic microbial organisms that...; Region: Ntn_CGH; cd01902 511062007010 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 511062007011 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 511062007012 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 511062007013 PhnA protein; Region: PhnA; pfam03831 511062007014 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 511062007015 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 511062007016 conserved cys residue [active] 511062007017 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 511062007018 conserved cys residue [active] 511062007019 Homeodomain-like domain; Region: HTH_23; pfam13384 511062007020 Winged helix-turn helix; Region: HTH_29; pfam13551 511062007021 Homeodomain-like domain; Region: HTH_32; pfam13565 511062007022 DDE superfamily endonuclease; Region: DDE_3; pfam13358 511062007023 cell division protein MukB; Provisional; Region: mukB; PRK04863 511062007024 P-loop containing region of AAA domain; Region: AAA_29; cl17516 511062007025 Putative exonuclease SbcCD, C subunit; Region: SbcCD_C; pfam13558 511062007026 condesin subunit E; Provisional; Region: PRK05256 511062007027 condesin subunit F; Provisional; Region: PRK05260 511062007028 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 511062007029 S-adenosylmethionine binding site [chemical binding]; other site 511062007030 Uncharacterized conserved protein [Function unknown]; Region: COG1434 511062007031 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 511062007032 putative active site [active] 511062007033 triosephosphate isomerase; Provisional; Region: PRK14567 511062007034 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 511062007035 substrate binding site [chemical binding]; other site 511062007036 dimer interface [polypeptide binding]; other site 511062007037 catalytic triad [active] 511062007038 Phosphofructokinase, a key regulatory enzyme in glycolysis, catalyzes the phosphorylation of fructose-6-phosphate to fructose-1,6-biphosphate. The members belong to a subfamily of the PFKA family (cd00363) and include bacterial ATP-dependent...; Region: Bacterial_PFK; cd00763 511062007039 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 511062007040 active site 511062007041 ADP/pyrophosphate binding site [chemical binding]; other site 511062007042 dimerization interface [polypeptide binding]; other site 511062007043 allosteric effector site; other site 511062007044 fructose-1,6-bisphosphate binding site; other site 511062007045 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 511062007046 electron transport complex protein RsxA; Provisional; Region: PRK05151 511062007047 ferredoxin; Provisional; Region: PRK08764 511062007048 Putative Fe-S cluster; Region: FeS; pfam04060 511062007049 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 511062007050 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 511062007051 SLBB domain; Region: SLBB; pfam10531 511062007052 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 511062007053 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 511062007054 electron transport complex protein RnfG; Validated; Region: PRK01908 511062007055 electron transport complex RsxE subunit; Provisional; Region: PRK12405 511062007056 endonuclease III; Provisional; Region: PRK10702 511062007057 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 511062007058 minor groove reading motif; other site 511062007059 helix-hairpin-helix signature motif; other site 511062007060 substrate binding pocket [chemical binding]; other site 511062007061 active site 511062007062 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 511062007063 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 511062007064 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 511062007065 FOG: CBS domain [General function prediction only]; Region: COG0517 511062007066 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 511062007067 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 511062007068 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 511062007069 dimer interface [polypeptide binding]; other site 511062007070 active site 511062007071 metal binding site [ion binding]; metal-binding site 511062007072 glutathione binding site [chemical binding]; other site 511062007073 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 511062007074 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062007075 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 511062007076 substrate binding site [chemical binding]; other site 511062007077 dimerization interface [polypeptide binding]; other site 511062007078 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 511062007079 active site 511062007080 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 511062007081 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 511062007082 putative substrate translocation pore; other site 511062007083 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062007084 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062007085 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 511062007086 dimerization interface [polypeptide binding]; other site 511062007087 Protein of unknown function (DUF2796); Region: DUF2796; pfam10986 511062007088 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 511062007089 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062007090 Walker A/P-loop; other site 511062007091 ATP binding site [chemical binding]; other site 511062007092 Q-loop/lid; other site 511062007093 ABC transporter signature motif; other site 511062007094 Walker B; other site 511062007095 D-loop; other site 511062007096 H-loop/switch region; other site 511062007097 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 511062007098 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 511062007099 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 511062007100 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 511062007101 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 511062007102 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 511062007103 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 511062007104 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 511062007105 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 511062007106 FMN binding site [chemical binding]; other site 511062007107 substrate binding site [chemical binding]; other site 511062007108 putative catalytic residue [active] 511062007109 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 511062007110 Coenzyme A binding pocket [chemical binding]; other site 511062007111 Cupin domain; Region: Cupin_2; cl17218 511062007112 multidrug efflux protein; Reviewed; Region: PRK09579 511062007113 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 511062007114 HlyD family secretion protein; Region: HlyD_3; pfam13437 511062007115 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 511062007116 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 511062007117 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 511062007118 potential catalytic triad [active] 511062007119 conserved cys residue [active] 511062007120 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 511062007121 HAMP domain; Region: HAMP; pfam00672 511062007122 dimerization interface [polypeptide binding]; other site 511062007123 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 511062007124 dimer interface [polypeptide binding]; other site 511062007125 phosphorylation site [posttranslational modification] 511062007126 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 511062007127 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 511062007128 ATP binding site [chemical binding]; other site 511062007129 Mg2+ binding site [ion binding]; other site 511062007130 G-X-G motif; other site 511062007131 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 511062007132 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 511062007133 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 511062007134 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 511062007135 Multicopper oxidase; Region: Cu-oxidase; pfam00394 511062007136 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 511062007137 heavy metal response regulator; Region: cztR_silR_copR; TIGR01387 511062007138 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062007139 active site 511062007140 phosphorylation site [posttranslational modification] 511062007141 intermolecular recognition site; other site 511062007142 dimerization interface [polypeptide binding]; other site 511062007143 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 511062007144 DNA binding site [nucleotide binding] 511062007145 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 511062007146 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 511062007147 active site residue [active] 511062007148 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 511062007149 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 511062007150 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 511062007151 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 511062007152 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 511062007153 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 511062007154 Walker A/P-loop; other site 511062007155 ATP binding site [chemical binding]; other site 511062007156 Q-loop/lid; other site 511062007157 ABC transporter signature motif; other site 511062007158 Walker B; other site 511062007159 D-loop; other site 511062007160 H-loop/switch region; other site 511062007161 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 511062007162 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 511062007163 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 511062007164 TrkA-C domain; Region: TrkA_C; pfam02080 511062007165 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 511062007166 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 511062007167 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 511062007168 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 511062007169 Active Sites [active] 511062007170 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 511062007171 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 511062007172 CysD dimerization site [polypeptide binding]; other site 511062007173 G1 box; other site 511062007174 putative GEF interaction site [polypeptide binding]; other site 511062007175 GTP/Mg2+ binding site [chemical binding]; other site 511062007176 Switch I region; other site 511062007177 G2 box; other site 511062007178 G3 box; other site 511062007179 Switch II region; other site 511062007180 G4 box; other site 511062007181 G5 box; other site 511062007182 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 511062007183 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 511062007184 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 511062007185 ligand-binding site [chemical binding]; other site 511062007186 YfcL protein; Region: YfcL; pfam08891 511062007187 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 511062007188 Protein of unknown function, DUF462; Region: DUF462; pfam04315 511062007189 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 511062007190 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 511062007191 Tetramer interface [polypeptide binding]; other site 511062007192 active site 511062007193 FMN-binding site [chemical binding]; other site 511062007194 HemK family putative methylases; Region: hemK_fam; TIGR00536 511062007195 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 511062007196 S-adenosylmethionine binding site [chemical binding]; other site 511062007197 hypothetical protein; Provisional; Region: PRK04946 511062007198 Smr domain; Region: Smr; pfam01713 511062007199 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 511062007200 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 511062007201 catalytic core [active] 511062007202 Protein of unknown function (Duf2374); Region: DUF2374; pfam09574 511062007203 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 511062007204 Ligand Binding Site [chemical binding]; other site 511062007205 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 511062007206 dimer interface [polypeptide binding]; other site 511062007207 FMN binding site [chemical binding]; other site 511062007208 NADPH bind site [chemical binding]; other site 511062007209 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 511062007210 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062007211 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062007212 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 511062007213 putative effector binding pocket; other site 511062007214 dimerization interface [polypeptide binding]; other site 511062007215 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 511062007216 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 511062007217 acyl-activating enzyme (AAE) consensus motif; other site 511062007218 putative AMP binding site [chemical binding]; other site 511062007219 putative active site [active] 511062007220 putative CoA binding site [chemical binding]; other site 511062007221 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 511062007222 PAS domain; Region: PAS_9; pfam13426 511062007223 putative active site [active] 511062007224 heme pocket [chemical binding]; other site 511062007225 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062007226 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062007227 metal binding site [ion binding]; metal-binding site 511062007228 active site 511062007229 I-site; other site 511062007230 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 511062007231 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 511062007232 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 511062007233 catalytic site [active] 511062007234 putative active site [active] 511062007235 putative substrate binding site [chemical binding]; other site 511062007236 dimer interface [polypeptide binding]; other site 511062007237 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 511062007238 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 511062007239 putative molybdenum transport ATP-binding protein ModF; Provisional; Region: PRK10938 511062007240 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cd00267 511062007241 Walker A/P-loop; other site 511062007242 ATP binding site [chemical binding]; other site 511062007243 Q-loop/lid; other site 511062007244 ABC transporter signature motif; other site 511062007245 Walker B; other site 511062007246 D-loop; other site 511062007247 H-loop/switch region; other site 511062007248 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062007249 Walker A/P-loop; other site 511062007250 ATP binding site [chemical binding]; other site 511062007251 Q-loop/lid; other site 511062007252 ABC transporter signature motif; other site 511062007253 Walker B; other site 511062007254 D-loop; other site 511062007255 H-loop/switch region; other site 511062007256 TIGR02647 family protein; Region: DNA 511062007257 peroxidase; Provisional; Region: PRK15000 511062007258 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 511062007259 dimer interface [polypeptide binding]; other site 511062007260 decamer (pentamer of dimers) interface [polypeptide binding]; other site 511062007261 catalytic triad [active] 511062007262 peroxidatic and resolving cysteines [active] 511062007263 Predicted permease [General function prediction only]; Region: COG2056 511062007264 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 511062007265 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062007266 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062007267 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 511062007268 substrate binding pocket [chemical binding]; other site 511062007269 dimerization interface [polypeptide binding]; other site 511062007270 N-carbamoylputrescine amidohydrolase (CPA) (class 11 nitrilases); Region: CPA; cd07573 511062007271 N-carbamoylputrescine amidase; Region: agmatine_aguB; TIGR03381 511062007272 putative active site; other site 511062007273 catalytic triad [active] 511062007274 putative dimer interface [polypeptide binding]; other site 511062007275 agmatine deiminase; Provisional; Region: PRK13551 511062007276 agmatine deiminase; Region: agmatine_aguA; TIGR03380 511062007277 N-methyltryptophan oxidase; Provisional; Region: solA; PRK11259 511062007278 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 511062007279 putative GSH binding site [chemical binding]; other site 511062007280 catalytic residues [active] 511062007281 superoxide dismutase; Provisional; Region: PRK10543 511062007282 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 511062007283 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 511062007284 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 511062007285 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 511062007286 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 511062007287 FeS/SAM binding site; other site 511062007288 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 511062007289 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 511062007290 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 511062007291 putative active site [active] 511062007292 pyruvate kinase; Provisional; Region: PRK05826 511062007293 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 511062007294 domain interfaces; other site 511062007295 active site 511062007296 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 511062007297 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 511062007298 active site 511062007299 intersubunit interface [polypeptide binding]; other site 511062007300 catalytic residue [active] 511062007301 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 511062007302 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 511062007303 active site 511062007304 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 511062007305 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 511062007306 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 511062007307 hypothetical protein; Provisional; Region: PRK11038 511062007308 arginine decarboxylase; Provisional; Region: PRK05354 511062007309 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 511062007310 dimer interface [polypeptide binding]; other site 511062007311 active site 511062007312 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 511062007313 catalytic residues [active] 511062007314 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 511062007315 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 511062007316 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 511062007317 active site 511062007318 nucleophile elbow; other site 511062007319 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 511062007320 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 511062007321 putative acyl-acceptor binding pocket; other site 511062007322 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 511062007323 Rdx family; Region: Rdx; cl01407 511062007324 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 511062007325 active site 511062007326 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 511062007327 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 511062007328 dimer interface [polypeptide binding]; other site 511062007329 putative functional site; other site 511062007330 putative MPT binding site; other site 511062007331 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 511062007332 MoaE homodimer interface [polypeptide binding]; other site 511062007333 MoaD interaction [polypeptide binding]; other site 511062007334 active site residues [active] 511062007335 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 511062007336 MoaE interaction surface [polypeptide binding]; other site 511062007337 MoeB interaction surface [polypeptide binding]; other site 511062007338 thiocarboxylated glycine; other site 511062007339 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 511062007340 trimer interface [polypeptide binding]; other site 511062007341 dimer interface [polypeptide binding]; other site 511062007342 putative active site [active] 511062007343 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 511062007344 MPT binding site; other site 511062007345 trimer interface [polypeptide binding]; other site 511062007346 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 511062007347 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 511062007348 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 511062007349 quinol dehydrogenase membrane component; Provisional; Region: napH; PRK09477 511062007350 4Fe-4S binding domain; Region: Fer4_5; pfam12801 511062007351 quinol dehydrogenase periplasmic component; Provisional; Region: napG; PRK09476 511062007352 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 511062007353 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 511062007354 [4Fe-4S] binding site [ion binding]; other site 511062007355 molybdopterin cofactor binding site; other site 511062007356 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 511062007357 molybdopterin cofactor binding site; other site 511062007358 NapD protein; Region: NapD; pfam03927 511062007359 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 511062007360 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 511062007361 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 511062007362 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 511062007363 FeS/SAM binding site; other site 511062007364 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 511062007365 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 511062007366 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 511062007367 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062007368 active site 511062007369 phosphorylation site [posttranslational modification] 511062007370 intermolecular recognition site; other site 511062007371 dimerization interface [polypeptide binding]; other site 511062007372 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 511062007373 Walker A motif; other site 511062007374 ATP binding site [chemical binding]; other site 511062007375 Walker B motif; other site 511062007376 arginine finger; other site 511062007377 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 511062007378 Uncharacterized conserved protein [Function unknown]; Region: COG0327 511062007379 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 511062007380 potential protein location (hypothetical protein GU3_11095 [Oceanimonas sp. GK1]) that overlaps RNA (tRNA-C) 511062007381 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 511062007382 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 511062007383 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 511062007384 PAS domain; Region: PAS_9; pfam13426 511062007385 putative active site [active] 511062007386 heme pocket [chemical binding]; other site 511062007387 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 511062007388 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062007389 dimer interface [polypeptide binding]; other site 511062007390 putative CheW interface [polypeptide binding]; other site 511062007391 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 511062007392 DNA binding site [nucleotide binding] 511062007393 active site 511062007394 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 511062007395 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 511062007396 active site 511062007397 interdomain interaction site; other site 511062007398 putative metal-binding site [ion binding]; other site 511062007399 nucleotide binding site [chemical binding]; other site 511062007400 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 511062007401 domain I; other site 511062007402 DNA binding groove [nucleotide binding] 511062007403 phosphate binding site [ion binding]; other site 511062007404 domain II; other site 511062007405 domain III; other site 511062007406 nucleotide binding site [chemical binding]; other site 511062007407 catalytic site [active] 511062007408 domain IV; other site 511062007409 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 511062007410 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 511062007411 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 511062007412 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 511062007413 succinylarginine dihydrolase; Provisional; Region: PRK13281 511062007414 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 511062007415 putative inner membrane peptidase; Provisional; Region: PRK11778 511062007416 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 511062007417 tandem repeat interface [polypeptide binding]; other site 511062007418 oligomer interface [polypeptide binding]; other site 511062007419 active site residues [active] 511062007420 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 511062007421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 511062007422 NAD(P) binding site [chemical binding]; other site 511062007423 active site 511062007424 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062007425 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062007426 LysR substrate binding domain; Region: LysR_substrate; pfam03466 511062007427 dimerization interface [polypeptide binding]; other site 511062007428 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 511062007429 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 511062007430 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062007431 homodimer interface [polypeptide binding]; other site 511062007432 catalytic residue [active] 511062007433 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 511062007434 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 511062007435 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 511062007436 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 511062007437 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 511062007438 putative monooxygenase; Provisional; Region: PRK11118 511062007439 HPP family; Region: HPP; pfam04982 511062007440 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 511062007441 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 511062007442 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 511062007443 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 511062007444 putative active site [active] 511062007445 Zn binding site [ion binding]; other site 511062007446 phosphoglucomutase; Validated; Region: PRK07564 511062007447 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 511062007448 active site 511062007449 substrate binding site [chemical binding]; other site 511062007450 metal binding site [ion binding]; metal-binding site 511062007451 SeqA protein; Region: SeqA; pfam03925 511062007452 acyl-CoA esterase; Provisional; Region: PRK10673 511062007453 PGAP1-like protein; Region: PGAP1; pfam07819 511062007454 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 511062007455 LexA regulated protein; Provisional; Region: PRK11675 511062007456 flavodoxin FldA; Validated; Region: PRK09267 511062007457 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 511062007458 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 511062007459 ferric uptake regulator; Provisional; Region: fur; PRK09462 511062007460 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 511062007461 metal binding site 2 [ion binding]; metal-binding site 511062007462 putative DNA binding helix; other site 511062007463 metal binding site 1 [ion binding]; metal-binding site 511062007464 dimer interface [polypeptide binding]; other site 511062007465 structural Zn2+ binding site [ion binding]; other site 511062007466 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 511062007467 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 511062007468 active site 511062007469 HIGH motif; other site 511062007470 nucleotide binding site [chemical binding]; other site 511062007471 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 511062007472 KMSKS motif; other site 511062007473 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 511062007474 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 511062007475 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 511062007476 Phasin protein; Region: Phasin_2; cl11491 511062007477 putative acyltransferase; Provisional; Region: PRK05790 511062007478 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 511062007479 dimer interface [polypeptide binding]; other site 511062007480 active site 511062007481 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 511062007482 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 511062007483 homotetramer interface [polypeptide binding]; other site 511062007484 NAD(P) binding site [chemical binding]; other site 511062007485 homodimer interface [polypeptide binding]; other site 511062007486 active site 511062007487 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062007488 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062007489 metal binding site [ion binding]; metal-binding site 511062007490 active site 511062007491 I-site; other site 511062007492 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 511062007493 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 511062007494 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 511062007495 DNA binding residues [nucleotide binding] 511062007496 putative dimer interface [polypeptide binding]; other site 511062007497 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 511062007498 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 511062007499 hinge; other site 511062007500 active site 511062007501 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 511062007502 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 511062007503 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062007504 homodimer interface [polypeptide binding]; other site 511062007505 catalytic residue [active] 511062007506 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 511062007507 homodimer interface [polypeptide binding]; other site 511062007508 substrate-cofactor binding pocket; other site 511062007509 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062007510 catalytic residue [active] 511062007511 DNA gyrase subunit A; Validated; Region: PRK05560 511062007512 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 511062007513 CAP-like domain; other site 511062007514 active site 511062007515 primary dimer interface [polypeptide binding]; other site 511062007516 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 511062007517 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 511062007518 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 511062007519 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 511062007520 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 511062007521 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 511062007522 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 511062007523 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 511062007524 S-adenosylmethionine binding site [chemical binding]; other site 511062007525 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 511062007526 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 511062007527 motif II; other site 511062007528 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 511062007529 ATP cone domain; Region: ATP-cone; pfam03477 511062007530 Class I ribonucleotide reductase; Region: RNR_I; cd01679 511062007531 active site 511062007532 dimer interface [polypeptide binding]; other site 511062007533 catalytic residues [active] 511062007534 effector binding site; other site 511062007535 R2 peptide binding site; other site 511062007536 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 511062007537 dimer interface [polypeptide binding]; other site 511062007538 putative radical transfer pathway; other site 511062007539 diiron center [ion binding]; other site 511062007540 tyrosyl radical; other site 511062007541 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 511062007542 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 511062007543 catalytic loop [active] 511062007544 iron binding site [ion binding]; other site 511062007545 Protein of unknown function (DUF1496); Region: DUF1496; pfam07383 511062007546 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 511062007547 ABC1 family; Region: ABC1; pfam03109 511062007548 FOG: CBS domain [General function prediction only]; Region: COG0517 511062007549 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 511062007550 FOG: CBS domain [General function prediction only]; Region: COG0517 511062007551 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with a PAS domain, a GGDEF (DiGuanylate-Cyclase (DGC) domain, and a DUF1 domain downstream. PAS domains have been found to bind ligands, and to act...; Region: CBS_pair_PAS_GGDEF_DUF1_assoc; cd04611 511062007552 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 511062007553 PAS domain; Region: PAS_9; pfam13426 511062007554 putative active site [active] 511062007555 heme pocket [chemical binding]; other site 511062007556 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062007557 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062007558 metal binding site [ion binding]; metal-binding site 511062007559 active site 511062007560 I-site; other site 511062007561 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 511062007562 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 511062007563 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 511062007564 Walker A/P-loop; other site 511062007565 ATP binding site [chemical binding]; other site 511062007566 Q-loop/lid; other site 511062007567 ABC transporter signature motif; other site 511062007568 Walker B; other site 511062007569 D-loop; other site 511062007570 H-loop/switch region; other site 511062007571 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 511062007572 AAA domain; Region: AAA_30; pfam13604 511062007573 Family description; Region: UvrD_C_2; pfam13538 511062007574 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 511062007575 Part of AAA domain; Region: AAA_19; pfam13245 511062007576 Family description; Region: UvrD_C_2; pfam13538 511062007577 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 511062007578 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 511062007579 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 511062007580 Mechanosensitive ion channel; Region: MS_channel; pfam00924 511062007581 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 511062007582 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 511062007583 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 511062007584 Predicted membrane protein [Function unknown]; Region: COG2259 511062007585 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 511062007586 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 511062007587 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 511062007588 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 511062007589 Soluble P-type ATPase [General function prediction only]; Region: COG4087 511062007590 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 511062007591 putative chaperone; Provisional; Region: PRK11678 511062007592 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 511062007593 nucleotide binding site [chemical binding]; other site 511062007594 putative NEF/HSP70 interaction site [polypeptide binding]; other site 511062007595 SBD interface [polypeptide binding]; other site 511062007596 amphi-Trp domain; Region: amphi-Trp; TIGR04354 511062007597 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 511062007598 PAS domain; Region: PAS_9; pfam13426 511062007599 putative active site [active] 511062007600 heme pocket [chemical binding]; other site 511062007601 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 511062007602 PAS domain; Region: PAS_9; pfam13426 511062007603 putative active site [active] 511062007604 heme pocket [chemical binding]; other site 511062007605 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062007606 dimer interface [polypeptide binding]; other site 511062007607 putative CheW interface [polypeptide binding]; other site 511062007608 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 511062007609 5S rRNA interface [nucleotide binding]; other site 511062007610 CTC domain interface [polypeptide binding]; other site 511062007611 L16 interface [polypeptide binding]; other site 511062007612 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 511062007613 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 511062007614 ATP binding site [chemical binding]; other site 511062007615 putative Mg++ binding site [ion binding]; other site 511062007616 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 511062007617 nucleotide binding region [chemical binding]; other site 511062007618 ATP-binding site [chemical binding]; other site 511062007619 Helicase associated domain (HA2); Region: HA2; pfam04408 511062007620 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 511062007621 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 511062007622 Outer membrane lipoprotein [Cell envelope biogenesis, outer membrane]; Region: SlyB; COG3133 511062007623 putative MFS family transporter protein; Provisional; Region: PRK03633 511062007624 putative MFS family transporter protein; Provisional; Region: PRK03633 511062007625 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 511062007626 putative substrate translocation pore; other site 511062007627 Predicted ATP-dependent endonuclease of the OLD family [DNA replication, recombination, and repair]; Region: COG3593 511062007628 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 511062007629 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 511062007630 putative active site [active] 511062007631 putative metal-binding site [ion binding]; other site 511062007632 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 511062007633 aspartate kinase; Validated; Region: PRK09181 511062007634 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 511062007635 substrate binding site [chemical binding]; other site 511062007636 nucleotide binding site [chemical binding]; other site 511062007637 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 511062007638 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 511062007639 Ectoine synthase; Region: Ectoine_synth; pfam06339 511062007640 diaminobutyrate--2-oxoglutarate aminotransferase; Validated; Region: PRK09264 511062007641 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 511062007642 inhibitor-cofactor binding pocket; inhibition site 511062007643 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062007644 catalytic residue [active] 511062007645 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 511062007646 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 511062007647 TPR motif; other site 511062007648 TPR repeat; Region: TPR_11; pfam13414 511062007649 binding surface 511062007650 hypothetical protein; Provisional; Region: PRK11027 511062007651 exonuclease I; Provisional; Region: sbcB; PRK11779 511062007652 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 511062007653 active site 511062007654 catalytic site [active] 511062007655 substrate binding site [chemical binding]; other site 511062007656 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 511062007657 LrgA family; Region: LrgA; cl00608 511062007658 LrgB-like family; Region: LrgB; cl00596 511062007659 recombination protein RecR; Reviewed; Region: recR; PRK00076 511062007660 RecR protein; Region: RecR; pfam02132 511062007661 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 511062007662 putative active site [active] 511062007663 putative metal-binding site [ion binding]; other site 511062007664 tetramer interface [polypeptide binding]; other site 511062007665 hypothetical protein; Validated; Region: PRK00153 511062007666 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 511062007667 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 511062007668 Walker A motif; other site 511062007669 ATP binding site [chemical binding]; other site 511062007670 Walker B motif; other site 511062007671 arginine finger; other site 511062007672 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 511062007673 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 511062007674 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 511062007675 active site 511062007676 hypothetical protein; Provisional; Region: PRK10527 511062007677 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 511062007678 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 511062007679 FMN binding site [chemical binding]; other site 511062007680 active site 511062007681 catalytic residues [active] 511062007682 substrate binding site [chemical binding]; other site 511062007683 Integrase core domain; Region: rve; pfam00665 511062007684 Integrase core domain; Region: rve_3; pfam13683 511062007685 Transposase; Region: HTH_Tnp_1; pfam01527 511062007686 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 511062007687 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 511062007688 Transposase; Region: DEDD_Tnp_IS110; pfam01548 511062007689 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 511062007690 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 511062007691 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 511062007692 trimer interface [polypeptide binding]; other site 511062007693 eyelet of channel; other site 511062007694 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 511062007695 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 511062007696 DEAD_2; Region: DEAD_2; pfam06733 511062007697 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 511062007698 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 511062007699 Transposase IS200 like; Region: Y1_Tnp; pfam01797 511062007700 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 511062007701 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 511062007702 Nucleoside recognition; Region: Gate; pfam07670 511062007703 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 511062007704 S-adenosylmethionine binding site [chemical binding]; other site 511062007705 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 511062007706 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 511062007707 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 511062007708 ferrochelatase; Reviewed; Region: hemH; PRK00035 511062007709 C-terminal domain interface [polypeptide binding]; other site 511062007710 active site 511062007711 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 511062007712 active site 511062007713 N-terminal domain interface [polypeptide binding]; other site 511062007714 adenylate kinase; Reviewed; Region: adk; PRK00279 511062007715 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 511062007716 AMP-binding site [chemical binding]; other site 511062007717 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 511062007718 heat shock protein 90; Provisional; Region: PRK05218 511062007719 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 511062007720 ATP binding site [chemical binding]; other site 511062007721 Mg2+ binding site [ion binding]; other site 511062007722 G-X-G motif; other site 511062007723 Transposase; Region: HTH_Tnp_1; pfam01527 511062007724 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 511062007725 Integrase core domain; Region: rve; pfam00665 511062007726 Integrase core domain; Region: rve_3; pfam13683 511062007727 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 511062007728 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 511062007729 substrate binding site [chemical binding]; other site 511062007730 oxyanion hole (OAH) forming residues; other site 511062007731 trimer interface [polypeptide binding]; other site 511062007732 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 511062007733 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 511062007734 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 511062007735 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 511062007736 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 511062007737 dimer interface [polypeptide binding]; other site 511062007738 active site 511062007739 RNA polymerase sigma factor; Provisional; Region: PRK12517 511062007740 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 511062007741 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 511062007742 DNA binding residues [nucleotide binding] 511062007743 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 511062007744 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 511062007745 Na binding site [ion binding]; other site 511062007746 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 511062007747 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 511062007748 EAL domain; Region: EAL; pfam00563 511062007749 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 511062007750 global DNA-binding transcriptional dual regulator H-NS; Provisional; Region: PRK10947 511062007751 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 511062007752 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 511062007753 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 511062007754 active site 511062007755 dimer interface [polypeptide binding]; other site 511062007756 tetratricopeptide repeat protein; Provisional; Region: PRK11788 511062007757 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 511062007758 binding surface 511062007759 TPR motif; other site 511062007760 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 511062007761 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 511062007762 IHF dimer interface [polypeptide binding]; other site 511062007763 IHF - DNA interface [nucleotide binding]; other site 511062007764 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 511062007765 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 511062007766 RNA binding site [nucleotide binding]; other site 511062007767 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 511062007768 RNA binding site [nucleotide binding]; other site 511062007769 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 511062007770 RNA binding site [nucleotide binding]; other site 511062007771 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 511062007772 RNA binding site [nucleotide binding]; other site 511062007773 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 511062007774 RNA binding site [nucleotide binding]; other site 511062007775 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 511062007776 RNA binding site [nucleotide binding]; other site 511062007777 cytidylate kinase; Provisional; Region: cmk; PRK00023 511062007778 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 511062007779 CMP-binding site; other site 511062007780 The sites determining sugar specificity; other site 511062007781 GTP cyclohydrolase II (RibA). GTP cyclohydrolase II catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5' phosphate, formate, pyrophosphate (APy), and GMP in the biosynthetic pathway of riboflavin. Riboflavin is the...; Region: GTP_cyclohydro2; cd00641 511062007782 dimerization interface [polypeptide binding]; other site 511062007783 active site 511062007784 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 511062007785 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 511062007786 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 511062007787 E3 interaction surface; other site 511062007788 lipoyl attachment site [posttranslational modification]; other site 511062007789 e3 binding domain; Region: E3_binding; pfam02817 511062007790 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 511062007791 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 511062007792 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 511062007793 alpha subunit interface [polypeptide binding]; other site 511062007794 TPP binding site [chemical binding]; other site 511062007795 heterodimer interface [polypeptide binding]; other site 511062007796 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 511062007797 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 511062007798 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 511062007799 tetramer interface [polypeptide binding]; other site 511062007800 TPP-binding site [chemical binding]; other site 511062007801 heterodimer interface [polypeptide binding]; other site 511062007802 phosphorylation loop region [posttranslational modification] 511062007803 acetyl-CoA synthetase; Provisional; Region: PRK04319 511062007804 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 511062007805 Uncharacterized subfamily of Acetyl-CoA synthetase like family (ACS); Region: MACS_like_4; cd05969 511062007806 active site 511062007807 acyl-activating enzyme (AAE) consensus motif; other site 511062007808 putative CoA binding site [chemical binding]; other site 511062007809 AMP binding site [chemical binding]; other site 511062007810 Coenzyme F420-reducing hydrogenase, alpha subunit [Energy production and conversion]; Region: FrhA; COG3259 511062007811 Coenzyme F420-reducing hydrogenase, gamma subunit [Energy production and conversion]; Region: FrhG; COG1941 511062007812 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 511062007813 dihydroorotate dehydrogenase electron transfer subunit; Reviewed; Region: PRK00054 511062007814 Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is...; Region: sulfite_reductase_like; cd06221 511062007815 FAD binding pocket [chemical binding]; other site 511062007816 FAD binding motif [chemical binding]; other site 511062007817 phosphate binding motif [ion binding]; other site 511062007818 beta-alpha-beta structure motif; other site 511062007819 NAD binding pocket [chemical binding]; other site 511062007820 Iron coordination center [ion binding]; other site 511062007821 4Fe-4S dicluster domain; Region: Fer4_18; pfam13746 511062007822 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 511062007823 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 511062007824 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 511062007825 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 511062007826 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 511062007827 dimerization interface [polypeptide binding]; other site 511062007828 ATP binding site [chemical binding]; other site 511062007829 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 511062007830 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 511062007831 HupF/HypC family; Region: HupF_HypC; cl00394 511062007832 Hydrogenase specific C-terminal endopeptidases, also called Hydrogen Maturation Proteases (H2MP). These enzymes belong to the peptidase family M52. Maturation of [FeNi] hydrogenases includes formation of the nickel metallocenter, proteolytic processing...; Region: H2MP; cl00477 511062007833 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 511062007834 Acylphosphatase; Region: Acylphosphatase; pfam00708 511062007835 HypF finger; Region: zf-HYPF; pfam07503 511062007836 HypF finger; Region: zf-HYPF; pfam07503 511062007837 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 511062007838 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 511062007839 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 511062007840 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 511062007841 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 511062007842 active site 511062007843 P-loop; other site 511062007844 phosphorylation site [posttranslational modification] 511062007845 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 511062007846 active site 511062007847 P-loop; other site 511062007848 phosphorylation site [posttranslational modification] 511062007849 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 511062007850 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 511062007851 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 511062007852 putative substrate binding site [chemical binding]; other site 511062007853 putative ATP binding site [chemical binding]; other site 511062007854 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 511062007855 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 511062007856 active site 511062007857 phosphorylation site [posttranslational modification] 511062007858 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 511062007859 dimerization domain swap beta strand [polypeptide binding]; other site 511062007860 regulatory protein interface [polypeptide binding]; other site 511062007861 active site 511062007862 regulatory phosphorylation site [posttranslational modification]; other site 511062007863 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 511062007864 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 511062007865 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 511062007866 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 511062007867 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 511062007868 NAD(P) binding site [chemical binding]; other site 511062007869 active site 511062007870 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 511062007871 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 511062007872 active site 511062007873 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 511062007874 YccA-like proteins; Region: YccA_like; cd10433 511062007875 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 511062007876 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 511062007877 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 511062007878 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 511062007879 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 511062007880 Sporulation related domain; Region: SPOR; pfam05036 511062007881 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 511062007882 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 511062007883 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 511062007884 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 511062007885 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 511062007886 dimerization interface 3.5A [polypeptide binding]; other site 511062007887 active site 511062007888 FimV N-terminal domain; Region: FimV_core; TIGR03505 511062007889 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 511062007890 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 511062007891 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 511062007892 ligand binding site [chemical binding]; other site 511062007893 NAD binding site [chemical binding]; other site 511062007894 catalytic site [active] 511062007895 homodimer interface [polypeptide binding]; other site 511062007896 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cd01610 511062007897 active site 511062007898 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 511062007899 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 511062007900 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 511062007901 dimer interface [polypeptide binding]; other site 511062007902 active site 511062007903 Uncharacterized conserved protein [Function unknown]; Region: COG4121 511062007904 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 511062007905 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 511062007906 Bacterial protein of unknown function (DUF922); Region: DUF922; cl02415 511062007907 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 511062007908 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 511062007909 Cl binding site [ion binding]; other site 511062007910 oligomer interface [polypeptide binding]; other site 511062007911 Transposase; Region: HTH_Tnp_1; pfam01527 511062007912 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 511062007913 Integrase core domain; Region: rve; pfam00665 511062007914 Integrase core domain; Region: rve_3; pfam13683 511062007915 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 511062007916 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 511062007917 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 511062007918 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 511062007919 CreA protein; Region: CreA; pfam05981 511062007920 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 511062007921 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 511062007922 dimerization interface [polypeptide binding]; other site 511062007923 DPS ferroxidase diiron center [ion binding]; other site 511062007924 ion pore; other site 511062007925 excinuclease ABC subunit B; Provisional; Region: PRK05298 511062007926 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 511062007927 ATP binding site [chemical binding]; other site 511062007928 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 511062007929 nucleotide binding region [chemical binding]; other site 511062007930 ATP-binding site [chemical binding]; other site 511062007931 Ultra-violet resistance protein B; Region: UvrB; pfam12344 511062007932 UvrB/uvrC motif; Region: UVR; pfam02151 511062007933 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 511062007934 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 511062007935 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; COG1263 511062007936 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 511062007937 active site turn [active] 511062007938 phosphorylation site [posttranslational modification] 511062007939 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 511062007940 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 511062007941 active site 511062007942 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 511062007943 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 511062007944 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 511062007945 nucleotide binding site [chemical binding]; other site 511062007946 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 511062007947 putative rRNA binding site [nucleotide binding]; other site 511062007948 Predicted membrane protein [Function unknown]; Region: COG2119 511062007949 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 511062007950 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 511062007951 Permease P (pink-eyed dilution). Mutations in the human melanosomal P gene were responsible for classic phenotype of oculocutaneous albinism type 2 (OCA2). Although the precise function of the P protein is unknown, it was predicted to regulate the...; Region: P_permease; cd01116 511062007952 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 511062007953 transmembrane helices; other site 511062007954 N-acetylglutamate synthase; Validated; Region: PRK05279 511062007955 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 511062007956 putative feedback inhibition sensing region; other site 511062007957 putative nucleotide binding site [chemical binding]; other site 511062007958 putative substrate binding site [chemical binding]; other site 511062007959 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 511062007960 Coenzyme A binding pocket [chemical binding]; other site 511062007961 aspartate kinase III; Validated; Region: PRK09084 511062007962 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 511062007963 nucleotide binding site [chemical binding]; other site 511062007964 substrate binding site [chemical binding]; other site 511062007965 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_1; cd04932 511062007966 lysine allosteric regulatory site; other site 511062007967 dimer interface [polypeptide binding]; other site 511062007968 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 511062007969 dimer interface [polypeptide binding]; other site 511062007970 Predicted membrane protein [Function unknown]; Region: COG3174 511062007971 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 511062007972 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 511062007973 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 511062007974 hexamer interface [polypeptide binding]; other site 511062007975 ligand binding site [chemical binding]; other site 511062007976 putative active site [active] 511062007977 NAD(P) binding site [chemical binding]; other site 511062007978 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 511062007979 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 511062007980 non-specific DNA binding site [nucleotide binding]; other site 511062007981 salt bridge; other site 511062007982 sequence-specific DNA binding site [nucleotide binding]; other site 511062007983 Cupin domain; Region: Cupin_2; pfam07883 511062007984 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 511062007985 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 511062007986 non-specific DNA binding site [nucleotide binding]; other site 511062007987 salt bridge; other site 511062007988 sequence-specific DNA binding site [nucleotide binding]; other site 511062007989 Cupin domain; Region: Cupin_2; pfam07883 511062007990 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 511062007991 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 511062007992 dimer interface [polypeptide binding]; other site 511062007993 conserved gate region; other site 511062007994 putative PBP binding loops; other site 511062007995 ABC-ATPase subunit interface; other site 511062007996 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 511062007997 dimer interface [polypeptide binding]; other site 511062007998 conserved gate region; other site 511062007999 putative PBP binding loops; other site 511062008000 ABC-ATPase subunit interface; other site 511062008001 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 511062008002 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 511062008003 Walker A/P-loop; other site 511062008004 ATP binding site [chemical binding]; other site 511062008005 Q-loop/lid; other site 511062008006 ABC transporter signature motif; other site 511062008007 Walker B; other site 511062008008 D-loop; other site 511062008009 H-loop/switch region; other site 511062008010 TOBE domain; Region: TOBE_2; pfam08402 511062008011 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 511062008012 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 511062008013 putative aminotransferase; Validated; Region: PRK07480 511062008014 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 511062008015 inhibitor-cofactor binding pocket; inhibition site 511062008016 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062008017 catalytic residue [active] 511062008018 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 511062008019 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 511062008020 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 511062008021 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 511062008022 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 511062008023 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 511062008024 Predicted Fe-S protein [General function prediction only]; Region: COG3313 511062008025 Transposase; Region: HTH_Tnp_1; pfam01527 511062008026 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 511062008027 Integrase core domain; Region: rve; pfam00665 511062008028 Integrase core domain; Region: rve_3; pfam13683 511062008029 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 511062008030 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 511062008031 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 511062008032 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 511062008033 FeS/SAM binding site; other site 511062008034 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 511062008035 active site 511062008036 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 511062008037 Ligand Binding Site [chemical binding]; other site 511062008038 phosphoenolpyruvate synthase; Validated; Region: PRK06464 511062008039 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 511062008040 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 511062008041 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 511062008042 PEP synthetase regulatory protein; Provisional; Region: PRK05339 511062008043 xanthine permease; Region: pbuX; TIGR03173 511062008044 5-histidylcysteine sulfoxide synthase; Region: ovoA_Nterm; TIGR04344 511062008045 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 511062008046 Methyltransferase domain; Region: Methyltransf_31; pfam13847 511062008047 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 511062008048 S-adenosylmethionine binding site [chemical binding]; other site 511062008049 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 511062008050 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 511062008051 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062008052 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062008053 metal binding site [ion binding]; metal-binding site 511062008054 active site 511062008055 I-site; other site 511062008056 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 511062008057 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 511062008058 substrate binding pocket [chemical binding]; other site 511062008059 membrane-bound complex binding site; other site 511062008060 hinge residues; other site 511062008061 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 511062008062 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 511062008063 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 511062008064 Protein of unknown function (DUF2872); Region: DUF2872; pfam11071 511062008065 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 511062008066 active site residue [active] 511062008067 potassium/proton antiporter; Reviewed; Region: PRK05326 511062008068 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 511062008069 TrkA-C domain; Region: TrkA_C; pfam02080 511062008070 Transporter associated domain; Region: CorC_HlyC; smart01091 511062008071 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 511062008072 putative ADP-ribose binding site [chemical binding]; other site 511062008073 putative active site [active] 511062008074 Small integral membrane protein [Function unknown]; Region: COG5487; cl17674 511062008075 periplasmic protein; Provisional; Region: PRK10568 511062008076 BON domain; Region: BON; pfam04972 511062008077 BON domain; Region: BON; pfam04972 511062008078 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 511062008079 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 511062008080 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 511062008081 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 511062008082 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 511062008083 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 511062008084 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 511062008085 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 511062008086 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 511062008087 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 511062008088 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 511062008089 AsnC family; Region: AsnC_trans_reg; pfam01037 511062008090 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 511062008091 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 511062008092 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 511062008093 catalytic residue [active] 511062008094 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 511062008095 HlyD family secretion protein; Region: HlyD_3; pfam13437 511062008096 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 511062008097 ATP-grasp domain; Region: ATP-grasp; pfam02222 511062008098 Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]; Region: PurE; COG0041 511062008099 Na(+)/urea-polyamine cotransporter DUR3, and related proteins; solute-binding domain; Region: SLC5sbd_DUR3; cd11476 511062008100 Na binding site [ion binding]; other site 511062008101 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 511062008102 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 511062008103 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 511062008104 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 511062008105 Glutathione S-transferase, C-terminal domain; Region: GST_C; pfam00043 511062008106 N-terminal domain interface [polypeptide binding]; other site 511062008107 Domain of unknown function (DUF897); Region: DUF897; cl01312 511062008108 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062008109 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062008110 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 511062008111 dimerization interface [polypeptide binding]; other site 511062008112 Na+/H+ antiporter 1; Region: Na_H_antiport_1; pfam06965 511062008113 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 511062008114 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 511062008115 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 511062008116 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 511062008117 N-methylhydantoinase A/acetone carboxylase, beta subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuA; COG0145 511062008118 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 511062008119 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 511062008120 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 511062008121 Hydantoinase B/oxoprolinase; Region: Hydantoinase_B; pfam02538 511062008122 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 511062008123 NRDE protein; Region: NRDE; cl01315 511062008124 DNA ligase; Provisional; Region: PRK09125 511062008125 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 511062008126 DNA binding site [nucleotide binding] 511062008127 active site 511062008128 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 511062008129 DNA binding site [nucleotide binding] 511062008130 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 511062008131 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 511062008132 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 511062008133 GTP binding site; other site 511062008134 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 511062008135 putative FMN binding site [chemical binding]; other site 511062008136 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 511062008137 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 511062008138 active site 511062008139 FMN binding site [chemical binding]; other site 511062008140 2,4-decadienoyl-CoA binding site; other site 511062008141 catalytic residue [active] 511062008142 4Fe-4S cluster binding site [ion binding]; other site 511062008143 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 511062008144 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 511062008145 tandem repeat interface [polypeptide binding]; other site 511062008146 signal peptide peptidase SppA, 67K type; Region: SppA_67K; TIGR00705 511062008147 oligomer interface [polypeptide binding]; other site 511062008148 active site residues [active] 511062008149 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 511062008150 tandem repeat interface [polypeptide binding]; other site 511062008151 oligomer interface [polypeptide binding]; other site 511062008152 active site residues [active] 511062008153 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 511062008154 active site 511062008155 homodimer interface [polypeptide binding]; other site 511062008156 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 511062008157 DNA-binding site [nucleotide binding]; DNA binding site 511062008158 RNA-binding motif; other site 511062008159 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 511062008160 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 511062008161 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 511062008162 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 511062008163 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 511062008164 ATP-grasp domain; Region: ATP-grasp_4; cl17255 511062008165 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 511062008166 IMP binding site; other site 511062008167 dimer interface [polypeptide binding]; other site 511062008168 interdomain contacts; other site 511062008169 partial ornithine binding site; other site 511062008170 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 511062008171 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 511062008172 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 511062008173 catalytic site [active] 511062008174 subunit interface [polypeptide binding]; other site 511062008175 dihydrodipicolinate reductase; Provisional; Region: PRK00048 511062008176 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 511062008177 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 511062008178 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 511062008179 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 511062008180 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 511062008181 fructokinase; Reviewed; Region: PRK09557 511062008182 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 511062008183 Peptidase family M48; Region: Peptidase_M48; pfam01435 511062008184 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 511062008185 non-specific DNA binding site [nucleotide binding]; other site 511062008186 salt bridge; other site 511062008187 sequence-specific DNA binding site [nucleotide binding]; other site 511062008188 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 511062008189 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 511062008190 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 511062008191 ligand binding site [chemical binding]; other site 511062008192 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 511062008193 SEC-C motif; Region: SEC-C; pfam02810 511062008194 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 511062008195 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 511062008196 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 511062008197 putative active site [active] 511062008198 putative substrate binding site [chemical binding]; other site 511062008199 putative cosubstrate binding site; other site 511062008200 catalytic site [active] 511062008201 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3492 511062008202 5'-nucleotidase; Provisional; Region: PRK03826 511062008203 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 511062008204 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 511062008205 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 511062008206 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 511062008207 S-adenosylmethionine binding site [chemical binding]; other site 511062008208 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 511062008209 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 511062008210 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 511062008211 short chain dehydrogenase; Provisional; Region: PRK06101 511062008212 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 511062008213 NAD(P) binding site [chemical binding]; other site 511062008214 active site 511062008215 SnoaL-like domain; Region: SnoaL_2; pfam12680 511062008216 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 511062008217 DNA photolyase; Region: DNA_photolyase; pfam00875 511062008218 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 511062008219 Helix-Turn-Helix DNA binding domain of the transcription regulators MlrA and CarA; Region: HTH_MlrA-CarA; cd01104 511062008220 DNA binding residues [nucleotide binding] 511062008221 Protein of unknown function (DUF523); Region: DUF523; pfam04463 511062008222 Uncharacterized conserved protein [Function unknown]; Region: COG3272 511062008223 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 511062008224 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 511062008225 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 511062008226 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 511062008227 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 511062008228 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 511062008229 glyceraldehyde-3-phosphate dehydrogenase A; Provisional; Region: gapA; PRK15425 511062008230 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 511062008231 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 511062008232 Transcriptional regulators [Transcription]; Region: MarR; COG1846 511062008233 MarR family; Region: MarR_2; pfam12802 511062008234 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 511062008235 Major Facilitator Superfamily; Region: MFS_1; pfam07690 511062008236 putative substrate translocation pore; other site 511062008237 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 511062008238 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 511062008239 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 511062008240 metal binding site [ion binding]; metal-binding site 511062008241 putative dimer interface [polypeptide binding]; other site 511062008242 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062008243 active site 511062008244 dimerization interface [polypeptide binding]; other site 511062008245 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 511062008246 DNA binding site [nucleotide binding] 511062008247 sensor protein BasS/PmrB; Provisional; Region: PRK10755 511062008248 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 511062008249 ATP binding site [chemical binding]; other site 511062008250 Mg2+ binding site [ion binding]; other site 511062008251 G-X-G motif; other site 511062008252 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 511062008253 quinolinate synthetase; Provisional; Region: PRK09375 511062008254 tol-pal system protein YbgF; Provisional; Region: PRK10803 511062008255 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 511062008256 binding surface 511062008257 TPR motif; other site 511062008258 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 511062008259 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 511062008260 ligand binding site [chemical binding]; other site 511062008261 translocation protein TolB; Provisional; Region: tolB; PRK04792 511062008262 TolB amino-terminal domain; Region: TolB_N; pfam04052 511062008263 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 511062008264 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 511062008265 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 511062008266 TolA protein; Region: tolA_full; TIGR02794 511062008267 TolA C-terminal; Region: TolA; pfam06519 511062008268 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 511062008269 TolR protein; Region: tolR; TIGR02801 511062008270 TolQ protein; Region: tolQ; TIGR02796 511062008271 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 511062008272 active site 511062008273 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 511062008274 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 511062008275 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 511062008276 Walker A motif; other site 511062008277 ATP binding site [chemical binding]; other site 511062008278 Walker B motif; other site 511062008279 arginine finger; other site 511062008280 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 511062008281 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 511062008282 RuvA N terminal domain; Region: RuvA_N; pfam01330 511062008283 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 511062008284 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 511062008285 active site 511062008286 putative DNA-binding cleft [nucleotide binding]; other site 511062008287 dimer interface [polypeptide binding]; other site 511062008288 hypothetical protein; Validated; Region: PRK00110 511062008289 dihydroneopterin triphosphate pyrophosphatase; Provisional; Region: nudB; PRK09438 511062008290 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 511062008291 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 511062008292 dimer interface [polypeptide binding]; other site 511062008293 anticodon binding site; other site 511062008294 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 511062008295 homodimer interface [polypeptide binding]; other site 511062008296 motif 1; other site 511062008297 active site 511062008298 motif 2; other site 511062008299 GAD domain; Region: GAD; pfam02938 511062008300 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 511062008301 active site 511062008302 motif 3; other site 511062008303 Protein of unknown function DUF72; Region: DUF72; cl00777 511062008304 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 511062008305 S-adenosylmethionine binding site [chemical binding]; other site 511062008306 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 511062008307 Methyltransferase domain; Region: Methyltransf_31; pfam13847 511062008308 S-adenosylmethionine binding site [chemical binding]; other site 511062008309 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 511062008310 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 511062008311 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 511062008312 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 511062008313 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 511062008314 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 511062008315 RNA binding surface [nucleotide binding]; other site 511062008316 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 511062008317 probable active site [active] 511062008318 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 511062008319 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 511062008320 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 511062008321 active site 511062008322 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 511062008323 anthranilate synthase component I; Provisional; Region: PRK13564 511062008324 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 511062008325 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 511062008326 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 511062008327 Glutamine amidotransferase class-I; Region: GATase; pfam00117 511062008328 glutamine binding [chemical binding]; other site 511062008329 catalytic triad [active] 511062008330 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 511062008331 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 511062008332 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 511062008333 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 511062008334 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 511062008335 active site 511062008336 ribulose/triose binding site [chemical binding]; other site 511062008337 phosphate binding site [ion binding]; other site 511062008338 substrate (anthranilate) binding pocket [chemical binding]; other site 511062008339 product (indole) binding pocket [chemical binding]; other site 511062008340 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 511062008341 active site 511062008342 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 511062008343 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 511062008344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062008345 catalytic residue [active] 511062008346 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 511062008347 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 511062008348 substrate binding site [chemical binding]; other site 511062008349 active site 511062008350 catalytic residues [active] 511062008351 heterodimer interface [polypeptide binding]; other site 511062008352 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b1; cd09203 511062008353 PLD-like domain; Region: PLDc_2; pfam13091 511062008354 putative homodimer interface [polypeptide binding]; other site 511062008355 putative active site [active] 511062008356 catalytic site [active] 511062008357 DEAD-like helicases superfamily; Region: DEXDc; smart00487 511062008358 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 511062008359 ATP binding site [chemical binding]; other site 511062008360 putative Mg++ binding site [ion binding]; other site 511062008361 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 511062008362 nucleotide binding region [chemical binding]; other site 511062008363 ATP-binding site [chemical binding]; other site 511062008364 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 511062008365 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 511062008366 nucleoside/Zn binding site; other site 511062008367 dimer interface [polypeptide binding]; other site 511062008368 catalytic motif [active] 511062008369 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 511062008370 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 511062008371 NAD(P) binding site [chemical binding]; other site 511062008372 active site 511062008373 Uncharacterized membrane protein [Function unknown]; Region: COG3949 511062008374 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 511062008375 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 511062008376 NAD(P) binding site [chemical binding]; other site 511062008377 active site 511062008378 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 511062008379 Beta-lactamase; Region: Beta-lactamase; pfam00144 511062008380 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 511062008381 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 511062008382 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 511062008383 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 511062008384 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 511062008385 tetrameric interface [polypeptide binding]; other site 511062008386 NAD binding site [chemical binding]; other site 511062008387 catalytic residues [active] 511062008388 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 511062008389 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 511062008390 inhibitor-cofactor binding pocket; inhibition site 511062008391 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062008392 catalytic residue [active] 511062008393 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062008394 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062008395 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 511062008396 dimerization interface [polypeptide binding]; other site 511062008397 Integrase core domain; Region: rve; pfam00665 511062008398 Integrase core domain; Region: rve_3; pfam13683 511062008399 Transposase; Region: HTH_Tnp_1; pfam01527 511062008400 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 511062008401 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 511062008402 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 511062008403 Multicopper oxidase; Region: Cu-oxidase; pfam00394 511062008404 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 511062008405 Cytochrome c; Region: Cytochrom_C; pfam00034 511062008406 Uncharacterized conserved protein [Function unknown]; Region: COG1262 511062008407 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 511062008408 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 511062008409 Cu(I) binding site [ion binding]; other site 511062008410 hypothetical protein; Provisional; Region: PRK11239 511062008411 Protein of unknown function, DUF480; Region: DUF480; pfam04337 511062008412 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 511062008413 Cache domain; Region: Cache_1; pfam02743 511062008414 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 511062008415 dimerization interface [polypeptide binding]; other site 511062008416 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 511062008417 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062008418 dimer interface [polypeptide binding]; other site 511062008419 putative CheW interface [polypeptide binding]; other site 511062008420 Isochorismatase family; Region: Isochorismatase; pfam00857 511062008421 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 511062008422 catalytic triad [active] 511062008423 dimer interface [polypeptide binding]; other site 511062008424 conserved cis-peptide bond; other site 511062008425 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 511062008426 Sodium:alanine symporter family; Region: Na_Ala_symp; pfam01235 511062008427 transaldolase-like protein; Provisional; Region: PTZ00411 511062008428 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 511062008429 active site 511062008430 dimer interface [polypeptide binding]; other site 511062008431 catalytic residue [active] 511062008432 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 511062008433 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 511062008434 ligand binding site [chemical binding]; other site 511062008435 active site 511062008436 UGI interface [polypeptide binding]; other site 511062008437 catalytic site [active] 511062008438 acyl-CoA thioesterase II; Provisional; Region: PRK10526 511062008439 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 511062008440 active site 511062008441 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 511062008442 catalytic triad [active] 511062008443 dimer interface [polypeptide binding]; other site 511062008444 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 511062008445 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 511062008446 ligand binding site [chemical binding]; other site 511062008447 NAD binding site [chemical binding]; other site 511062008448 tetramer interface [polypeptide binding]; other site 511062008449 catalytic site [active] 511062008450 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 511062008451 L-serine binding site [chemical binding]; other site 511062008452 ACT domain interface; other site 511062008453 Protein of unknown function (DUF541); Region: SIMPL; cl01077 511062008454 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 511062008455 metal ion-dependent adhesion site (MIDAS); other site 511062008456 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 511062008457 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062008458 active site 511062008459 I-site; other site 511062008460 metal binding site [ion binding]; metal-binding site 511062008461 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 511062008462 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 511062008463 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 511062008464 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 511062008465 ligand binding site [chemical binding]; other site 511062008466 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 511062008467 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 511062008468 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 511062008469 HlyD family secretion protein; Region: HlyD_3; pfam13437 511062008470 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39_likeD; cd02421 511062008471 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 511062008472 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 511062008473 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 511062008474 Walker A/P-loop; other site 511062008475 ATP binding site [chemical binding]; other site 511062008476 Q-loop/lid; other site 511062008477 ABC transporter signature motif; other site 511062008478 Walker B; other site 511062008479 D-loop; other site 511062008480 H-loop/switch region; other site 511062008481 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 511062008482 O-Antigen ligase; Region: Wzy_C; pfam04932 511062008483 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 511062008484 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 511062008485 active site 511062008486 dimer interface [polypeptide binding]; other site 511062008487 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 511062008488 dimer interface [polypeptide binding]; other site 511062008489 active site 511062008490 Nucleotidyltransferase substrate binding protein like; Region: NTase_sub_bind; pfam08780 511062008491 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 511062008492 active site 511062008493 NTP binding site [chemical binding]; other site 511062008494 metal binding triad [ion binding]; metal-binding site 511062008495 antibiotic binding site [chemical binding]; other site 511062008496 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 511062008497 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 511062008498 Beta-Casp domain; Region: Beta-Casp; smart01027 511062008499 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 511062008500 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 511062008501 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 511062008502 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 511062008503 NAD(P) binding site [chemical binding]; other site 511062008504 homodimer interface [polypeptide binding]; other site 511062008505 substrate binding site [chemical binding]; other site 511062008506 active site 511062008507 Bacterial sugar transferase; Region: Bac_transf; pfam02397 511062008508 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 511062008509 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 511062008510 active site 511062008511 putative substrate binding site [chemical binding]; other site 511062008512 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 511062008513 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 511062008514 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 511062008515 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 511062008516 active site 511062008517 homodimer interface [polypeptide binding]; other site 511062008518 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 511062008519 capsular polysaccharide assembling protein (CAPF) like, extended (e) SDRs; Region: CAPF_like_SDR_e; cd05261 511062008520 putative NAD(P) binding site [chemical binding]; other site 511062008521 active site 511062008522 putative substrate binding site [chemical binding]; other site 511062008523 dTDP-4-dehydrorhamnose 3,5-epimerase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfbC; COG1898 511062008524 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 511062008525 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 511062008526 NAD(P) binding site [chemical binding]; other site 511062008527 homodimer interface [polypeptide binding]; other site 511062008528 substrate binding site [chemical binding]; other site 511062008529 active site 511062008530 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 511062008531 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 511062008532 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 511062008533 active site 511062008534 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 511062008535 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_10; cd13125 511062008536 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 511062008537 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 511062008538 inhibitor-cofactor binding pocket; inhibition site 511062008539 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062008540 catalytic residue [active] 511062008541 WxcM-like, C-terminal; Region: FdtA; pfam05523 511062008542 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 511062008543 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 511062008544 substrate binding site; other site 511062008545 tetramer interface; other site 511062008546 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 511062008547 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 511062008548 NAD binding site [chemical binding]; other site 511062008549 substrate binding site [chemical binding]; other site 511062008550 homodimer interface [polypeptide binding]; other site 511062008551 active site 511062008552 Chain length determinant protein; Region: Wzz; pfam02706 511062008553 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 511062008554 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 511062008555 homodimer interaction site [polypeptide binding]; other site 511062008556 cofactor binding site; other site 511062008557 prolyl-tRNA synthetase; Provisional; Region: PRK09194 511062008558 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 511062008559 dimer interface [polypeptide binding]; other site 511062008560 motif 1; other site 511062008561 active site 511062008562 motif 2; other site 511062008563 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 511062008564 putative deacylase active site [active] 511062008565 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 511062008566 active site 511062008567 motif 3; other site 511062008568 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 511062008569 anticodon binding site; other site 511062008570 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 511062008571 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 511062008572 active site 511062008573 nucleophile elbow; other site 511062008574 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 511062008575 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 511062008576 Ligand Binding Site [chemical binding]; other site 511062008577 TilS substrate binding domain; Region: TilS; pfam09179 511062008578 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 511062008579 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 511062008580 Two component regulator propeller; Region: Reg_prop; pfam07494 511062008581 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 511062008582 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062008583 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062008584 metal binding site [ion binding]; metal-binding site 511062008585 active site 511062008586 I-site; other site 511062008587 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 511062008588 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 511062008589 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 511062008590 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 511062008591 putative active site [active] 511062008592 putative PHP Thumb interface [polypeptide binding]; other site 511062008593 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 511062008594 generic binding surface II; other site 511062008595 generic binding surface I; other site 511062008596 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 511062008597 RNA/DNA hybrid binding site [nucleotide binding]; other site 511062008598 active site 511062008599 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 511062008600 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 511062008601 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 511062008602 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 511062008603 active site 511062008604 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 511062008605 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 511062008606 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 511062008607 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 511062008608 trimer interface [polypeptide binding]; other site 511062008609 active site 511062008610 UDP-GlcNAc binding site [chemical binding]; other site 511062008611 lipid binding site [chemical binding]; lipid-binding site 511062008612 periplasmic chaperone; Provisional; Region: PRK10780 511062008613 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 511062008614 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 511062008615 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 511062008616 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 511062008617 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 511062008618 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 511062008619 Surface antigen; Region: Bac_surface_Ag; pfam01103 511062008620 zinc metallopeptidase RseP; Provisional; Region: PRK10779 511062008621 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 511062008622 active site 511062008623 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 511062008624 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 511062008625 protein binding site [polypeptide binding]; other site 511062008626 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 511062008627 putative substrate binding region [chemical binding]; other site 511062008628 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 511062008629 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 511062008630 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 511062008631 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 511062008632 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 511062008633 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 511062008634 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 511062008635 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 511062008636 catalytic residue [active] 511062008637 putative FPP diphosphate binding site; other site 511062008638 putative FPP binding hydrophobic cleft; other site 511062008639 dimer interface [polypeptide binding]; other site 511062008640 putative IPP diphosphate binding site; other site 511062008641 ribosome recycling factor; Reviewed; Region: frr; PRK00083 511062008642 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 511062008643 hinge region; other site 511062008644 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 511062008645 putative nucleotide binding site [chemical binding]; other site 511062008646 uridine monophosphate binding site [chemical binding]; other site 511062008647 homohexameric interface [polypeptide binding]; other site 511062008648 elongation factor Ts; Provisional; Region: tsf; PRK09377 511062008649 UBA/TS-N domain; Region: UBA; pfam00627 511062008650 Elongation factor TS; Region: EF_TS; pfam00889 511062008651 Elongation factor TS; Region: EF_TS; pfam00889 511062008652 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 511062008653 rRNA interaction site [nucleotide binding]; other site 511062008654 S8 interaction site; other site 511062008655 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 511062008656 active site 511062008657 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 511062008658 pseudouridine synthase; Region: TIGR00093 511062008659 active site 511062008660 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 511062008661 nudix motif; other site 511062008662 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 511062008663 tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase; Region: trmU; TIGR00420 511062008664 putative lysogenization regulator; Reviewed; Region: PRK00218 511062008665 adenylosuccinate lyase; Provisional; Region: PRK09285 511062008666 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 511062008667 tetramer interface [polypeptide binding]; other site 511062008668 active site 511062008669 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 511062008670 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 511062008671 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 511062008672 two-component response regulator; Provisional; Region: PRK11173 511062008673 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062008674 active site 511062008675 phosphorylation site [posttranslational modification] 511062008676 intermolecular recognition site; other site 511062008677 dimerization interface [polypeptide binding]; other site 511062008678 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 511062008679 DNA binding site [nucleotide binding] 511062008680 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 511062008681 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 511062008682 active site 511062008683 intersubunit interface [polypeptide binding]; other site 511062008684 zinc binding site [ion binding]; other site 511062008685 Na+ binding site [ion binding]; other site 511062008686 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 511062008687 Phosphoglycerate kinase; Region: PGK; pfam00162 511062008688 substrate binding site [chemical binding]; other site 511062008689 hinge regions; other site 511062008690 ADP binding site [chemical binding]; other site 511062008691 catalytic site [active] 511062008692 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 511062008693 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 511062008694 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 511062008695 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 511062008696 putative substrate translocation pore; other site 511062008697 Malate synthase G (MSG), monomeric enzyme present in some bacteria. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate...; Region: malate_synt_G; cd00728 511062008698 active site 511062008699 transcriptional regulator PhoU; Provisional; Region: PRK11115 511062008700 PhoU domain; Region: PhoU; pfam01895 511062008701 PhoU domain; Region: PhoU; pfam01895 511062008702 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 511062008703 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 511062008704 Walker A/P-loop; other site 511062008705 ATP binding site [chemical binding]; other site 511062008706 Q-loop/lid; other site 511062008707 ABC transporter signature motif; other site 511062008708 Walker B; other site 511062008709 D-loop; other site 511062008710 H-loop/switch region; other site 511062008711 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 511062008712 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 511062008713 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 511062008714 dimer interface [polypeptide binding]; other site 511062008715 conserved gate region; other site 511062008716 putative PBP binding loops; other site 511062008717 ABC-ATPase subunit interface; other site 511062008718 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 511062008719 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 511062008720 conserved gate region; other site 511062008721 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 511062008722 ABC-ATPase subunit interface; other site 511062008723 ACT domain; Region: ACT_6; pfam13740 511062008724 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 511062008725 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 511062008726 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 511062008727 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 511062008728 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 511062008729 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 511062008730 domain interface [polypeptide binding]; other site 511062008731 active site 511062008732 catalytic site [active] 511062008733 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 511062008734 domain interface [polypeptide binding]; other site 511062008735 active site 511062008736 catalytic site [active] 511062008737 exopolyphosphatase; Provisional; Region: PRK10854 511062008738 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 511062008739 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 511062008740 nucleoside/Zn binding site; other site 511062008741 dimer interface [polypeptide binding]; other site 511062008742 catalytic motif [active] 511062008743 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 511062008744 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 511062008745 Coenzyme A binding pocket [chemical binding]; other site 511062008746 PBP superfamily domain; Region: PBP_like_2; cl17296 511062008747 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 511062008748 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 511062008749 PAS domain; Region: PAS; smart00091 511062008750 putative active site [active] 511062008751 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 511062008752 dimer interface [polypeptide binding]; other site 511062008753 phosphorylation site [posttranslational modification] 511062008754 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 511062008755 ATP binding site [chemical binding]; other site 511062008756 Mg2+ binding site [ion binding]; other site 511062008757 G-X-G motif; other site 511062008758 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 511062008759 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062008760 active site 511062008761 phosphorylation site [posttranslational modification] 511062008762 intermolecular recognition site; other site 511062008763 dimerization interface [polypeptide binding]; other site 511062008764 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 511062008765 DNA binding site [nucleotide binding] 511062008766 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 511062008767 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 511062008768 Coenzyme A binding pocket [chemical binding]; other site 511062008769 recombination associated protein; Reviewed; Region: rdgC; PRK00321 511062008770 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 511062008771 putative protease; Provisional; Region: PRK15452 511062008772 Peptidase family U32; Region: Peptidase_U32; pfam01136 511062008773 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 511062008774 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 511062008775 putative substrate translocation pore; other site 511062008776 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 511062008777 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 511062008778 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 511062008779 active site 511062008780 dimerization interface [polypeptide binding]; other site 511062008781 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 511062008782 Chorismate mutase type II; Region: CM_2; cl00693 511062008783 prephenate dehydrogenase; Validated; Region: PRK08507 511062008784 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 511062008785 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 511062008786 VacJ like lipoprotein; Region: VacJ; cl01073 511062008787 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 511062008788 TPR motif; other site 511062008789 binding surface 511062008790 Tetratricopeptide repeat; Region: TPR_16; pfam13432 511062008791 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 511062008792 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 511062008793 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 511062008794 catalytic residues [active] 511062008795 central insert; other site 511062008796 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 511062008797 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 511062008798 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 511062008799 heme exporter protein CcmC; Region: ccmC; TIGR01191 511062008800 heme exporter protein CcmB; Region: ccmB; TIGR01190 511062008801 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 511062008802 Cytochrome c biogenesis ATP-binding export protein; Region: ABC_CcmA_heme_exporter; cd03231 511062008803 Walker A/P-loop; other site 511062008804 ATP binding site [chemical binding]; other site 511062008805 Q-loop/lid; other site 511062008806 ABC transporter signature motif; other site 511062008807 Walker B; other site 511062008808 D-loop; other site 511062008809 H-loop/switch region; other site 511062008810 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 511062008811 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 511062008812 putative CheA interaction surface; other site 511062008813 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 511062008814 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 511062008815 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 511062008816 Magnesium ion binding site [ion binding]; other site 511062008817 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 511062008818 Magnesium ion binding site [ion binding]; other site 511062008819 flagellar motor protein MotD; Reviewed; Region: PRK09038 511062008820 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 511062008821 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 511062008822 ligand binding site [chemical binding]; other site 511062008823 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 511062008824 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 511062008825 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062008826 active site 511062008827 phosphorylation site [posttranslational modification] 511062008828 intermolecular recognition site; other site 511062008829 dimerization interface [polypeptide binding]; other site 511062008830 CheB methylesterase; Region: CheB_methylest; pfam01339 511062008831 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 511062008832 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 511062008833 putative binding surface; other site 511062008834 active site 511062008835 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 511062008836 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 511062008837 ATP binding site [chemical binding]; other site 511062008838 Mg2+ binding site [ion binding]; other site 511062008839 G-X-G motif; other site 511062008840 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 511062008841 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 511062008842 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 511062008843 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062008844 active site 511062008845 phosphorylation site [posttranslational modification] 511062008846 intermolecular recognition site; other site 511062008847 dimerization interface [polypeptide binding]; other site 511062008848 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 511062008849 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 511062008850 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 511062008851 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 511062008852 DNA binding residues [nucleotide binding] 511062008853 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 511062008854 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 511062008855 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 511062008856 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 511062008857 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 511062008858 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 511062008859 FHIPEP family; Region: FHIPEP; pfam00771 511062008860 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 511062008861 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 511062008862 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 511062008863 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 511062008864 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 511062008865 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 511062008866 flagellar motor switch protein; Validated; Region: fliN; PRK08983 511062008867 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 511062008868 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 511062008869 Flagellar basal body-associated protein FliL; Region: FliL; cl00681 511062008870 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 511062008871 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 511062008872 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 511062008873 Walker A motif/ATP binding site; other site 511062008874 Walker B motif; other site 511062008875 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 511062008876 Flagellar assembly protein FliH; Region: FliH; pfam02108 511062008877 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 511062008878 MgtE intracellular N domain; Region: MgtE_N; cl15244 511062008879 FliG C-terminal domain; Region: FliG_C; pfam01706 511062008880 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 511062008881 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 511062008882 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 511062008883 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 511062008884 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 511062008885 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062008886 active site 511062008887 phosphorylation site [posttranslational modification] 511062008888 intermolecular recognition site; other site 511062008889 dimerization interface [polypeptide binding]; other site 511062008890 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 511062008891 Walker A motif; other site 511062008892 ATP binding site [chemical binding]; other site 511062008893 Walker B motif; other site 511062008894 arginine finger; other site 511062008895 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 511062008896 dimerization interface [polypeptide binding]; other site 511062008897 putative DNA binding site [nucleotide binding]; other site 511062008898 putative Zn2+ binding site [ion binding]; other site 511062008899 PAS domain; Region: PAS; smart00091 511062008900 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 511062008901 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 511062008902 dimer interface [polypeptide binding]; other site 511062008903 phosphorylation site [posttranslational modification] 511062008904 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 511062008905 ATP binding site [chemical binding]; other site 511062008906 Mg2+ binding site [ion binding]; other site 511062008907 G-X-G motif; other site 511062008908 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 511062008909 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 511062008910 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 511062008911 Walker A motif; other site 511062008912 ATP binding site [chemical binding]; other site 511062008913 Walker B motif; other site 511062008914 arginine finger; other site 511062008915 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 511062008916 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 511062008917 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 511062008918 NAD(P) binding site [chemical binding]; other site 511062008919 homodimer interface [polypeptide binding]; other site 511062008920 substrate binding site [chemical binding]; other site 511062008921 active site 511062008922 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 511062008923 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 511062008924 inhibitor-cofactor binding pocket; inhibition site 511062008925 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062008926 catalytic residue [active] 511062008927 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 511062008928 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 511062008929 active site 511062008930 homodimer interface [polypeptide binding]; other site 511062008931 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 511062008932 NeuB family; Region: NeuB; pfam03102 511062008933 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 511062008934 NeuB binding interface [polypeptide binding]; other site 511062008935 putative substrate binding site [chemical binding]; other site 511062008936 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 511062008937 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 511062008938 putative trimer interface [polypeptide binding]; other site 511062008939 putative CoA binding site [chemical binding]; other site 511062008940 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 511062008941 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 511062008942 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 511062008943 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 511062008944 binding surface 511062008945 TPR motif; other site 511062008946 Flagellar protein FliS; Region: FliS; cl00654 511062008947 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 511062008948 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 511062008949 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 511062008950 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 511062008951 FlaG protein; Region: FlaG; pfam03646 511062008952 flagellin; Provisional; Region: PRK12802 511062008953 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 511062008954 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 511062008955 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 511062008956 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 511062008957 nucleotide binding pocket [chemical binding]; other site 511062008958 K-X-D-G motif; other site 511062008959 catalytic site [active] 511062008960 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 511062008961 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 511062008962 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 511062008963 Dimer interface [polypeptide binding]; other site 511062008964 BRCT sequence motif; other site 511062008965 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 511062008966 FtsZ protein binding site [polypeptide binding]; other site 511062008967 putative sulfate transport protein CysZ; Validated; Region: PRK04949 511062008968 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 511062008969 Peptidase M15; Region: Peptidase_M15_3; cl01194 511062008970 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 511062008971 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 511062008972 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 511062008973 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 511062008974 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 511062008975 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 511062008976 dimer interface [polypeptide binding]; other site 511062008977 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062008978 catalytic residue [active] 511062008979 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 511062008980 HPr interaction site; other site 511062008981 glycerol kinase (GK) interaction site [polypeptide binding]; other site 511062008982 active site 511062008983 phosphorylation site [posttranslational modification] 511062008984 Transcriptional activator HlyU; Region: HlyU; pfam10115 511062008985 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 511062008986 Helicase; Region: Helicase_RecD; pfam05127 511062008987 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 511062008988 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 511062008989 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 511062008990 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 511062008991 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 511062008992 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 511062008993 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 511062008994 catalytic residue [active] 511062008995 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 511062008996 N-acetyl-D-glucosamine binding site [chemical binding]; other site 511062008997 catalytic residue [active] 511062008998 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 511062008999 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 511062009000 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 511062009001 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 511062009002 catalytic residue [active] 511062009003 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 511062009004 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 511062009005 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 511062009006 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 511062009007 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 511062009008 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 511062009009 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 511062009010 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 511062009011 Muramidase (flagellum-specific) [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlgJ; COG1705 511062009012 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 511062009013 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 511062009014 Flagellar L-ring protein; Region: FlgH; pfam02107 511062009015 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 511062009016 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 511062009017 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 511062009018 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 511062009019 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 511062009020 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 511062009021 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 511062009022 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 511062009023 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 511062009024 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 511062009025 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 511062009026 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 511062009027 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 511062009028 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 511062009029 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 511062009030 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK05680 511062009031 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 511062009032 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 511062009033 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 511062009034 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 511062009035 S-adenosylmethionine binding site [chemical binding]; other site 511062009036 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 511062009037 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 511062009038 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062009039 active site 511062009040 phosphorylation site [posttranslational modification] 511062009041 intermolecular recognition site; other site 511062009042 dimerization interface [polypeptide binding]; other site 511062009043 SAF-like; Region: SAF_2; pfam13144 511062009044 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 511062009045 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 511062009046 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 511062009047 FlgN protein; Region: FlgN; pfam05130 511062009048 LPP20 lipoprotein; Region: LPP20; cl15824 511062009049 Predicted integral membrane protein [Function unknown]; Region: COG5616 511062009050 short chain dehydrogenase; Provisional; Region: PRK05993 511062009051 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 511062009052 NADP binding site [chemical binding]; other site 511062009053 active site 511062009054 steroid binding site; other site 511062009055 TraB family; Region: TraB; pfam01963 511062009056 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 511062009057 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 511062009058 Smr domain; Region: Smr; pfam01713 511062009059 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 511062009060 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 511062009061 active site 511062009062 Zn binding site [ion binding]; other site 511062009063 Protein of unknown function, DUF393; Region: DUF393; pfam04134 511062009064 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 511062009065 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 511062009066 dimer interface [polypeptide binding]; other site 511062009067 active site 511062009068 CoA binding pocket [chemical binding]; other site 511062009069 Integrase core domain; Region: rve; pfam00665 511062009070 Integrase core domain; Region: rve_3; pfam13683 511062009071 Transposase; Region: HTH_Tnp_1; pfam01527 511062009072 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 511062009073 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 511062009074 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 511062009075 Protein export membrane protein; Region: SecD_SecF; cl14618 511062009076 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 511062009077 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 511062009078 HlyD family secretion protein; Region: HlyD_3; pfam13437 511062009079 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 511062009080 oxidoreductase; Validated; Region: PRK05717 511062009081 NAD(P) binding site [chemical binding]; other site 511062009082 active site 511062009083 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 511062009084 putative catalytic site [active] 511062009085 putative phosphate binding site [ion binding]; other site 511062009086 active site 511062009087 metal binding site A [ion binding]; metal-binding site 511062009088 DNA binding site [nucleotide binding] 511062009089 putative AP binding site [nucleotide binding]; other site 511062009090 putative metal binding site B [ion binding]; other site 511062009091 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 511062009092 dimer interface [polypeptide binding]; other site 511062009093 conserved gate region; other site 511062009094 putative PBP binding loops; other site 511062009095 ABC-ATPase subunit interface; other site 511062009096 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 511062009097 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 511062009098 dimer interface [polypeptide binding]; other site 511062009099 conserved gate region; other site 511062009100 putative PBP binding loops; other site 511062009101 ABC-ATPase subunit interface; other site 511062009102 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 511062009103 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 511062009104 substrate binding pocket [chemical binding]; other site 511062009105 membrane-bound complex binding site; other site 511062009106 hinge residues; other site 511062009107 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 511062009108 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062009109 Walker A/P-loop; other site 511062009110 ATP binding site [chemical binding]; other site 511062009111 Q-loop/lid; other site 511062009112 ABC transporter signature motif; other site 511062009113 Walker B; other site 511062009114 D-loop; other site 511062009115 H-loop/switch region; other site 511062009116 Predicted membrane protein [Function unknown]; Region: COG2431 511062009117 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 511062009118 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 511062009119 uncharacterized domain; Region: TIGR00702 511062009120 YcaO-like family; Region: YcaO; pfam02624 511062009121 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 511062009122 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 511062009123 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 511062009124 Predicted membrane protein [Function unknown]; Region: COG3235 511062009125 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 511062009126 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 511062009127 membrane-bound complex binding site; other site 511062009128 TRAP transporter, 4TM/12TM fusion protein; Region: TRAP_fused; TIGR02123 511062009129 DctM-like transporters; Region: DctM; pfam06808 511062009130 Domain of unknown function (DUF1850); Region: DUF1850; pfam08905 511062009131 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 511062009132 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 511062009133 dimer interface [polypeptide binding]; other site 511062009134 phosphorylation site [posttranslational modification] 511062009135 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 511062009136 ATP binding site [chemical binding]; other site 511062009137 Mg2+ binding site [ion binding]; other site 511062009138 G-X-G motif; other site 511062009139 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 511062009140 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062009141 active site 511062009142 phosphorylation site [posttranslational modification] 511062009143 intermolecular recognition site; other site 511062009144 dimerization interface [polypeptide binding]; other site 511062009145 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 511062009146 Walker A motif; other site 511062009147 ATP binding site [chemical binding]; other site 511062009148 Walker B motif; other site 511062009149 arginine finger; other site 511062009150 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 511062009151 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 511062009152 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 511062009153 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062009154 active site 511062009155 phosphorylation site [posttranslational modification] 511062009156 intermolecular recognition site; other site 511062009157 dimerization interface [polypeptide binding]; other site 511062009158 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 511062009159 DNA binding residues [nucleotide binding] 511062009160 dimerization interface [polypeptide binding]; other site 511062009161 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 511062009162 PAS domain; Region: PAS; smart00091 511062009163 PAS fold; Region: PAS_7; pfam12860 511062009164 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 511062009165 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 511062009166 dimer interface [polypeptide binding]; other site 511062009167 phosphorylation site [posttranslational modification] 511062009168 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 511062009169 ATP binding site [chemical binding]; other site 511062009170 Mg2+ binding site [ion binding]; other site 511062009171 G-X-G motif; other site 511062009172 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 511062009173 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062009174 active site 511062009175 phosphorylation site [posttranslational modification] 511062009176 intermolecular recognition site; other site 511062009177 dimerization interface [polypeptide binding]; other site 511062009178 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 511062009179 Protein of unknown function, DUF399; Region: DUF399; pfam04187 511062009180 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 511062009181 heme-binding site [chemical binding]; other site 511062009182 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062009183 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062009184 metal binding site [ion binding]; metal-binding site 511062009185 active site 511062009186 I-site; other site 511062009187 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 511062009188 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 511062009189 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 511062009190 putative active site [active] 511062009191 catalytic site [active] 511062009192 putative metal binding site [ion binding]; other site 511062009193 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 511062009194 ATP binding site [chemical binding]; other site 511062009195 Mg++ binding site [ion binding]; other site 511062009196 motif III; other site 511062009197 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 511062009198 nucleotide binding region [chemical binding]; other site 511062009199 ATP-binding site [chemical binding]; other site 511062009200 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 511062009201 Fasciclin domain; Region: Fasciclin; pfam02469 511062009202 Benzoate membrane transport protein; Region: BenE; pfam03594 511062009203 benzoate transporter; Region: benE; TIGR00843 511062009204 FOG: CBS domain [General function prediction only]; Region: COG0517 511062009205 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 511062009206 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 511062009207 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 511062009208 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 511062009209 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 511062009210 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 511062009211 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 511062009212 dimerization interface [polypeptide binding]; other site 511062009213 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 511062009214 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062009215 dimer interface [polypeptide binding]; other site 511062009216 putative CheW interface [polypeptide binding]; other site 511062009217 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 511062009218 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 511062009219 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 511062009220 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 511062009221 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 511062009222 ABC transporter; Region: ABC_tran_2; pfam12848 511062009223 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 511062009224 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 511062009225 AzlC protein; Region: AzlC; cl00570 511062009226 Predicted membrane protein [Function unknown]; Region: COG4541 511062009227 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 511062009228 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062009229 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062009230 The C-terminal substrate-binding domain of putative LysR-type transcriptional regulator PAO1-like, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_PAO1_like; cd08412 511062009231 putative substrate binding pocket [chemical binding]; other site 511062009232 dimerization interface [polypeptide binding]; other site 511062009233 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 511062009234 active site 511062009235 Zn binding site [ion binding]; other site 511062009236 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 511062009237 Predicted permease [General function prediction only]; Region: COG2056 511062009238 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 511062009239 Domain of unknown function (DUF4202); Region: DUF4202; pfam13875 511062009240 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 511062009241 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 511062009242 heme-binding site [chemical binding]; other site 511062009243 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 511062009244 FAD binding pocket [chemical binding]; other site 511062009245 FAD binding motif [chemical binding]; other site 511062009246 phosphate binding motif [ion binding]; other site 511062009247 beta-alpha-beta structure motif; other site 511062009248 NAD binding pocket [chemical binding]; other site 511062009249 Heme binding pocket [chemical binding]; other site 511062009250 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 511062009251 Predicted small secreted protein [Function unknown]; Region: COG5510 511062009252 Protein of unknown function (DUF3365); Region: DUF3365; pfam11845 511062009253 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062009254 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062009255 metal binding site [ion binding]; metal-binding site 511062009256 active site 511062009257 I-site; other site 511062009258 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 511062009259 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 511062009260 N-acetyl-D-glucosamine binding site [chemical binding]; other site 511062009261 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 511062009262 Flagellar motor protein [Cell motility and secretion]; Region: MotB; COG1360 511062009263 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 511062009264 ligand binding site [chemical binding]; other site 511062009265 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 511062009266 flagellar motor stator protein MotA; Region: MotA1; TIGR03818 511062009267 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 511062009268 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 511062009269 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 511062009270 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 511062009271 DNA binding residues [nucleotide binding] 511062009272 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 511062009273 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 511062009274 Flagellar protein FliS; Region: FliS; cl00654 511062009275 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 511062009276 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 511062009277 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 511062009278 flagellin; Provisional; Region: PRK12802 511062009279 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 511062009280 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 511062009281 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 511062009282 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 511062009283 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 511062009284 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 511062009285 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 511062009286 Rod binding protein; Region: Rod-binding; cl01626 511062009287 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 511062009288 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 511062009289 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12407 511062009290 Flagellar L-ring protein; Region: FlgH; pfam02107 511062009291 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 511062009292 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 511062009293 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 511062009294 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 511062009295 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 511062009296 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 511062009297 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 511062009298 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 511062009299 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 511062009300 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 511062009301 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 511062009302 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 511062009303 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 511062009304 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 511062009305 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 511062009306 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 511062009307 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 511062009308 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 511062009309 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK12685 511062009310 Domains similar to fish antifreeze type III protein; Region: SAF; cl00555 511062009311 SAF-like; Region: SAF_2; pfam13144 511062009312 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 511062009313 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 511062009314 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 511062009315 Walker A motif; other site 511062009316 ATP binding site [chemical binding]; other site 511062009317 Walker B motif; other site 511062009318 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 511062009319 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 511062009320 Flagellar assembly protein FliH; Region: FliH; pfam02108 511062009321 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 511062009322 FliG C-terminal domain; Region: FliG_C; pfam01706 511062009323 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 511062009324 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 511062009325 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 511062009326 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 511062009327 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 511062009328 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062009329 active site 511062009330 phosphorylation site [posttranslational modification] 511062009331 intermolecular recognition site; other site 511062009332 dimerization interface [polypeptide binding]; other site 511062009333 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 511062009334 Walker A motif; other site 511062009335 ATP binding site [chemical binding]; other site 511062009336 Walker B motif; other site 511062009337 arginine finger; other site 511062009338 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 511062009339 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 511062009340 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 511062009341 ligand binding site [chemical binding]; other site 511062009342 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 511062009343 FHIPEP family; Region: FHIPEP; pfam00771 511062009344 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 511062009345 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 511062009346 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 511062009347 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 511062009348 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 511062009349 flagellar motor switch protein FliN; Region: fliN; TIGR02480 511062009350 Surface presentation of antigens (SPOA); Region: SpoA; cl00819 511062009351 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 511062009352 Chromate transporter; Region: Chromate_transp; pfam02417 511062009353 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 511062009354 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 511062009355 ATP-grasp domain; Region: ATP-grasp; pfam02222 511062009356 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 511062009357 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 511062009358 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 511062009359 metal-binding site [ion binding] 511062009360 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 511062009361 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 511062009362 motif II; other site 511062009363 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 511062009364 metal-binding site [ion binding] 511062009365 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 511062009366 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 511062009367 inhibitor-cofactor binding pocket; inhibition site 511062009368 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062009369 catalytic residue [active] 511062009370 succinic semialdehyde dehydrogenase; Region: PLN02278 511062009371 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 511062009372 tetramerization interface [polypeptide binding]; other site 511062009373 NAD(P) binding site [chemical binding]; other site 511062009374 catalytic residues [active] 511062009375 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062009376 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062009377 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 511062009378 dimerization interface [polypeptide binding]; other site 511062009379 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 511062009380 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 511062009381 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 511062009382 DctM-like transporters; Region: DctM; pfam06808 511062009383 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 511062009384 Ligand Binding Site [chemical binding]; other site 511062009385 putative uracil/xanthine transporter; Provisional; Region: PRK11412 511062009386 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 511062009387 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 511062009388 DNA binding residues [nucleotide binding] 511062009389 dimer interface [polypeptide binding]; other site 511062009390 metal binding site [ion binding]; metal-binding site 511062009391 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 511062009392 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 511062009393 purine monophosphate binding site [chemical binding]; other site 511062009394 dimer interface [polypeptide binding]; other site 511062009395 putative catalytic residues [active] 511062009396 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 511062009397 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 511062009398 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 511062009399 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 511062009400 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 511062009401 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 511062009402 putative active site [active] 511062009403 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 511062009404 IHF dimer interface [polypeptide binding]; other site 511062009405 IHF - DNA interface [nucleotide binding]; other site 511062009406 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 511062009407 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 511062009408 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 511062009409 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 511062009410 N-terminal plug; other site 511062009411 ligand-binding site [chemical binding]; other site 511062009412 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062009413 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062009414 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 511062009415 dimerization interface [polypeptide binding]; other site 511062009416 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 511062009417 putative substrate translocation pore; other site 511062009418 Major Facilitator Superfamily; Region: MFS_1; pfam07690 511062009419 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 511062009420 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 511062009421 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 511062009422 NAD(P) binding site [chemical binding]; other site 511062009423 catalytic residues [active] 511062009424 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 511062009425 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 511062009426 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 511062009427 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 511062009428 inhibitor-cofactor binding pocket; inhibition site 511062009429 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062009430 catalytic residue [active] 511062009431 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 511062009432 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 511062009433 glutamine binding [chemical binding]; other site 511062009434 catalytic triad [active] 511062009435 MASE1; Region: MASE1; cl17823 511062009436 CHASE domain; Region: CHASE; pfam03924 511062009437 PAS domain S-box; Region: sensory_box; TIGR00229 511062009438 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 511062009439 putative active site [active] 511062009440 heme pocket [chemical binding]; other site 511062009441 PAS domain S-box; Region: sensory_box; TIGR00229 511062009442 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 511062009443 putative active site [active] 511062009444 heme pocket [chemical binding]; other site 511062009445 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 511062009446 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 511062009447 putative active site [active] 511062009448 heme pocket [chemical binding]; other site 511062009449 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 511062009450 dimer interface [polypeptide binding]; other site 511062009451 phosphorylation site [posttranslational modification] 511062009452 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 511062009453 ATP binding site [chemical binding]; other site 511062009454 Mg2+ binding site [ion binding]; other site 511062009455 G-X-G motif; other site 511062009456 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 511062009457 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062009458 active site 511062009459 phosphorylation site [posttranslational modification] 511062009460 intermolecular recognition site; other site 511062009461 dimerization interface [polypeptide binding]; other site 511062009462 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 511062009463 putative binding surface; other site 511062009464 active site 511062009465 Response regulator receiver domain; Region: Response_reg; pfam00072 511062009466 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062009467 active site 511062009468 phosphorylation site [posttranslational modification] 511062009469 intermolecular recognition site; other site 511062009470 dimerization interface [polypeptide binding]; other site 511062009471 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 511062009472 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 511062009473 GAF domain; Region: GAF; pfam01590 511062009474 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 511062009475 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062009476 metal binding site [ion binding]; metal-binding site 511062009477 active site 511062009478 I-site; other site 511062009479 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 511062009480 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 511062009481 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 511062009482 HlyD family secretion protein; Region: HlyD_3; pfam13437 511062009483 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 511062009484 non-specific DNA interactions [nucleotide binding]; other site 511062009485 DNA binding site [nucleotide binding] 511062009486 sequence specific DNA binding site [nucleotide binding]; other site 511062009487 putative cAMP binding site [chemical binding]; other site 511062009488 Protein of unknown function (DUF2914); Region: DUF2914; pfam11141 511062009489 Predicted ATPase [General function prediction only]; Region: COG1485 511062009490 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062009491 Walker A/P-loop; other site 511062009492 ATP binding site [chemical binding]; other site 511062009493 Q-loop/lid; other site 511062009494 ABC transporter signature motif; other site 511062009495 Walker B; other site 511062009496 D-loop; other site 511062009497 H-loop/switch region; other site 511062009498 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 511062009499 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062009500 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 511062009501 dimerization interface [polypeptide binding]; other site 511062009502 FAD binding domain; Region: FAD_binding_4; pfam01565 511062009503 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 511062009504 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 511062009505 NADP+-dependent p-hydroxybenzaldehyde dehydrogenase-like; Region: ALDH_HBenzADH; cd07151 511062009506 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 511062009507 NAD(P) binding site [chemical binding]; other site 511062009508 catalytic residues [active] 511062009509 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 511062009510 TAP-like protein; Region: Abhydrolase_4; pfam08386 511062009511 4-carboxymuconolactone decarboxylase; Region: decarb_PcaC; TIGR02425 511062009512 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 511062009513 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 511062009514 active site 511062009515 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 511062009516 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 511062009517 heterodimer interface [polypeptide binding]; other site 511062009518 active site 511062009519 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 511062009520 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 511062009521 tetramer interface [polypeptide binding]; other site 511062009522 active site 511062009523 Membrane transport protein; Region: Mem_trans; cl09117 511062009524 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 511062009525 4-hydroxyphenylacetate catabolism regulatory protein HpaA; Region: HpaA; TIGR02297 511062009526 Cupin domain; Region: Cupin_2; cl17218 511062009527 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 511062009528 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 511062009529 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 511062009530 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062009531 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062009532 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 511062009533 dimerization interface [polypeptide binding]; other site 511062009534 substrate binding pocket [chemical binding]; other site 511062009535 Protein of unknown function (DUF3311); Region: DUF3311; pfam11755 511062009536 Solute carrier 5 family, sodium/glucose transporters and related proteins; solute-binding domain; Region: SLC5sbd; cd10322 511062009537 Na binding site [ion binding]; other site 511062009538 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 511062009539 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 511062009540 metal binding site [ion binding]; metal-binding site 511062009541 putative dimer interface [polypeptide binding]; other site 511062009542 cellulose synthase subunit BcsC; Provisional; Region: PRK11447 511062009543 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 511062009544 binding surface 511062009545 TPR motif; other site 511062009546 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 511062009547 binding surface 511062009548 TPR motif; other site 511062009549 Cellulose synthase operon protein C C-terminus (BCSC_C); Region: BCSC_C; pfam05420 511062009550 endo-1,4-D-glucanase; Provisional; Region: PRK11097 511062009551 cellulose synthase regulator protein; Provisional; Region: PRK11114 511062009552 cellulose synthase catalytic subunit (UDP-forming); Region: CelA; TIGR03030 511062009553 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 511062009554 DXD motif; other site 511062009555 PilZ domain; Region: PilZ; pfam07238 511062009556 YhjQ protein; Region: YhjQ; pfam06564 511062009557 Protein of unknown function (DUF2629); Region: DUF2629; pfam10945 511062009558 Protein of unknown function (DUF3260); Region: DUF3260; cl11881 511062009559 Protein of unknown function (DUF2819); Region: DUF2819; cl17862 511062009560 transcriptional regulator protein; Region: phnR; TIGR03337 511062009561 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 511062009562 DNA-binding site [nucleotide binding]; DNA binding site 511062009563 UTRA domain; Region: UTRA; pfam07702 511062009564 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 511062009565 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 511062009566 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 511062009567 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 511062009568 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 511062009569 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 511062009570 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 511062009571 dimer interface [polypeptide binding]; other site 511062009572 putative PBP binding loops; other site 511062009573 ABC-ATPase subunit interface; other site 511062009574 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 511062009575 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062009576 Walker A/P-loop; other site 511062009577 ATP binding site [chemical binding]; other site 511062009578 Q-loop/lid; other site 511062009579 ABC transporter signature motif; other site 511062009580 Walker B; other site 511062009581 D-loop; other site 511062009582 H-loop/switch region; other site 511062009583 TOBE domain; Region: TOBE_2; pfam08402 511062009584 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 511062009585 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 511062009586 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 511062009587 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 511062009588 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 511062009589 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 511062009590 Isochorismatase family; Region: Isochorismatase; pfam00857 511062009591 catalytic triad [active] 511062009592 metal binding site [ion binding]; metal-binding site 511062009593 conserved cis-peptide bond; other site 511062009594 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 511062009595 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 511062009596 active site 511062009597 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 511062009598 cofactor binding site; other site 511062009599 metal binding site [ion binding]; metal-binding site 511062009600 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 511062009601 aromatic arch; other site 511062009602 DCoH dimer interaction site [polypeptide binding]; other site 511062009603 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 511062009604 DCoH tetramer interaction site [polypeptide binding]; other site 511062009605 substrate binding site [chemical binding]; other site 511062009606 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 511062009607 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 511062009608 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 511062009609 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 511062009610 NAD(P) binding site [chemical binding]; other site 511062009611 catalytic residues [active] 511062009612 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 511062009613 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 511062009614 non-specific DNA binding site [nucleotide binding]; other site 511062009615 salt bridge; other site 511062009616 sequence-specific DNA binding site [nucleotide binding]; other site 511062009617 Cupin domain; Region: Cupin_2; pfam07883 511062009618 gamma-glutamyl-gamma-aminobutyrate hydrolase; Provisional; Region: puuD; PRK11366 511062009619 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 511062009620 catalytic triad [active] 511062009621 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 511062009622 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 511062009623 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 511062009624 Response regulator receiver domain; Region: Response_reg; pfam00072 511062009625 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062009626 active site 511062009627 phosphorylation site [posttranslational modification] 511062009628 intermolecular recognition site; other site 511062009629 dimerization interface [polypeptide binding]; other site 511062009630 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 511062009631 metal binding site [ion binding]; metal-binding site 511062009632 active site 511062009633 I-site; other site 511062009634 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 511062009635 GAF domain; Region: GAF; pfam01590 511062009636 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 511062009637 PAS domain S-box; Region: sensory_box; TIGR00229 511062009638 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 511062009639 putative active site [active] 511062009640 heme pocket [chemical binding]; other site 511062009641 GAF domain; Region: GAF_2; pfam13185 511062009642 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 511062009643 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 511062009644 dimer interface [polypeptide binding]; other site 511062009645 phosphorylation site [posttranslational modification] 511062009646 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 511062009647 ATP binding site [chemical binding]; other site 511062009648 Mg2+ binding site [ion binding]; other site 511062009649 G-X-G motif; other site 511062009650 Response regulator receiver domain; Region: Response_reg; pfam00072 511062009651 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062009652 active site 511062009653 phosphorylation site [posttranslational modification] 511062009654 intermolecular recognition site; other site 511062009655 dimerization interface [polypeptide binding]; other site 511062009656 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 511062009657 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 511062009658 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 511062009659 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 511062009660 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 511062009661 dimer interface [polypeptide binding]; other site 511062009662 phosphorylation site [posttranslational modification] 511062009663 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 511062009664 ATP binding site [chemical binding]; other site 511062009665 Mg2+ binding site [ion binding]; other site 511062009666 G-X-G motif; other site 511062009667 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 511062009668 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062009669 active site 511062009670 phosphorylation site [posttranslational modification] 511062009671 intermolecular recognition site; other site 511062009672 dimerization interface [polypeptide binding]; other site 511062009673 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 511062009674 Walker A motif; other site 511062009675 ATP binding site [chemical binding]; other site 511062009676 Walker B motif; other site 511062009677 arginine finger; other site 511062009678 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 511062009679 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 511062009680 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 511062009681 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 511062009682 dimerization interface [polypeptide binding]; other site 511062009683 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 511062009684 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062009685 dimer interface [polypeptide binding]; other site 511062009686 putative CheW interface [polypeptide binding]; other site 511062009687 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 511062009688 Na2 binding site [ion binding]; other site 511062009689 putative substrate binding site 1 [chemical binding]; other site 511062009690 Na binding site 1 [ion binding]; other site 511062009691 putative substrate binding site 2 [chemical binding]; other site 511062009692 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 511062009693 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 511062009694 dimer interface [polypeptide binding]; other site 511062009695 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 511062009696 active site 511062009697 Fe binding site [ion binding]; other site 511062009698 UvrD/REP helicase N-terminal domain; Region: UvrD-helicase; pfam00580 511062009699 Family description; Region: UvrD_C_2; pfam13538 511062009700 putative DNA binding site [nucleotide binding]; other site 511062009701 putative Zn2+ binding site [ion binding]; other site 511062009702 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 511062009703 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 511062009704 AsnC family; Region: AsnC_trans_reg; pfam01037 511062009705 putative transporter; Provisional; Region: PRK11021 511062009706 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 511062009707 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 511062009708 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 511062009709 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 511062009710 Walker A/P-loop; other site 511062009711 ATP binding site [chemical binding]; other site 511062009712 Q-loop/lid; other site 511062009713 ABC transporter signature motif; other site 511062009714 Walker B; other site 511062009715 D-loop; other site 511062009716 H-loop/switch region; other site 511062009717 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 511062009718 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 511062009719 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 511062009720 HipA-like N-terminal domain; Region: HipA_N; pfam07805 511062009721 HipA-like C-terminal domain; Region: HipA_C; pfam07804 511062009722 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 511062009723 non-specific DNA binding site [nucleotide binding]; other site 511062009724 salt bridge; other site 511062009725 sequence-specific DNA binding site [nucleotide binding]; other site 511062009726 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 511062009727 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 511062009728 active site 511062009729 Cytochrome P450; Region: p450; pfam00067 511062009730 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 511062009731 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 511062009732 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 511062009733 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 511062009734 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 511062009735 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 511062009736 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 511062009737 ABC-2 type transporter; Region: ABC2_membrane; cl17235 511062009738 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 511062009739 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 511062009740 Walker A/P-loop; other site 511062009741 ATP binding site [chemical binding]; other site 511062009742 Q-loop/lid; other site 511062009743 ABC transporter signature motif; other site 511062009744 Walker B; other site 511062009745 D-loop; other site 511062009746 H-loop/switch region; other site 511062009747 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 511062009748 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 511062009749 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 511062009750 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 511062009751 Substrate binding site; other site 511062009752 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 511062009753 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 511062009754 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 511062009755 Sulfotransferase family; Region: Sulfotransfer_2; pfam03567 511062009756 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 511062009757 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 511062009758 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 511062009759 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 511062009760 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 511062009761 active site 511062009762 phosphate binding residues; other site 511062009763 catalytic residues [active] 511062009764 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 511062009765 acyl-activating enzyme (AAE) consensus motif; other site 511062009766 active site 511062009767 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 511062009768 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 511062009769 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 511062009770 ManB is a bacterial phosphomannomutase (PMM) that catalyzes the conversion of mannose 6-phosphate to mannose-1-phosphate in the second of three steps in the GDP-mannose pathway, in which GDP-D-mannose is synthesized from fructose-6-phosphate. In...; Region: ManB; cd03088 511062009771 active site 511062009772 substrate binding site [chemical binding]; other site 511062009773 metal binding site [ion binding]; metal-binding site 511062009774 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 511062009775 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 511062009776 Probable Catalytic site; other site 511062009777 metal-binding site 511062009778 Glycosyl transferases group 1; Region: Glyco_trans_1_4; pfam13692 511062009779 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 511062009780 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 511062009781 NAD binding site [chemical binding]; other site 511062009782 substrate binding site [chemical binding]; other site 511062009783 homodimer interface [polypeptide binding]; other site 511062009784 active site 511062009785 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 511062009786 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 511062009787 NADP binding site [chemical binding]; other site 511062009788 active site 511062009789 putative substrate binding site [chemical binding]; other site 511062009790 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 511062009791 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 511062009792 substrate binding site; other site 511062009793 tetramer interface; other site 511062009794 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 511062009795 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 511062009796 TrkA-C domain; Region: TrkA_C; pfam02080 511062009797 TrkA-C domain; Region: TrkA_C; pfam02080 511062009798 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 511062009799 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 511062009800 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 511062009801 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 511062009802 Active Sites [active] 511062009803 four helix bundle protein; Region: TIGR02436 511062009804 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 511062009805 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional; Region: PRK05506 511062009806 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 511062009807 CysD dimerization site [polypeptide binding]; other site 511062009808 G1 box; other site 511062009809 putative GEF interaction site [polypeptide binding]; other site 511062009810 GTP/Mg2+ binding site [chemical binding]; other site 511062009811 Switch I region; other site 511062009812 G2 box; other site 511062009813 G3 box; other site 511062009814 Switch II region; other site 511062009815 G4 box; other site 511062009816 G5 box; other site 511062009817 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 511062009818 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 511062009819 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 511062009820 ligand-binding site [chemical binding]; other site 511062009821 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 511062009822 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 511062009823 active site 511062009824 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsC; COG3563 511062009825 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 511062009826 S-formylglutathione hydrolase; Region: PLN02442 511062009827 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 511062009828 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 511062009829 substrate binding site [chemical binding]; other site 511062009830 catalytic Zn binding site [ion binding]; other site 511062009831 NAD binding site [chemical binding]; other site 511062009832 structural Zn binding site [ion binding]; other site 511062009833 dimer interface [polypeptide binding]; other site 511062009834 Transcriptional regulator [Transcription]; Region: LysR; COG0583 511062009835 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062009836 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 511062009837 dimerization interface [polypeptide binding]; other site 511062009838 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 511062009839 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 511062009840 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 511062009841 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 511062009842 heme binding site [chemical binding]; other site 511062009843 ferroxidase pore; other site 511062009844 ferroxidase diiron center [ion binding]; other site 511062009845 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 511062009846 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 511062009847 heme binding site [chemical binding]; other site 511062009848 ferroxidase pore; other site 511062009849 ferroxidase diiron center [ion binding]; other site 511062009850 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 511062009851 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 511062009852 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062009853 Walker A/P-loop; other site 511062009854 ATP binding site [chemical binding]; other site 511062009855 Q-loop/lid; other site 511062009856 ABC transporter signature motif; other site 511062009857 Walker B; other site 511062009858 D-loop; other site 511062009859 H-loop/switch region; other site 511062009860 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 511062009861 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 511062009862 MarR family; Region: MarR_2; pfam12802 511062009863 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 511062009864 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 511062009865 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 511062009866 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 511062009867 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 511062009868 acyl-activating enzyme (AAE) consensus motif; other site 511062009869 putative AMP binding site [chemical binding]; other site 511062009870 putative active site [active] 511062009871 putative CoA binding site [chemical binding]; other site 511062009872 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 511062009873 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 511062009874 active site 511062009875 HIGH motif; other site 511062009876 dimer interface [polypeptide binding]; other site 511062009877 KMSKS motif; other site 511062009878 phosphoglycolate phosphatase; Provisional; Region: PRK13222 511062009879 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 511062009880 motif II; other site 511062009881 HAD-hyrolase-like; Region: Hydrolase_like; pfam13242 511062009882 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 511062009883 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 511062009884 substrate binding site [chemical binding]; other site 511062009885 hexamer interface [polypeptide binding]; other site 511062009886 metal binding site [ion binding]; metal-binding site 511062009887 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 511062009888 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 511062009889 AAA domain; Region: AAA_22; pfam13401 511062009890 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; cd02019 511062009891 active site 511062009892 cell division protein DamX; Validated; Region: PRK10905 511062009893 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 511062009894 active site 511062009895 dimer interface [polypeptide binding]; other site 511062009896 metal binding site [ion binding]; metal-binding site 511062009897 shikimate kinase; Reviewed; Region: aroK; PRK00131 511062009898 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 511062009899 ADP binding site [chemical binding]; other site 511062009900 magnesium binding site [ion binding]; other site 511062009901 putative shikimate binding site; other site 511062009902 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 511062009903 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 511062009904 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 511062009905 Pilus assembly protein, PilP; Region: PilP; pfam04351 511062009906 Pilus assembly protein, PilO; Region: PilO; pfam04350 511062009907 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 511062009908 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 511062009909 Cell division protein FtsA; Region: FtsA; cl17206 511062009910 Competence protein A; Region: Competence_A; pfam11104 511062009911 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 511062009912 Transglycosylase; Region: Transgly; pfam00912 511062009913 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 511062009914 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 511062009915 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062009916 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 511062009917 dimerization interface [polypeptide binding]; other site 511062009918 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 511062009919 catalytic triad [active] 511062009920 dimer interface [polypeptide binding]; other site 511062009921 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 511062009922 Protein of unknown function (DUF465); Region: DUF465; cl01070 511062009923 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 511062009924 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 511062009925 FMN binding site [chemical binding]; other site 511062009926 active site 511062009927 catalytic residues [active] 511062009928 substrate binding site [chemical binding]; other site 511062009929 Uncharacterized protein family (UPF0150); Region: UPF0150; cl00691 511062009930 YcfA-like protein; Region: YcfA; pfam07927 511062009931 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 511062009932 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 511062009933 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 511062009934 metal binding site 2 [ion binding]; metal-binding site 511062009935 putative DNA binding helix; other site 511062009936 metal binding site 1 [ion binding]; metal-binding site 511062009937 dimer interface [polypeptide binding]; other site 511062009938 structural Zn2+ binding site [ion binding]; other site 511062009939 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 511062009940 Sodium Bile acid symporter family; Region: SBF; cl17470 511062009941 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 511062009942 alanine racemase; Reviewed; Region: alr; PRK00053 511062009943 active site 511062009944 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 511062009945 substrate binding site [chemical binding]; other site 511062009946 catalytic residues [active] 511062009947 dimer interface [polypeptide binding]; other site 511062009948 replicative DNA helicase; Provisional; Region: PRK08006 511062009949 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 511062009950 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 511062009951 Walker A motif; other site 511062009952 ATP binding site [chemical binding]; other site 511062009953 Walker B motif; other site 511062009954 DNA binding loops [nucleotide binding] 511062009955 Tim44-like domain; Region: Tim44; pfam04280 511062009956 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 511062009957 oxaloacetate decarboxylase; Provisional; Region: PRK14040 511062009958 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 511062009959 active site 511062009960 catalytic residues [active] 511062009961 metal binding site [ion binding]; metal-binding site 511062009962 homodimer binding site [polypeptide binding]; other site 511062009963 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 511062009964 carboxyltransferase (CT) interaction site; other site 511062009965 biotinylation site [posttranslational modification]; other site 511062009966 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK03814 511062009967 carbon storage regulator; Provisional; Region: PRK01712 511062009968 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 511062009969 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 511062009970 motif 1; other site 511062009971 active site 511062009972 motif 2; other site 511062009973 motif 3; other site 511062009974 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 511062009975 DHHA1 domain; Region: DHHA1; pfam02272 511062009976 RecX family; Region: RecX; pfam02631 511062009977 recombinase A; Provisional; Region: recA; PRK09354 511062009978 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 511062009979 hexamer interface [polypeptide binding]; other site 511062009980 Walker A motif; other site 511062009981 ATP binding site [chemical binding]; other site 511062009982 Walker B motif; other site 511062009983 Competence-damaged protein; Region: CinA; pfam02464 511062009984 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 511062009985 MutS domain I; Region: MutS_I; pfam01624 511062009986 MutS domain II; Region: MutS_II; pfam05188 511062009987 MutS domain III; Region: MutS_III; pfam05192 511062009988 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 511062009989 Walker A/P-loop; other site 511062009990 ATP binding site [chemical binding]; other site 511062009991 Q-loop/lid; other site 511062009992 ABC transporter signature motif; other site 511062009993 Walker B; other site 511062009994 D-loop; other site 511062009995 H-loop/switch region; other site 511062009996 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 511062009997 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 511062009998 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 511062009999 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 511062010000 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 511062010001 DNA binding residues [nucleotide binding] 511062010002 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 511062010003 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 511062010004 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 511062010005 Peptidase family M23; Region: Peptidase_M23; pfam01551 511062010006 Predicted membrane protein [Function unknown]; Region: COG1238 511062010007 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 511062010008 Methyltransferase domain; Region: Methyltransf_18; pfam12847 511062010009 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 511062010010 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 511062010011 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 511062010012 Permutation of conserved domain; other site 511062010013 active site 511062010014 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 511062010015 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 511062010016 homotrimer interaction site [polypeptide binding]; other site 511062010017 zinc binding site [ion binding]; other site 511062010018 CDP-binding sites; other site 511062010019 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 511062010020 substrate binding site; other site 511062010021 dimer interface; other site 511062010022 Septum formation initiator; Region: DivIC; cl17659 511062010023 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 511062010024 enolase; Provisional; Region: eno; PRK00077 511062010025 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 511062010026 dimer interface [polypeptide binding]; other site 511062010027 metal binding site [ion binding]; metal-binding site 511062010028 substrate binding pocket [chemical binding]; other site 511062010029 CTP synthetase; Validated; Region: pyrG; PRK05380 511062010030 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 511062010031 Catalytic site [active] 511062010032 active site 511062010033 UTP binding site [chemical binding]; other site 511062010034 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 511062010035 active site 511062010036 putative oxyanion hole; other site 511062010037 catalytic triad [active] 511062010038 Putative transcription activator [Transcription]; Region: TenA; COG0819 511062010039 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 511062010040 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 511062010041 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 511062010042 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 511062010043 Ligand binding site [chemical binding]; other site 511062010044 Electron transfer flavoprotein domain; Region: ETF; pfam01012 511062010045 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 511062010046 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 511062010047 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 511062010048 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 511062010049 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 511062010050 NAD(P) binding site [chemical binding]; other site 511062010051 active site 511062010052 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 511062010053 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 511062010054 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 511062010055 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 511062010056 substrate binding site [chemical binding]; other site 511062010057 oxyanion hole (OAH) forming residues; other site 511062010058 trimer interface [polypeptide binding]; other site 511062010059 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 511062010060 enoyl-CoA hydratase; Provisional; Region: PRK09076 511062010061 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 511062010062 substrate binding site [chemical binding]; other site 511062010063 oxyanion hole (OAH) forming residues; other site 511062010064 trimer interface [polypeptide binding]; other site 511062010065 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 511062010066 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 511062010067 active site 511062010068 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 511062010069 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 511062010070 tetrameric interface [polypeptide binding]; other site 511062010071 NAD binding site [chemical binding]; other site 511062010072 catalytic residues [active] 511062010073 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 511062010074 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 511062010075 dimer interface [polypeptide binding]; other site 511062010076 active site 511062010077 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 511062010078 isovaleryl-CoA dehydrogenase; Region: PLN02519 511062010079 substrate binding site [chemical binding]; other site 511062010080 FAD binding site [chemical binding]; other site 511062010081 catalytic base [active] 511062010082 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 511062010083 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 511062010084 enoyl-CoA hydratase; Provisional; Region: PRK05995 511062010085 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 511062010086 substrate binding site [chemical binding]; other site 511062010087 oxyanion hole (OAH) forming residues; other site 511062010088 trimer interface [polypeptide binding]; other site 511062010089 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 511062010090 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 511062010091 ATP-grasp domain; Region: ATP-grasp_4; cl17255 511062010092 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 511062010093 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 511062010094 carboxyltransferase (CT) interaction site; other site 511062010095 biotinylation site [posttranslational modification]; other site 511062010096 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 511062010097 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 511062010098 active site 511062010099 catalytic residues [active] 511062010100 metal binding site [ion binding]; metal-binding site 511062010101 malate dehydrogenase; Provisional; Region: PRK05086 511062010102 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 511062010103 NAD binding site [chemical binding]; other site 511062010104 dimerization interface [polypeptide binding]; other site 511062010105 Substrate binding site [chemical binding]; other site 511062010106 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 511062010107 dimer interface [polypeptide binding]; other site 511062010108 conserved gate region; other site 511062010109 putative PBP binding loops; other site 511062010110 ABC-ATPase subunit interface; other site 511062010111 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 511062010112 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 511062010113 dimer interface [polypeptide binding]; other site 511062010114 conserved gate region; other site 511062010115 putative PBP binding loops; other site 511062010116 ABC-ATPase subunit interface; other site 511062010117 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 511062010118 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 511062010119 substrate binding pocket [chemical binding]; other site 511062010120 membrane-bound complex binding site; other site 511062010121 hinge residues; other site 511062010122 arginine transporter ATP-binding subunit; Provisional; Region: artP; PRK11124 511062010123 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 511062010124 Walker A/P-loop; other site 511062010125 ATP binding site [chemical binding]; other site 511062010126 Q-loop/lid; other site 511062010127 ABC transporter signature motif; other site 511062010128 Walker B; other site 511062010129 D-loop; other site 511062010130 H-loop/switch region; other site 511062010131 arginine repressor; Provisional; Region: PRK05066 511062010132 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 511062010133 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 511062010134 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 511062010135 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 511062010136 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 511062010137 Walker A/P-loop; other site 511062010138 ATP binding site [chemical binding]; other site 511062010139 Q-loop/lid; other site 511062010140 ABC transporter signature motif; other site 511062010141 Walker B; other site 511062010142 D-loop; other site 511062010143 H-loop/switch region; other site 511062010144 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 511062010145 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 511062010146 dimer interface [polypeptide binding]; other site 511062010147 conserved gate region; other site 511062010148 putative PBP binding loops; other site 511062010149 ABC-ATPase subunit interface; other site 511062010150 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 511062010151 dimer interface [polypeptide binding]; other site 511062010152 conserved gate region; other site 511062010153 putative PBP binding loops; other site 511062010154 ABC-ATPase subunit interface; other site 511062010155 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 511062010156 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 511062010157 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 511062010158 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 511062010159 Nitrogen regulatory protein P-II; Region: P-II; smart00938 511062010160 hypothetical protein; Provisional; Region: PRK09256 511062010161 Uncharacterized protein family (UPF0231); Region: UPF0231; cl11474 511062010162 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 511062010163 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 511062010164 xanthine permease; Region: pbuX; TIGR03173 511062010165 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 511062010166 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 511062010167 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 511062010168 N-terminal plug; other site 511062010169 ligand-binding site [chemical binding]; other site 511062010170 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 511062010171 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 511062010172 substrate binding site [chemical binding]; other site 511062010173 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 511062010174 substrate binding site [chemical binding]; other site 511062010175 ligand binding site [chemical binding]; other site 511062010176 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 511062010177 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 511062010178 active site 511062010179 nucleophile elbow; other site 511062010180 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 511062010181 Surface antigen; Region: Bac_surface_Ag; pfam01103 511062010182 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 511062010183 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 511062010184 dimerization interface [polypeptide binding]; other site 511062010185 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 511062010186 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062010187 dimer interface [polypeptide binding]; other site 511062010188 putative CheW interface [polypeptide binding]; other site 511062010189 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 511062010190 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 511062010191 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 511062010192 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 511062010193 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 511062010194 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 511062010195 E3 interaction surface; other site 511062010196 lipoyl attachment site [posttranslational modification]; other site 511062010197 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 511062010198 E3 interaction surface; other site 511062010199 lipoyl attachment site [posttranslational modification]; other site 511062010200 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 511062010201 E3 interaction surface; other site 511062010202 lipoyl attachment site [posttranslational modification]; other site 511062010203 e3 binding domain; Region: E3_binding; pfam02817 511062010204 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 511062010205 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 511062010206 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 511062010207 dimer interface [polypeptide binding]; other site 511062010208 TPP-binding site [chemical binding]; other site 511062010209 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 511062010210 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 511062010211 DNA-binding site [nucleotide binding]; DNA binding site 511062010212 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 511062010213 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 511062010214 amidase catalytic site [active] 511062010215 Zn binding residues [ion binding]; other site 511062010216 substrate binding site [chemical binding]; other site 511062010217 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 511062010218 catalytic motif [active] 511062010219 Catalytic residue [active] 511062010220 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 511062010221 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 511062010222 dimerization interface [polypeptide binding]; other site 511062010223 active site 511062010224 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 511062010225 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 511062010226 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 511062010227 Walker A motif; other site 511062010228 ATP binding site [chemical binding]; other site 511062010229 Walker B motif; other site 511062010230 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 511062010231 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 511062010232 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 511062010233 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 511062010234 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 511062010235 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 511062010236 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 511062010237 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 511062010238 CoA-binding site [chemical binding]; other site 511062010239 ATP-binding [chemical binding]; other site 511062010240 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 511062010241 S-adenosylmethionine binding site [chemical binding]; other site 511062010242 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 511062010243 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 511062010244 dimer interface [polypeptide binding]; other site 511062010245 putative anticodon binding site; other site 511062010246 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 511062010247 motif 1; other site 511062010248 active site 511062010249 motif 2; other site 511062010250 motif 3; other site 511062010251 This domain is found in peptide chain release factors; Region: PCRF; smart00937 511062010252 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 511062010253 RF-1 domain; Region: RF-1; pfam00472 511062010254 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 511062010255 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 511062010256 substrate binding pocket [chemical binding]; other site 511062010257 membrane-bound complex binding site; other site 511062010258 hinge residues; other site 511062010259 ABC-type amino acid transport system, permease component [Amino acid transport and metabolism]; Region: BatB; COG4597 511062010260 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 511062010261 conserved gate region; other site 511062010262 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 511062010263 dimer interface [polypeptide binding]; other site 511062010264 ABC-ATPase subunit interface; other site 511062010265 putative PBP binding loops; other site 511062010266 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 511062010267 dimer interface [polypeptide binding]; other site 511062010268 conserved gate region; other site 511062010269 putative PBP binding loops; other site 511062010270 ABC-ATPase subunit interface; other site 511062010271 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 511062010272 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 511062010273 Walker A/P-loop; other site 511062010274 ATP binding site [chemical binding]; other site 511062010275 Q-loop/lid; other site 511062010276 ABC transporter signature motif; other site 511062010277 Walker B; other site 511062010278 D-loop; other site 511062010279 H-loop/switch region; other site 511062010280 Cache domain; Region: Cache_1; pfam02743 511062010281 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 511062010282 dimerization interface [polypeptide binding]; other site 511062010283 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 511062010284 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062010285 dimer interface [polypeptide binding]; other site 511062010286 putative CheW interface [polypeptide binding]; other site 511062010287 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 511062010288 DHH family; Region: DHH; pfam01368 511062010289 DHHA1 domain; Region: DHHA1; pfam02272 511062010290 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 511062010291 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 511062010292 active site 511062010293 Int/Topo IB signature motif; other site 511062010294 flavodoxin FldB; Provisional; Region: PRK12359 511062010295 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 511062010296 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 511062010297 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 511062010298 S-adenosylmethionine binding site [chemical binding]; other site 511062010299 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 511062010300 DEAD-like helicases superfamily; Region: DEXDc; smart00487 511062010301 ATP binding site [chemical binding]; other site 511062010302 Mg++ binding site [ion binding]; other site 511062010303 motif III; other site 511062010304 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 511062010305 nucleotide binding region [chemical binding]; other site 511062010306 ATP-binding site [chemical binding]; other site 511062010307 hypothetical protein; Validated; Region: PRK02101 511062010308 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 511062010309 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 511062010310 Walker A motif; other site 511062010311 ATP binding site [chemical binding]; other site 511062010312 Walker B motif; other site 511062010313 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 511062010314 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 511062010315 Walker A motif; other site 511062010316 ATP binding site [chemical binding]; other site 511062010317 Walker B motif; other site 511062010318 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 511062010319 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 511062010320 catalytic residue [active] 511062010321 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 511062010322 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 511062010323 YGGT family; Region: YGGT; pfam02325 511062010324 Predicted integral membrane protein [Function unknown]; Region: COG0762 511062010325 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 511062010326 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 511062010327 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 511062010328 active site 511062010329 dimerization interface [polypeptide binding]; other site 511062010330 HemN family oxidoreductase; Provisional; Region: PRK05660 511062010331 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 511062010332 FeS/SAM binding site; other site 511062010333 HemN C-terminal domain; Region: HemN_C; pfam06969 511062010334 hypothetical protein; Provisional; Region: PRK05287 511062010335 DNA gyrase inhibitor; Reviewed; Region: PRK00418 511062010336 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 511062010337 active site 511062010338 8-oxo-dGMP binding site [chemical binding]; other site 511062010339 nudix motif; other site 511062010340 metal binding site [ion binding]; metal-binding site 511062010341 Cache domain; Region: Cache_1; pfam02743 511062010342 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 511062010343 dimerization interface [polypeptide binding]; other site 511062010344 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 511062010345 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062010346 dimer interface [polypeptide binding]; other site 511062010347 putative CheW interface [polypeptide binding]; other site 511062010348 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 511062010349 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 511062010350 CAP-like domain; other site 511062010351 active site 511062010352 primary dimer interface [polypeptide binding]; other site 511062010353 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 511062010354 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 511062010355 ATP binding site [chemical binding]; other site 511062010356 Mg2+ binding site [ion binding]; other site 511062010357 G-X-G motif; other site 511062010358 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 511062010359 anchoring element; other site 511062010360 dimer interface [polypeptide binding]; other site 511062010361 ATP binding site [chemical binding]; other site 511062010362 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 511062010363 active site 511062010364 metal binding site [ion binding]; metal-binding site 511062010365 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 511062010366 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 511062010367 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 511062010368 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 511062010369 active site 511062010370 metal binding site [ion binding]; metal-binding site 511062010371 hexamer interface [polypeptide binding]; other site 511062010372 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 511062010373 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 511062010374 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 511062010375 dimer interface [polypeptide binding]; other site 511062010376 ADP-ribose binding site [chemical binding]; other site 511062010377 active site 511062010378 nudix motif; other site 511062010379 metal binding site [ion binding]; metal-binding site 511062010380 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 511062010381 Transposase; Region: HTH_Tnp_1; pfam01527 511062010382 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 511062010383 Integrase core domain; Region: rve; pfam00665 511062010384 Integrase core domain; Region: rve_3; pfam13683 511062010385 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 511062010386 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 511062010387 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 511062010388 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 511062010389 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 511062010390 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 511062010391 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 511062010392 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 511062010393 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062010394 active site 511062010395 phosphorylation site [posttranslational modification] 511062010396 intermolecular recognition site; other site 511062010397 dimerization interface [polypeptide binding]; other site 511062010398 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 511062010399 DNA binding site [nucleotide binding] 511062010400 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 511062010401 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 511062010402 dimer interface [polypeptide binding]; other site 511062010403 phosphorylation site [posttranslational modification] 511062010404 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 511062010405 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 511062010406 ATP binding site [chemical binding]; other site 511062010407 Mg2+ binding site [ion binding]; other site 511062010408 G-X-G motif; other site 511062010409 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 511062010410 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 511062010411 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 511062010412 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 511062010413 putative ribose interaction site [chemical binding]; other site 511062010414 putative ADP binding site [chemical binding]; other site 511062010415 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 511062010416 active site 511062010417 nucleotide binding site [chemical binding]; other site 511062010418 HIGH motif; other site 511062010419 KMSKS motif; other site 511062010420 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 511062010421 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 511062010422 putative acyl-acceptor binding pocket; other site 511062010423 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 511062010424 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 511062010425 metal binding triad; other site 511062010426 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 511062010427 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 511062010428 metal binding triad; other site 511062010429 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 511062010430 Uncharacterized conserved protein [Function unknown]; Region: COG3025 511062010431 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 511062010432 putative active site [active] 511062010433 putative metal binding residues [ion binding]; other site 511062010434 signature motif; other site 511062010435 putative triphosphate binding site [ion binding]; other site 511062010436 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 511062010437 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 511062010438 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 511062010439 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 511062010440 Bacterial SH3 domain homologues; Region: SH3b; smart00287 511062010441 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 511062010442 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 511062010443 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 511062010444 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 511062010445 Glutamate binding site [chemical binding]; other site 511062010446 NAD binding site [chemical binding]; other site 511062010447 catalytic residues [active] 511062010448 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 511062010449 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 511062010450 active site 511062010451 NTP binding site [chemical binding]; other site 511062010452 metal binding triad [ion binding]; metal-binding site 511062010453 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 511062010454 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 511062010455 Zn2+ binding site [ion binding]; other site 511062010456 Mg2+ binding site [ion binding]; other site 511062010457 Bacitracin resistance protein BacA; Region: BacA; pfam02673 511062010458 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 511062010459 homooctamer interface [polypeptide binding]; other site 511062010460 active site 511062010461 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 511062010462 UGMP family protein; Validated; Region: PRK09604 511062010463 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 511062010464 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 511062010465 Yqey-like protein; Region: YqeY; pfam09424 511062010466 potential frameshift: common BLAST hit: gi|330831099|ref|YP_004394051.1| DNA primase 511062010467 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 511062010468 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 511062010469 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 511062010470 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 511062010471 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 511062010472 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 511062010473 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 511062010474 DNA binding residues [nucleotide binding] 511062010475 Protein of unknown function (DUF2813); Region: DUF2813; pfam11398 511062010476 AAA domain; Region: AAA_21; pfam13304 511062010477 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 511062010478 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 511062010479 inhibitor site; inhibition site 511062010480 active site 511062010481 dimer interface [polypeptide binding]; other site 511062010482 catalytic residue [active] 511062010483 NAD-dependent deacetylase; Provisional; Region: PRK05333 511062010484 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 511062010485 NAD+ binding site [chemical binding]; other site 511062010486 substrate binding site [chemical binding]; other site 511062010487 Zn binding site [ion binding]; other site 511062010488 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 511062010489 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 511062010490 dimerization interface [polypeptide binding]; other site 511062010491 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 511062010492 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062010493 dimer interface [polypeptide binding]; other site 511062010494 putative CheW interface [polypeptide binding]; other site 511062010495 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 511062010496 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 511062010497 GAF domain; Region: GAF; cl17456 511062010498 Histidine kinase; Region: His_kinase; pfam06580 511062010499 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 511062010500 ATP binding site [chemical binding]; other site 511062010501 Mg2+ binding site [ion binding]; other site 511062010502 G-X-G motif; other site 511062010503 putative two-component response-regulatory protein YehT; Provisional; Region: PRK11697 511062010504 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 511062010505 active site 511062010506 phosphorylation site [posttranslational modification] 511062010507 intermolecular recognition site; other site 511062010508 dimerization interface [polypeptide binding]; other site 511062010509 LytTr DNA-binding domain; Region: LytTR; smart00850 511062010510 Carbon starvation protein CstA; Region: CstA; pfam02554 511062010511 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 511062010512 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 511062010513 Carbon starvation protein CstA; Region: CstA; pfam02554 511062010514 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 511062010515 phosphoglycolate phosphatase; Provisional; Region: PRK13222 511062010516 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 511062010517 active site 511062010518 motif I; other site 511062010519 motif II; other site 511062010520 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 511062010521 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 511062010522 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 511062010523 active site 511062010524 metal binding site [ion binding]; metal-binding site 511062010525 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 511062010526 metal binding site [ion binding]; metal-binding site 511062010527 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 511062010528 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 511062010529 Cache is an extracellular domain that is predicted to have a role in small-molecule recognition in a wide range of proteins; Region: Cache_2; smart01049 511062010530 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 511062010531 dimerization interface [polypeptide binding]; other site 511062010532 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 511062010533 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062010534 dimer interface [polypeptide binding]; other site 511062010535 putative CheW interface [polypeptide binding]; other site 511062010536 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 511062010537 Domain of unknown function DUF20; Region: UPF0118; pfam01594 511062010538 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 511062010539 dimer interface [polypeptide binding]; other site 511062010540 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 511062010541 putative CheW interface [polypeptide binding]; other site 511062010542 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 511062010543 ureidoglycolate hydrolase; Provisional; Region: PRK03606 511062010544 OHCU decarboxylase; Region: UHCUDC; TIGR03164 511062010545 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 511062010546 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 511062010547 active site 511062010548 catalytic site [active] 511062010549 tetramer interface [polypeptide binding]; other site 511062010550 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 511062010551 active site 511062010552 homotetramer interface [polypeptide binding]; other site 511062010553 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 511062010554 Protein of unknown function (DUF3461); Region: DUF3461; cl10125 511062010555 Protein of unknown function (DUF3461); Region: DUF3461; cl10125 511062010556 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 511062010557 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 511062010558 NAD(P) binding site [chemical binding]; other site 511062010559 catalytic residues [active] 511062010560 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 511062010561 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 511062010562 Sulfate transporter family; Region: Sulfate_transp; pfam00916 511062010563 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 511062010564 Cobaltochelatase CobS subunit N terminal; Region: CobS_N; pfam12556 511062010565 cobaltochelatase, CobS subunit; Region: PD_CobS; TIGR01650 511062010566 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 511062010567 Walker A motif; other site 511062010568 ATP binding site [chemical binding]; other site 511062010569 Walker B motif; other site 511062010570 Cobalamin biosynthesis protein CobT; Region: CobT; pfam06213 511062010571 cobaltochelatase, CobT subunit; Region: CobT; TIGR01651 511062010572 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 511062010573 metal ion-dependent adhesion site (MIDAS); other site 511062010574 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 511062010575 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 511062010576 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 511062010577 DctM-like transporters; Region: DctM; pfam06808 511062010578 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 511062010579 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 511062010580 Ligand Binding Site [chemical binding]; other site 511062010581 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 511062010582 sulfoacetaldehyde acetyltransferase; Validated; Region: PRK07525 511062010583 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 511062010584 PYR/PP interface [polypeptide binding]; other site 511062010585 dimer interface [polypeptide binding]; other site 511062010586 TPP binding site [chemical binding]; other site 511062010587 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 511062010588 Thiamine pyrophosphate (TPP) family, Xsc-like subfamily, TPP-binding module; composed of proteins similar to Alcaligenes defragrans sulfoacetaldehyde acetyltransferase (Xsc). Xsc plays a key role in the degradation of taurine, catalyzing the...; Region: TPP_Xsc_like; cd02013 511062010589 TPP-binding site; other site 511062010590 cell density-dependent motility repressor; Provisional; Region: PRK10082 511062010591 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 511062010592 LysR substrate binding domain; Region: LysR_substrate; pfam03466 511062010593 Predicted membrane protein [Function unknown]; Region: COG2855 511062010594 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 511062010595 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 511062010596 DNA-binding site [nucleotide binding]; DNA binding site 511062010597 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 511062010598 pyridoxal 5'-phosphate binding site [chemical binding]; other site 511062010599 homodimer interface [polypeptide binding]; other site 511062010600 catalytic residue [active] 511062010601 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 511062010602 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 511062010603 SnoaL-like domain; Region: SnoaL_2; pfam12680 511062010604 Transcriptional regulators [Transcription]; Region: GntR; COG1802 511062010605 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 511062010606 DNA-binding site [nucleotide binding]; DNA binding site 511062010607 FCD domain; Region: FCD; pfam07729 511062010608 guanine deaminase; Provisional; Region: PRK09228 511062010609 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 511062010610 active site 511062010611 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 511062010612 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 511062010613 XdhC Rossmann domain; Region: XdhC_C; pfam13478 511062010614 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 511062010615 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 511062010616 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 511062010617 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 511062010618 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 511062010619 catalytic loop [active] 511062010620 iron binding site [ion binding]; other site 511062010621 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 511062010622 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 511062010623 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 511062010624 Major Facilitator Superfamily; Region: MFS_1; pfam07690 511062010625 putative substrate translocation pore; other site 511062010626 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 511062010627 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 511062010628 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 511062010629 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 511062010630 Superinfection exclusion protein B; Region: SieB; pfam14163 511062010631 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 511062010632 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 511062010633 high affinity sulphate transporter 1; Region: sulP; TIGR00815 511062010634 Sulfate transporter family; Region: Sulfate_transp; pfam00916 511062010635 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 511062010636 Putative phosphatase (DUF442); Region: DUF442; cl17385 511062010637 elongation factor Tu; Reviewed; Region: PRK00049 511062010638 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 511062010639 G1 box; other site 511062010640 GEF interaction site [polypeptide binding]; other site 511062010641 GTP/Mg2+ binding site [chemical binding]; other site 511062010642 Switch I region; other site 511062010643 G2 box; other site 511062010644 G3 box; other site 511062010645 Switch II region; other site 511062010646 G4 box; other site 511062010647 G5 box; other site 511062010648 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 511062010649 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 511062010650 Antibiotic Binding Site [chemical binding]; other site 511062010651 elongation factor G; Reviewed; Region: PRK00007 511062010652 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 511062010653 G1 box; other site 511062010654 putative GEF interaction site [polypeptide binding]; other site 511062010655 GTP/Mg2+ binding site [chemical binding]; other site 511062010656 Switch I region; other site 511062010657 G2 box; other site 511062010658 G3 box; other site 511062010659 Switch II region; other site 511062010660 G4 box; other site 511062010661 G5 box; other site 511062010662 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 511062010663 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 511062010664 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 511062010665 30S ribosomal protein S7; Validated; Region: PRK05302 511062010666 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 511062010667 S17 interaction site [polypeptide binding]; other site 511062010668 S8 interaction site; other site 511062010669 16S rRNA interaction site [nucleotide binding]; other site 511062010670 streptomycin interaction site [chemical binding]; other site 511062010671 23S rRNA interaction site [nucleotide binding]; other site 511062010672 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 511062010673 DsrH like protein; Region: DsrH; cl17347 511062010674 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 511062010675 DsrE/DsrF-like family; Region: DrsE; cl00672 511062010676 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 511062010677 homotrimer interaction site [polypeptide binding]; other site 511062010678 putative active site [active] 511062010679 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 511062010680 YheO-like PAS domain; Region: PAS_6; pfam08348 511062010681 HTH domain; Region: HTH_22; pfam13309 511062010682 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 511062010683 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 511062010684 putative valine binding site [chemical binding]; other site 511062010685 dimer interface [polypeptide binding]; other site 511062010686 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 511062010687 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 511062010688 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 511062010689 PYR/PP interface [polypeptide binding]; other site 511062010690 dimer interface [polypeptide binding]; other site 511062010691 TPP binding site [chemical binding]; other site 511062010692 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 511062010693 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 511062010694 TPP-binding site [chemical binding]; other site 511062010695 dimer interface [polypeptide binding]; other site 511062010696 2-isopropylmalate synthase; Validated; Region: PRK00915 511062010697 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 511062010698 active site 511062010699 catalytic residues [active] 511062010700 metal binding site [ion binding]; metal-binding site 511062010701 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 511062010702 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 511062010703 tartrate dehydrogenase; Region: TTC; TIGR02089 511062010704 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 511062010705 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 511062010706 substrate binding site [chemical binding]; other site 511062010707 ligand binding site [chemical binding]; other site 511062010708 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 511062010709 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 511062010710 substrate binding site [chemical binding]; other site 511062010711 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 511062010712 thiamine transporter substrate binding subunit; Provisional; Region: tbpA; PRK11205 511062010713 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 511062010714 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 511062010715 putative PBP binding loops; other site 511062010716 ABC-ATPase subunit interface; other site 511062010717 Integrase; Region: Integrase_1; pfam12835 511062010718 Replicase family; Region: Replicase; pfam03090 511062010719 Primase C terminal 1 (PriCT-1); Region: PriCT_1; pfam08708 511062010720 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; cl17315 511062010721 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 511062010722 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 511062010723 Coenzyme A binding pocket [chemical binding]; other site 511062010724 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4453 511062010725 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 511062010726 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 511062010727 P-loop; other site 511062010728 Magnesium ion binding site [ion binding]; other site 511062010729 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 511062010730 Predicted DNA-binding protein with an HTH domain [General function prediction only]; Region: COG4710 511062010731 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 511062010732 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076