-- dump date 20140620_064319 -- class Genbank::misc_feature -- table misc_feature_note -- id note 225849000001 FMN-binding protein MioC; Provisional; Region: PRK09004 225849000002 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 225849000003 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 225849000004 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 225849000005 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 225849000006 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 225849000007 Protein of unknown function (DUF1186); Region: DUF1186; pfam06685 225849000008 SEC-C motif; Region: SEC-C; pfam02810 225849000009 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 225849000010 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 225849000011 cofactor binding site; other site 225849000012 DNA binding site [nucleotide binding] 225849000013 substrate interaction site [chemical binding]; other site 225849000014 Eco47II restriction endonuclease; Region: RE_Eco47II; pfam09553 225849000015 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 225849000016 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 225849000017 ATP binding site [chemical binding]; other site 225849000018 putative Mg++ binding site [ion binding]; other site 225849000019 nucleotide binding region [chemical binding]; other site 225849000020 helicase superfamily c-terminal domain; Region: HELICc; smart00490 225849000021 ATP-binding site [chemical binding]; other site 225849000022 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 225849000023 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 225849000024 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 225849000025 trmE is a tRNA modification GTPase; Region: trmE; cd04164 225849000026 G1 box; other site 225849000027 GTP/Mg2+ binding site [chemical binding]; other site 225849000028 Switch I region; other site 225849000029 G2 box; other site 225849000030 Switch II region; other site 225849000031 G3 box; other site 225849000032 G4 box; other site 225849000033 G5 box; other site 225849000034 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 225849000035 membrane protein insertase; Provisional; Region: PRK01318 225849000036 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 225849000037 ribonuclease P; Reviewed; Region: rnpA; PRK01732 225849000038 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 225849000039 DnaA N-terminal domain; Region: DnaA_N; pfam11638 225849000040 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 225849000041 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 225849000042 Walker A motif; other site 225849000043 ATP binding site [chemical binding]; other site 225849000044 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 225849000045 Walker B motif; other site 225849000046 arginine finger; other site 225849000047 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 225849000048 DnaA box-binding interface [nucleotide binding]; other site 225849000049 DNA polymerase III subunit beta; Validated; Region: PRK05643 225849000050 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 225849000051 putative DNA binding surface [nucleotide binding]; other site 225849000052 dimer interface [polypeptide binding]; other site 225849000053 beta-clamp/clamp loader binding surface; other site 225849000054 beta-clamp/translesion DNA polymerase binding surface; other site 225849000055 recombination protein F; Reviewed; Region: recF; PRK00064 225849000056 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849000057 Walker A/P-loop; other site 225849000058 ATP binding site [chemical binding]; other site 225849000059 Q-loop/lid; other site 225849000060 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849000061 ABC transporter signature motif; other site 225849000062 Walker B; other site 225849000063 D-loop; other site 225849000064 H-loop/switch region; other site 225849000065 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 225849000066 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 225849000067 Mg2+ binding site [ion binding]; other site 225849000068 G-X-G motif; other site 225849000069 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 225849000070 anchoring element; other site 225849000071 dimer interface [polypeptide binding]; other site 225849000072 ATP binding site [chemical binding]; other site 225849000073 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 225849000074 active site 225849000075 putative metal-binding site [ion binding]; other site 225849000076 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 225849000077 HDOD domain; Region: HDOD; pfam08668 225849000078 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225849000079 Zn2+ binding site [ion binding]; other site 225849000080 Mg2+ binding site [ion binding]; other site 225849000081 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 225849000082 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 225849000083 dimer interface [polypeptide binding]; other site 225849000084 motif 1; other site 225849000085 active site 225849000086 motif 2; other site 225849000087 motif 3; other site 225849000088 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 225849000089 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 225849000090 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 225849000091 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 225849000092 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 225849000093 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 225849000094 active site 225849000095 MOSC domain; Region: MOSC; pfam03473 225849000096 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 225849000097 CPxP motif; other site 225849000098 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 225849000099 putative deacylase active site [active] 225849000100 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849000101 Coenzyme A binding pocket [chemical binding]; other site 225849000102 LPP20 lipoprotein; Region: LPP20; pfam02169 225849000103 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 225849000104 N-acetyl-D-glucosamine binding site [chemical binding]; other site 225849000105 catalytic residue [active] 225849000106 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 225849000107 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 225849000108 dimer interface [polypeptide binding]; other site 225849000109 active site 225849000110 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 225849000111 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 225849000112 substrate binding site [chemical binding]; other site 225849000113 oxyanion hole (OAH) forming residues; other site 225849000114 trimer interface [polypeptide binding]; other site 225849000115 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 225849000116 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 225849000117 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 225849000118 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225849000119 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 225849000120 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 225849000121 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 225849000122 trimerization site [polypeptide binding]; other site 225849000123 active site 225849000124 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 225849000125 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 225849000126 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 225849000127 catalytic residue [active] 225849000128 acyl-CoA synthetase; Validated; Region: PRK05850 225849000129 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 225849000130 acyl-activating enzyme (AAE) consensus motif; other site 225849000131 active site 225849000132 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 225849000133 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 225849000134 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 225849000135 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 225849000136 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 225849000137 proline dipeptidase; Provisional; Region: PRK13607 225849000138 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 225849000139 active site 225849000140 hypothetical protein; Provisional; Region: PRK11568 225849000141 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 225849000142 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 225849000143 Cation transport protein; Region: TrkH; cl17365 225849000144 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 225849000145 Flavodoxin domain; Region: Flavodoxin_5; cl17428 225849000146 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 225849000147 dimerization interface [polypeptide binding]; other site 225849000148 putative DNA binding site [nucleotide binding]; other site 225849000149 putative Zn2+ binding site [ion binding]; other site 225849000150 Flavodoxin domain; Region: Flavodoxin_5; cl17428 225849000151 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 225849000152 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 225849000153 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 225849000154 TrkA-N domain; Region: TrkA_N; pfam02254 225849000155 TrkA-C domain; Region: TrkA_C; pfam02080 225849000156 TrkA-N domain; Region: TrkA_N; pfam02254 225849000157 TrkA-C domain; Region: TrkA_C; pfam02080 225849000158 16S rRNA methyltransferase B; Provisional; Region: PRK10901 225849000159 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 225849000160 putative RNA binding site [nucleotide binding]; other site 225849000161 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 225849000162 S-adenosylmethionine binding site [chemical binding]; other site 225849000163 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 225849000164 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 225849000165 putative active site [active] 225849000166 substrate binding site [chemical binding]; other site 225849000167 putative cosubstrate binding site; other site 225849000168 catalytic site [active] 225849000169 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 225849000170 substrate binding site [chemical binding]; other site 225849000171 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 225849000172 active site 225849000173 catalytic residues [active] 225849000174 metal binding site [ion binding]; metal-binding site 225849000175 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 225849000176 hypothetical protein; Provisional; Region: PRK10736 225849000177 DNA protecting protein DprA; Region: dprA; TIGR00732 225849000178 Protein of unknown function (DUF494); Region: DUF494; pfam04361 225849000179 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 225849000180 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 225849000181 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 225849000182 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 225849000183 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 225849000184 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 225849000185 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 225849000186 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 225849000187 apolar tunnel; other site 225849000188 heme binding site [chemical binding]; other site 225849000189 dimerization interface [polypeptide binding]; other site 225849000190 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 225849000191 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 225849000192 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 225849000193 shikimate binding site; other site 225849000194 NAD(P) binding site [chemical binding]; other site 225849000195 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 225849000196 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 225849000197 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 225849000198 trimer interface [polypeptide binding]; other site 225849000199 putative metal binding site [ion binding]; other site 225849000200 Predicted transcriptional regulator [Transcription]; Region: COG1959 225849000201 Transcriptional regulator; Region: Rrf2; cl17282 225849000202 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 225849000203 putative active site [active] 225849000204 putative catalytic site [active] 225849000205 NodB motif; other site 225849000206 Zn binding site [ion binding]; other site 225849000207 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 225849000208 C-terminal peptidase (prc); Region: prc; TIGR00225 225849000209 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 225849000210 protein binding site [polypeptide binding]; other site 225849000211 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 225849000212 Catalytic dyad [active] 225849000213 AmiB activator; Provisional; Region: PRK11637 225849000214 Peptidase family M23; Region: Peptidase_M23; pfam01551 225849000215 phosphoglyceromutase; Provisional; Region: PRK05434 225849000216 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 225849000217 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 225849000218 active site residue [active] 225849000219 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 225849000220 SecA binding site; other site 225849000221 Preprotein binding site; other site 225849000222 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 225849000223 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 225849000224 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 225849000225 HI0933-like protein; Region: HI0933_like; pfam03486 225849000226 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 225849000227 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 225849000228 N-terminal plug; other site 225849000229 ligand-binding site [chemical binding]; other site 225849000230 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 225849000231 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 225849000232 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 225849000233 IucA / IucC family; Region: IucA_IucC; pfam04183 225849000234 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 225849000235 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 225849000236 Major Facilitator Superfamily; Region: MFS_1; pfam07690 225849000237 putative substrate translocation pore; other site 225849000238 IucA / IucC family; Region: IucA_IucC; pfam04183 225849000239 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 225849000240 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 225849000241 dimer interface [polypeptide binding]; other site 225849000242 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 225849000243 active site 225849000244 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 225849000245 catalytic residues [active] 225849000246 substrate binding site [chemical binding]; other site 225849000247 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 225849000248 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 225849000249 DNA binding residues [nucleotide binding] 225849000250 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 225849000251 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 225849000252 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225849000253 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225849000254 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849000255 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849000256 metal binding site [ion binding]; metal-binding site 225849000257 active site 225849000258 I-site; other site 225849000259 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 225849000260 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 225849000261 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 225849000262 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 225849000263 Phytase; Region: Phytase; cl17685 225849000264 NlpC/P60 family; Region: NLPC_P60; pfam00877 225849000265 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 225849000266 MPT binding site; other site 225849000267 trimer interface [polypeptide binding]; other site 225849000268 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_2; cd03138 225849000269 conserved cys residue [active] 225849000270 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225849000271 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225849000272 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225849000273 Superinfection immunity protein; Region: Imm_superinfect; pfam14373 225849000274 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 225849000275 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 225849000276 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 225849000277 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849000278 Walker A/P-loop; other site 225849000279 ATP binding site [chemical binding]; other site 225849000280 Q-loop/lid; other site 225849000281 ABC transporter signature motif; other site 225849000282 Walker B; other site 225849000283 D-loop; other site 225849000284 H-loop/switch region; other site 225849000285 TAP-like protein; Region: Abhydrolase_4; pfam08386 225849000286 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 225849000287 Predicted transcriptional regulators [Transcription]; Region: COG1725 225849000288 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225849000289 DNA-binding site [nucleotide binding]; DNA binding site 225849000290 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 225849000291 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 225849000292 Walker A/P-loop; other site 225849000293 ATP binding site [chemical binding]; other site 225849000294 Q-loop/lid; other site 225849000295 ABC transporter signature motif; other site 225849000296 Walker B; other site 225849000297 D-loop; other site 225849000298 H-loop/switch region; other site 225849000299 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 225849000300 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 225849000301 acyl-activating enzyme (AAE) consensus motif; other site 225849000302 putative AMP binding site [chemical binding]; other site 225849000303 putative active site [active] 225849000304 putative CoA binding site [chemical binding]; other site 225849000305 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 225849000306 active site 225849000307 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849000308 Coenzyme A binding pocket [chemical binding]; other site 225849000309 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 225849000310 active site 225849000311 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 225849000312 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 225849000313 Domain of unknown function (DUF4344); Region: DUF4344; pfam14247 225849000314 2,3-diketo-5-methylthio-1-phosphopentane phosphatase; Region: enolase-ppase; TIGR01691 225849000315 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849000316 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849000317 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 225849000318 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 225849000319 Walker A/P-loop; other site 225849000320 ATP binding site [chemical binding]; other site 225849000321 Q-loop/lid; other site 225849000322 ABC transporter signature motif; other site 225849000323 Walker B; other site 225849000324 D-loop; other site 225849000325 H-loop/switch region; other site 225849000326 FtsX-like permease family; Region: FtsX; pfam02687 225849000327 imidazolonepropionase; Validated; Region: PRK09356 225849000328 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 225849000329 active site 225849000330 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 225849000331 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225849000332 DNA-binding site [nucleotide binding]; DNA binding site 225849000333 UTRA domain; Region: UTRA; pfam07702 225849000334 urocanate hydratase; Provisional; Region: PRK05414 225849000335 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 225849000336 active sites [active] 225849000337 tetramer interface [polypeptide binding]; other site 225849000338 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 225849000339 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225849000340 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 225849000341 tetramer interface [polypeptide binding]; other site 225849000342 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 225849000343 CoenzymeA binding site [chemical binding]; other site 225849000344 subunit interaction site [polypeptide binding]; other site 225849000345 PHB binding site; other site 225849000346 Helix-Turn-Helix DNA binding domain of the Cfa transcription regulator; Region: HTH_Cfa; cd04789 225849000347 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 225849000348 DNA binding residues [nucleotide binding] 225849000349 putative dimer interface [polypeptide binding]; other site 225849000350 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 225849000351 S-adenosylmethionine binding site [chemical binding]; other site 225849000352 Domain of unknown function (DUF4287); Region: DUF4287; pfam14117 225849000353 Protein of unknown function (DUF3157); Region: DUF3157; pfam11355 225849000354 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 225849000355 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 225849000356 Mechanosensitive ion channel; Region: MS_channel; pfam00924 225849000357 dihydromonapterin reductase; Provisional; Region: PRK06483 225849000358 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225849000359 NAD(P) binding site [chemical binding]; other site 225849000360 active site 225849000361 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 225849000362 active site 225849000363 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 225849000364 active site 225849000365 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 225849000366 hypothetical protein; Provisional; Region: PRK05409 225849000367 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 225849000368 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225849000369 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 225849000370 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 225849000371 DNA binding residues [nucleotide binding] 225849000372 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 225849000373 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225849000374 HTH-like domain; Region: HTH_21; pfam13276 225849000375 Integrase core domain; Region: rve; pfam00665 225849000376 Integrase core domain; Region: rve_2; pfam13333 225849000377 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 225849000378 Transposase; Region: HTH_Tnp_1; pfam01527 225849000379 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849000380 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849000381 metal binding site [ion binding]; metal-binding site 225849000382 active site 225849000383 I-site; other site 225849000384 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 225849000385 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 225849000386 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 225849000387 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 225849000388 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 225849000389 N-terminal plug; other site 225849000390 ligand-binding site [chemical binding]; other site 225849000391 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 225849000392 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 225849000393 N-terminal plug; other site 225849000394 ligand-binding site [chemical binding]; other site 225849000395 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 225849000396 Calx-beta domain; Region: Calx-beta; cl02522 225849000397 Calx-beta domain; Region: Calx-beta; pfam03160 225849000398 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 225849000399 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 225849000400 ATP binding site [chemical binding]; other site 225849000401 substrate interface [chemical binding]; other site 225849000402 molybdopterin biosynthesis protein MoeA; Provisional; Region: PRK10680 225849000403 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 225849000404 dimer interface [polypeptide binding]; other site 225849000405 putative functional site; other site 225849000406 putative MPT binding site; other site 225849000407 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 225849000408 Ferritin-like domain; Region: Ferritin; pfam00210 225849000409 ferroxidase diiron center [ion binding]; other site 225849000410 Nitrate and nitrite sensing; Region: NIT; pfam08376 225849000411 HAMP domain; Region: HAMP; pfam00672 225849000412 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 225849000413 PAS domain; Region: PAS_9; pfam13426 225849000414 putative active site [active] 225849000415 heme pocket [chemical binding]; other site 225849000416 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849000417 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849000418 metal binding site [ion binding]; metal-binding site 225849000419 active site 225849000420 I-site; other site 225849000421 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 225849000422 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 225849000423 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 225849000424 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 225849000425 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; cl00217 225849000426 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225849000427 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 225849000428 GIY-YIG motif/motif A; other site 225849000429 putative active site [active] 225849000430 putative metal binding site [ion binding]; other site 225849000431 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 225849000432 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 225849000433 methionine synthase; Provisional; Region: PRK01207 225849000434 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 225849000435 substrate binding site [chemical binding]; other site 225849000436 THF binding site; other site 225849000437 zinc-binding site [ion binding]; other site 225849000438 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 225849000439 S-adenosylmethionine binding site [chemical binding]; other site 225849000440 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_4; cd06241 225849000441 putative active site [active] 225849000442 Zn binding site [ion binding]; other site 225849000443 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 225849000444 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 225849000445 non-specific DNA binding site [nucleotide binding]; other site 225849000446 salt bridge; other site 225849000447 sequence-specific DNA binding site [nucleotide binding]; other site 225849000448 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 225849000449 non-specific DNA binding site [nucleotide binding]; other site 225849000450 salt bridge; other site 225849000451 sequence-specific DNA binding site [nucleotide binding]; other site 225849000452 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 225849000453 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 225849000454 active site 225849000455 substrate-binding site [chemical binding]; other site 225849000456 metal-binding site [ion binding] 225849000457 ATP binding site [chemical binding]; other site 225849000458 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 225849000459 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 225849000460 dimerization interface [polypeptide binding]; other site 225849000461 domain crossover interface; other site 225849000462 redox-dependent activation switch; other site 225849000463 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 225849000464 RNA binding surface [nucleotide binding]; other site 225849000465 Type II secretory pathway, component PulC [Intracellular trafficking and secretion]; Region: PulC; COG3031 225849000466 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 225849000467 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 225849000468 type II secretion system protein D; Region: type_II_gspD; TIGR02517 225849000469 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 225849000470 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 225849000471 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 225849000472 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 225849000473 type II secretion system protein E; Region: type_II_gspE; TIGR02533 225849000474 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 225849000475 Walker A motif; other site 225849000476 ATP binding site [chemical binding]; other site 225849000477 Walker B motif; other site 225849000478 type II secretion system protein F; Region: GspF; TIGR02120 225849000479 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 225849000480 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 225849000481 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 225849000482 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 225849000483 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 225849000484 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 225849000485 type II secretion system protein I; Region: gspI; TIGR01707 225849000486 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 225849000487 type II secretion system protein J; Region: gspJ; TIGR01711 225849000488 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 225849000489 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 225849000490 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 225849000491 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 225849000492 GspL periplasmic domain; Region: GspL_C; pfam12693 225849000493 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 225849000494 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 225849000495 haloacid dehalogenase superfamily, subfamily IA, variant 3 with third motif having DD or ED; Region: HAD-SF-IA-v3; TIGR01509 225849000496 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 225849000497 motif II; other site 225849000498 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 225849000499 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 225849000500 dimer interface [polypeptide binding]; other site 225849000501 ADP-ribose binding site [chemical binding]; other site 225849000502 active site 225849000503 nudix motif; other site 225849000504 metal binding site [ion binding]; metal-binding site 225849000505 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 225849000506 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 225849000507 active site 225849000508 acylglycerophosphoethanolamine acyltransferase; Provisional; Region: PRK06814 225849000509 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 225849000510 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 225849000511 active site residue [active] 225849000512 selenophosphate synthetase; Provisional; Region: PRK00943 225849000513 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 225849000514 dimerization interface [polypeptide binding]; other site 225849000515 putative ATP binding site [chemical binding]; other site 225849000516 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 225849000517 Fatty acid desaturase; Region: FA_desaturase; pfam00487 225849000518 Di-iron ligands [ion binding]; other site 225849000519 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 225849000520 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 225849000521 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225849000522 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 225849000523 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 225849000524 S-adenosylmethionine binding site [chemical binding]; other site 225849000525 glutamate racemase; Provisional; Region: PRK00865 225849000526 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 225849000527 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 225849000528 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 225849000529 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849000530 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849000531 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 225849000532 substrate binding pocket [chemical binding]; other site 225849000533 dimerization interface [polypeptide binding]; other site 225849000534 glycine radical enzyme activase, YjjW family; Region: activase_YjjW; TIGR04041 225849000535 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 225849000536 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 225849000537 FeS/SAM binding site; other site 225849000538 hypothetical protein; Provisional; Region: PRK10977 225849000539 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 225849000540 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 225849000541 NAD(P) binding site [chemical binding]; other site 225849000542 catalytic residues [active] 225849000543 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 225849000544 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 225849000545 NADP binding site [chemical binding]; other site 225849000546 dimer interface [polypeptide binding]; other site 225849000547 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849000548 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849000549 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 225849000550 substrate binding pocket [chemical binding]; other site 225849000551 dimerization interface [polypeptide binding]; other site 225849000552 L-aspartate oxidase; Provisional; Region: PRK06175 225849000553 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 225849000554 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 225849000555 heme-binding residues [chemical binding]; other site 225849000556 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849000557 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849000558 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 225849000559 dimerization interface [polypeptide binding]; other site 225849000560 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225849000561 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225849000562 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 225849000563 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849000564 dimer interface [polypeptide binding]; other site 225849000565 putative CheW interface [polypeptide binding]; other site 225849000566 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 225849000567 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 225849000568 Phosphate-selective porin [Inorganic ion transport and metabolism]; Region: OprP; COG3746 225849000569 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 225849000570 CYTH-like Clostridium thermocellum TTM-like subgroup 1; Region: CYTH-like_CthTTM-like_1; cd07891 225849000571 putative active site [active] 225849000572 putative metal binding residues [ion binding]; other site 225849000573 signature motif; other site 225849000574 putative dimer interface [polypeptide binding]; other site 225849000575 putative phosphate binding site [ion binding]; other site 225849000576 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 225849000577 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 225849000578 transmembrane helices; other site 225849000579 Winged helix-turn helix; Region: HTH_29; pfam13551 225849000580 Helix-turn-helix domain; Region: HTH_28; pfam13518 225849000581 Integrase core domain; Region: rve; pfam00665 225849000582 two-component sensor protein; Provisional; Region: cpxA; PRK09470 225849000583 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 225849000584 dimerization interface [polypeptide binding]; other site 225849000585 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 225849000586 dimer interface [polypeptide binding]; other site 225849000587 phosphorylation site [posttranslational modification] 225849000588 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 225849000589 ATP binding site [chemical binding]; other site 225849000590 Mg2+ binding site [ion binding]; other site 225849000591 G-X-G motif; other site 225849000592 DNA-binding transcriptional regulator CpxR; Provisional; Region: PRK10955 225849000593 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849000594 active site 225849000595 phosphorylation site [posttranslational modification] 225849000596 intermolecular recognition site; other site 225849000597 dimerization interface [polypeptide binding]; other site 225849000598 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 225849000599 DNA binding site [nucleotide binding] 225849000600 CpxP component of the bacterial Cpx-two-component system and related proteins; Region: CpxP_like; cd09916 225849000601 dimer interface [polypeptide binding]; other site 225849000602 Cation efflux family; Region: Cation_efflux; cl00316 225849000603 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 225849000604 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 225849000605 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 225849000606 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 225849000607 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849000608 active site 225849000609 phosphorylation site [posttranslational modification] 225849000610 intermolecular recognition site; other site 225849000611 dimerization interface [polypeptide binding]; other site 225849000612 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 225849000613 Walker A motif; other site 225849000614 ATP binding site [chemical binding]; other site 225849000615 Walker B motif; other site 225849000616 arginine finger; other site 225849000617 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225849000618 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 225849000619 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 225849000620 putative active site [active] 225849000621 heme pocket [chemical binding]; other site 225849000622 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 225849000623 dimer interface [polypeptide binding]; other site 225849000624 phosphorylation site [posttranslational modification] 225849000625 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 225849000626 ATP binding site [chemical binding]; other site 225849000627 Mg2+ binding site [ion binding]; other site 225849000628 G-X-G motif; other site 225849000629 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 225849000630 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 225849000631 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 225849000632 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 225849000633 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 225849000634 putative C-terminal domain interface [polypeptide binding]; other site 225849000635 putative GSH binding site (G-site) [chemical binding]; other site 225849000636 putative dimer interface [polypeptide binding]; other site 225849000637 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 225849000638 N-terminal domain interface [polypeptide binding]; other site 225849000639 dimer interface [polypeptide binding]; other site 225849000640 substrate binding pocket (H-site) [chemical binding]; other site 225849000641 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 225849000642 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 225849000643 potential catalytic triad [active] 225849000644 conserved cys residue [active] 225849000645 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 225849000646 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 225849000647 dimer interface [polypeptide binding]; other site 225849000648 active site 225849000649 metal binding site [ion binding]; metal-binding site 225849000650 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225849000651 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225849000652 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 225849000653 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 225849000654 putative DNA binding site [nucleotide binding]; other site 225849000655 putative Zn2+ binding site [ion binding]; other site 225849000656 AsnC family; Region: AsnC_trans_reg; pfam01037 225849000657 Domain of unknown function (DUF1864); Region: DUF1864; pfam08933 225849000658 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 225849000659 kynureninase; Region: kynureninase; TIGR01814 225849000660 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 225849000661 catalytic residue [active] 225849000662 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 225849000663 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 225849000664 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 225849000665 non-specific DNA binding site [nucleotide binding]; other site 225849000666 salt bridge; other site 225849000667 sequence-specific DNA binding site [nucleotide binding]; other site 225849000668 CrcB-like protein; Region: CRCB; cl09114 225849000669 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 225849000670 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 225849000671 glutamine synthetase; Provisional; Region: glnA; PRK09469 225849000672 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 225849000673 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 225849000674 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 225849000675 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 225849000676 G1 box; other site 225849000677 putative GEF interaction site [polypeptide binding]; other site 225849000678 GTP/Mg2+ binding site [chemical binding]; other site 225849000679 Switch I region; other site 225849000680 G2 box; other site 225849000681 G3 box; other site 225849000682 Switch II region; other site 225849000683 G4 box; other site 225849000684 G5 box; other site 225849000685 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 225849000686 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 225849000687 Domain of Unknown Function (DUF350); Region: DUF350; pfam03994 225849000688 rhombotail lipoprotein; Region: rhombo_lipo; TIGR04179 225849000689 Predicted membrane protein [Function unknown]; Region: COG2311 225849000690 Protein of unknown function (DUF418); Region: DUF418; cl12135 225849000691 Protein of unknown function (DUF418); Region: DUF418; pfam04235 225849000692 4Fe-4S binding domain; Region: Fer4_5; pfam12801 225849000693 4Fe-4S binding domain; Region: Fer4_5; pfam12801 225849000694 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 225849000695 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 225849000696 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 225849000697 hypothetical protein; Reviewed; Region: PRK01637 225849000698 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 225849000699 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 225849000700 putative active site [active] 225849000701 dimerization interface [polypeptide binding]; other site 225849000702 putative tRNAtyr binding site [nucleotide binding]; other site 225849000703 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 225849000704 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 225849000705 active site residue [active] 225849000706 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 225849000707 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 225849000708 dimer interface [polypeptide binding]; other site 225849000709 active site 225849000710 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225849000711 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 225849000712 NAD(P) binding site [chemical binding]; other site 225849000713 active site 225849000714 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 225849000715 putative active site 1 [active] 225849000716 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 225849000717 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 225849000718 dimer interface [polypeptide binding]; other site 225849000719 active site 225849000720 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 225849000721 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 225849000722 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 225849000723 Predicted exporter [General function prediction only]; Region: COG4258 225849000724 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 225849000725 active site 225849000726 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 225849000727 active sites [active] 225849000728 tetramer interface [polypeptide binding]; other site 225849000729 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 225849000730 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 225849000731 Ligand binding site; other site 225849000732 Putative Catalytic site; other site 225849000733 DXD motif; other site 225849000734 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 225849000735 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 225849000736 putative acyl-acceptor binding pocket; other site 225849000737 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 225849000738 active site 2 [active] 225849000739 dimer interface [polypeptide binding]; other site 225849000740 active site 1 [active] 225849000741 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 225849000742 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 225849000743 acyl-activating enzyme (AAE) consensus motif; other site 225849000744 AMP binding site [chemical binding]; other site 225849000745 active site 225849000746 CoA binding site [chemical binding]; other site 225849000747 Predicted membrane protein [Function unknown]; Region: COG4648 225849000748 acyl carrier protein; Provisional; Region: PRK05350 225849000749 Phosphopantetheine attachment site; Region: PP-binding; cl09936 225849000750 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 225849000751 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 225849000752 putative acyl-acceptor binding pocket; other site 225849000753 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 225849000754 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 225849000755 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 225849000756 Y-family of DNA polymerases; Region: PolY; cl12025 225849000757 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 225849000758 generic binding surface II; other site 225849000759 ssDNA binding site; other site 225849000760 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 225849000761 ATP binding site [chemical binding]; other site 225849000762 putative Mg++ binding site [ion binding]; other site 225849000763 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 225849000764 nucleotide binding region [chemical binding]; other site 225849000765 ATP-binding site [chemical binding]; other site 225849000766 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 225849000767 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849000768 active site 225849000769 phosphorylation site [posttranslational modification] 225849000770 intermolecular recognition site; other site 225849000771 dimerization interface [polypeptide binding]; other site 225849000772 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 225849000773 DNA binding residues [nucleotide binding] 225849000774 dimerization interface [polypeptide binding]; other site 225849000775 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 225849000776 Histidine kinase; Region: HisKA_3; pfam07730 225849000777 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 225849000778 ATP binding site [chemical binding]; other site 225849000779 Mg2+ binding site [ion binding]; other site 225849000780 G-X-G motif; other site 225849000781 K+-dependent Na+/Ca+ exchanger related-protein; Region: TIGR00367 225849000782 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 225849000783 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 225849000784 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 225849000785 Bacterial long-chain fatty acid CoA synthetase (LC-FACS), including Marinobacter hydrocarbonoclasticus isoprenoid Coenzyme A synthetase; Region: LC_FACS_bac; cd05932 225849000786 acyl-activating enzyme (AAE) consensus motif; other site 225849000787 putative AMP binding site [chemical binding]; other site 225849000788 putative active site [active] 225849000789 putative CoA binding site [chemical binding]; other site 225849000790 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 225849000791 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 225849000792 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 225849000793 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 225849000794 homotrimer interaction site [polypeptide binding]; other site 225849000795 putative active site [active] 225849000796 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 225849000797 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225849000798 Zn2+ binding site [ion binding]; other site 225849000799 Mg2+ binding site [ion binding]; other site 225849000800 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 225849000801 synthetase active site [active] 225849000802 NTP binding site [chemical binding]; other site 225849000803 metal binding site [ion binding]; metal-binding site 225849000804 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 225849000805 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 225849000806 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 225849000807 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 225849000808 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 225849000809 catalytic site [active] 225849000810 G-X2-G-X-G-K; other site 225849000811 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 225849000812 active site 225849000813 Phosphotransferase enzyme family; Region: APH; pfam01636 225849000814 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 225849000815 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 225849000816 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 225849000817 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 225849000818 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 225849000819 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 225849000820 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 225849000821 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 225849000822 nucleophilic elbow; other site 225849000823 catalytic triad; other site 225849000824 Protein of unknown function (DUF4056); Region: DUF4056; pfam13265 225849000825 Surface antigen; Region: Bac_surface_Ag; pfam01103 225849000826 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 225849000827 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 225849000828 homodimer interface [polypeptide binding]; other site 225849000829 substrate-cofactor binding pocket; other site 225849000830 catalytic residue [active] 225849000831 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 225849000832 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 225849000833 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 225849000834 putative acyl-acceptor binding pocket; other site 225849000835 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 225849000836 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 225849000837 putative acyl-acceptor binding pocket; other site 225849000838 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 225849000839 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 225849000840 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 225849000841 Walker A motif; other site 225849000842 ATP binding site [chemical binding]; other site 225849000843 Walker B motif; other site 225849000844 arginine finger; other site 225849000845 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 225849000846 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 225849000847 GGGtGRT protein; Region: GGGtGRT; pfam14057 225849000848 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cl00528 225849000849 putative metal dependent hydrolase; Provisional; Region: PRK11598 225849000850 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 225849000851 Sulfatase; Region: Sulfatase; pfam00884 225849000852 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 225849000853 active site 225849000854 catalytic residues [active] 225849000855 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cl00218 225849000856 Predicted membrane protein (DUF2157); Region: DUF2157; pfam09925 225849000857 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 225849000858 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849000859 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 225849000860 substrate binding pocket [chemical binding]; other site 225849000861 dimerization interface [polypeptide binding]; other site 225849000862 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849000863 DNA-binding transcriptional regulator IlvY; Provisional; Region: PRK11716 225849000864 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 225849000865 putative dimerization interface [polypeptide binding]; other site 225849000866 ketol-acid reductoisomerase; Validated; Region: PRK05225 225849000867 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 225849000868 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 225849000869 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 225849000870 acetolactate synthase 2 catalytic subunit; Reviewed; Region: PRK08978 225849000871 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 225849000872 PYR/PP interface [polypeptide binding]; other site 225849000873 dimer interface [polypeptide binding]; other site 225849000874 TPP binding site [chemical binding]; other site 225849000875 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 225849000876 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 225849000877 TPP-binding site [chemical binding]; other site 225849000878 dimer interface [polypeptide binding]; other site 225849000879 acetolactate synthase 2 regulatory subunit; Provisional; Region: ilvM; PRK11152 225849000880 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 225849000881 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 225849000882 homodimer interface [polypeptide binding]; other site 225849000883 substrate-cofactor binding pocket; other site 225849000884 catalytic residue [active] 225849000885 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 225849000886 threonine dehydratase; Reviewed; Region: PRK09224 225849000887 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 225849000888 tetramer interface [polypeptide binding]; other site 225849000889 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849000890 catalytic residue [active] 225849000891 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 225849000892 putative Ile/Val binding site [chemical binding]; other site 225849000893 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 225849000894 putative Ile/Val binding site [chemical binding]; other site 225849000895 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 225849000896 homodimer interface [polypeptide binding]; other site 225849000897 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849000898 catalytic residue [active] 225849000899 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 225849000900 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 225849000901 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 225849000902 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 225849000903 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225849000904 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225849000905 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 225849000906 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 225849000907 Na2 binding site [ion binding]; other site 225849000908 putative substrate binding site 1 [chemical binding]; other site 225849000909 Na binding site 1 [ion binding]; other site 225849000910 putative substrate binding site 2 [chemical binding]; other site 225849000911 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 225849000912 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 225849000913 putative DNA binding site [nucleotide binding]; other site 225849000914 putative Zn2+ binding site [ion binding]; other site 225849000915 AsnC family; Region: AsnC_trans_reg; pfam01037 225849000916 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 225849000917 active site 225849000918 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 225849000919 Protein of unknown function, DUF417; Region: DUF417; cl01162 225849000920 Membrane fusogenic activity; Region: BMFP; pfam04380 225849000921 multidrug efflux protein; Reviewed; Region: PRK09579 225849000922 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849000923 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849000924 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849000925 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225849000926 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225849000927 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 225849000928 Part of AAA domain; Region: AAA_19; pfam13245 225849000929 Family description; Region: UvrD_C_2; pfam13538 225849000930 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 225849000931 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 225849000932 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 225849000933 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 225849000934 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849000935 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849000936 metal binding site [ion binding]; metal-binding site 225849000937 active site 225849000938 I-site; other site 225849000939 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 225849000940 MltA-interacting protein MipA; Region: MipA; cl01504 225849000941 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225849000942 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 225849000943 dimerization interface [polypeptide binding]; other site 225849000944 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 225849000945 dimer interface [polypeptide binding]; other site 225849000946 phosphorylation site [posttranslational modification] 225849000947 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 225849000948 ATP binding site [chemical binding]; other site 225849000949 Mg2+ binding site [ion binding]; other site 225849000950 G-X-G motif; other site 225849000951 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225849000952 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849000953 active site 225849000954 phosphorylation site [posttranslational modification] 225849000955 intermolecular recognition site; other site 225849000956 dimerization interface [polypeptide binding]; other site 225849000957 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 225849000958 DNA binding site [nucleotide binding] 225849000959 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 225849000960 MltA-interacting protein MipA; Region: MipA; cl01504 225849000961 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 225849000962 dimerization interface [polypeptide binding]; other site 225849000963 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849000964 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849000965 metal binding site [ion binding]; metal-binding site 225849000966 active site 225849000967 I-site; other site 225849000968 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 225849000969 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 225849000970 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 225849000971 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225849000972 ligand binding site [chemical binding]; other site 225849000973 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 225849000974 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 225849000975 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849000976 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849000977 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 225849000978 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 225849000979 putative active site [active] 225849000980 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 225849000981 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 225849000982 Walker A/P-loop; other site 225849000983 ATP binding site [chemical binding]; other site 225849000984 Q-loop/lid; other site 225849000985 ABC transporter signature motif; other site 225849000986 Walker B; other site 225849000987 D-loop; other site 225849000988 H-loop/switch region; other site 225849000989 Calx-beta domain; Region: Calx-beta; cl02522 225849000990 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 225849000991 metal ion-dependent adhesion site (MIDAS); other site 225849000992 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 225849000993 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849000994 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849000995 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849000996 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849000997 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 225849000998 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 225849000999 metal ion-dependent adhesion site (MIDAS); other site 225849001000 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 225849001001 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 225849001002 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849001003 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849001004 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849001005 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849001006 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemY; COG3071 225849001007 HemY protein N-terminus; Region: HemY_N; pfam07219 225849001008 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 225849001009 Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]; Region: HemX; COG2959 225849001010 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 225849001011 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 225849001012 active site 225849001013 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 225849001014 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 225849001015 domain interfaces; other site 225849001016 active site 225849001017 Adenylate cyclase NT domain; Region: Adenyl_cycl_N; pfam12633 225849001018 adenylate cyclase; Provisional; Region: cyaA; PRK09450 225849001019 Adenylate cyclase, class-I; Region: Adenylate_cycl; pfam01295 225849001020 Frataxin-like domain; Region: Frataxin_Cyay; pfam01491 225849001021 putative iron binding site [ion binding]; other site 225849001022 diaminopimelate decarboxylase; Region: lysA; TIGR01048 225849001023 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 225849001024 active site 225849001025 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 225849001026 substrate binding site [chemical binding]; other site 225849001027 catalytic residues [active] 225849001028 dimer interface [polypeptide binding]; other site 225849001029 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 225849001030 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 225849001031 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 225849001032 Protein of unknown function, DUF484; Region: DUF484; cl17449 225849001033 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 225849001034 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 225849001035 active site 225849001036 DNA binding site [nucleotide binding] 225849001037 Int/Topo IB signature motif; other site 225849001038 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 225849001039 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 225849001040 motif II; other site 225849001041 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 225849001042 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 225849001043 Hemerythrin-like domain; Region: Hr-like; cd12108 225849001044 Galactose oxidase, central domain; Region: Kelch_3; cl02701 225849001045 LemA family; Region: LemA; cl00742 225849001046 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 225849001047 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 225849001048 TadE-like protein; Region: TadE; pfam07811 225849001049 TadE-like protein; Region: TadE; pfam07811 225849001050 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 225849001051 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 225849001052 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 225849001053 catalytic triad [active] 225849001054 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 225849001055 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 225849001056 putative active site [active] 225849001057 metal binding site [ion binding]; metal-binding site 225849001058 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 225849001059 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 225849001060 NAD(P) binding site [chemical binding]; other site 225849001061 catalytic residues [active] 225849001062 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 225849001063 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 225849001064 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 225849001065 global DNA-binding transcriptional dual regulator Fis; Provisional; Region: fis; PRK00430 225849001066 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 225849001067 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 225849001068 FMN binding site [chemical binding]; other site 225849001069 active site 225849001070 catalytic residues [active] 225849001071 substrate binding site [chemical binding]; other site 225849001072 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 225849001073 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 225849001074 S-adenosylmethionine binding site [chemical binding]; other site 225849001075 fumarate reductase cytochrome b-556 subunit; Provisional; Region: PRK13554 225849001076 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 225849001077 Iron-sulfur protein interface; other site 225849001078 proximal heme binding site [chemical binding]; other site 225849001079 distal heme binding site [chemical binding]; other site 225849001080 dimer interface [polypeptide binding]; other site 225849001081 Quinol:fumarate reductase (QFR) Type B subfamily, transmembrane subunit; QFR couples the reduction of fumarate to succinate to the oxidation of quinol to quinone, the opposite reaction to that catalyzed by the related protein, succinate:quinone...; Region: QFR_TypeB_TM; cd00581 225849001082 Iron-sulfur protein interface; other site 225849001083 proximal heme binding site [chemical binding]; other site 225849001084 distal heme binding site [chemical binding]; other site 225849001085 dimer interface [polypeptide binding]; other site 225849001086 fumarate reductase flavoprotein subunit; Provisional; Region: PRK08626 225849001087 L-aspartate oxidase; Provisional; Region: PRK06175 225849001088 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 225849001089 fumarate reductase iron-sulfur subunit; Provisional; Region: frdB; PRK13552 225849001090 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 225849001091 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849001092 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849001093 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 225849001094 putative effector binding pocket; other site 225849001095 dimerization interface [polypeptide binding]; other site 225849001096 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 225849001097 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849001098 Coenzyme A binding pocket [chemical binding]; other site 225849001099 transcription termination factor Rho; Provisional; Region: rho; PRK09376 225849001100 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 225849001101 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 225849001102 RNA binding site [nucleotide binding]; other site 225849001103 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 225849001104 multimer interface [polypeptide binding]; other site 225849001105 Walker A motif; other site 225849001106 ATP binding site [chemical binding]; other site 225849001107 Walker B motif; other site 225849001108 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 225849001109 catalytic residues [active] 225849001110 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 225849001111 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 225849001112 ATP binding site [chemical binding]; other site 225849001113 Mg++ binding site [ion binding]; other site 225849001114 motif III; other site 225849001115 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 225849001116 nucleotide binding region [chemical binding]; other site 225849001117 ATP-binding site [chemical binding]; other site 225849001118 exopolyphosphatase; Region: exo_poly_only; TIGR03706 225849001119 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 225849001120 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 225849001121 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 225849001122 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 225849001123 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 225849001124 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 225849001125 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 225849001126 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 225849001127 catalytic residues [active] 225849001128 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 225849001129 dimer interface [polypeptide binding]; other site 225849001130 active site 225849001131 aspartate-rich active site metal binding site; other site 225849001132 allosteric magnesium binding site [ion binding]; other site 225849001133 Schiff base residues; other site 225849001134 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 225849001135 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 225849001136 Nucleolar protein 12 (25kDa); Region: Nop25; pfam09805 225849001137 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849001138 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849001139 metal binding site [ion binding]; metal-binding site 225849001140 active site 225849001141 I-site; other site 225849001142 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 225849001143 active site 225849001144 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 225849001145 sec-independent translocase; Provisional; Region: PRK01770 225849001146 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 225849001147 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 225849001148 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 225849001149 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 225849001150 SCP-2 sterol transfer family; Region: SCP2; pfam02036 225849001151 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 225849001152 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 225849001153 S-adenosylmethionine binding site [chemical binding]; other site 225849001154 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 225849001155 putative active site [active] 225849001156 putative metal binding site [ion binding]; other site 225849001157 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 225849001158 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 225849001159 active site 225849001160 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 225849001161 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 225849001162 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 225849001163 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 225849001164 ligand binding site [chemical binding]; other site 225849001165 flexible hinge region; other site 225849001166 putative transporter; Provisional; Region: PRK03699 225849001167 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 225849001168 putative substrate translocation pore; other site 225849001169 purine nucleoside phosphorylase; Provisional; Region: PRK13374 225849001170 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 225849001171 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 225849001172 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 225849001173 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 225849001174 Walker A motif; other site 225849001175 ATP binding site [chemical binding]; other site 225849001176 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 225849001177 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 225849001178 Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the...; Region: protease_HslV; cd01913 225849001179 active site 225849001180 HslU subunit interaction site [polypeptide binding]; other site 225849001181 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 225849001182 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 225849001183 RHS Repeat; Region: RHS_repeat; cl11982 225849001184 RHS Repeat; Region: RHS_repeat; pfam05593 225849001185 RHS Repeat; Region: RHS_repeat; pfam05593 225849001186 RHS protein; Region: RHS; pfam03527 225849001187 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 225849001188 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 225849001189 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 225849001190 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 225849001191 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 225849001192 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 225849001193 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 225849001194 Sporulation related domain; Region: SPOR; pfam05036 225849001195 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 225849001196 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 225849001197 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 225849001198 active site 225849001199 HIGH motif; other site 225849001200 KMSK motif region; other site 225849001201 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 225849001202 tRNA binding surface [nucleotide binding]; other site 225849001203 anticodon binding site; other site 225849001204 primosome assembly protein PriA; Validated; Region: PRK05580 225849001205 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 225849001206 ATP binding site [chemical binding]; other site 225849001207 putative Mg++ binding site [ion binding]; other site 225849001208 helicase superfamily c-terminal domain; Region: HELICc; smart00490 225849001209 FimV N-terminal domain; Region: FimV_core; TIGR03505 225849001210 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 225849001211 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 225849001212 Malic enzyme, N-terminal domain; Region: malic; pfam00390 225849001213 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 225849001214 putative NAD(P) binding site [chemical binding]; other site 225849001215 regulatory protein CsrD; Provisional; Region: PRK11059 225849001216 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849001217 metal binding site [ion binding]; metal-binding site 225849001218 active site 225849001219 I-site; other site 225849001220 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 225849001221 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 225849001222 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 225849001223 Pilus assembly protein, PilO; Region: PilO; cl01234 225849001224 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 225849001225 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 225849001226 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 225849001227 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 225849001228 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 225849001229 Walker A motif; other site 225849001230 ATP binding site [chemical binding]; other site 225849001231 Walker B motif; other site 225849001232 arginine finger; other site 225849001233 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 225849001234 TPR motif; other site 225849001235 binding surface 225849001236 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 225849001237 binding surface 225849001238 TPR motif; other site 225849001239 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 225849001240 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 225849001241 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 225849001242 Walker A motif; other site 225849001243 ATP binding site [chemical binding]; other site 225849001244 Walker B motif; other site 225849001245 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 225849001246 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 225849001247 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 225849001248 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 225849001249 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 225849001250 VcfQ bacterial pilus biogenesis protein, lectin domain; Region: lectin_VcfQ; cd06900 225849001251 putative metal binding site [ion binding]; other site 225849001252 rod shape-determining protein MreB; Provisional; Region: PRK13927 225849001253 MreB and similar proteins; Region: MreB_like; cd10225 225849001254 nucleotide binding site [chemical binding]; other site 225849001255 Mg binding site [ion binding]; other site 225849001256 putative protofilament interaction site [polypeptide binding]; other site 225849001257 RodZ interaction site [polypeptide binding]; other site 225849001258 rod shape-determining protein MreC; Provisional; Region: PRK13922 225849001259 rod shape-determining protein MreC; Region: MreC; pfam04085 225849001260 rod shape-determining protein MreD; Region: MreD; cl01087 225849001261 Maf-like protein; Region: Maf; pfam02545 225849001262 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 225849001263 active site 225849001264 dimer interface [polypeptide binding]; other site 225849001265 ribonuclease G; Provisional; Region: PRK11712 225849001266 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 225849001267 homodimer interface [polypeptide binding]; other site 225849001268 oligonucleotide binding site [chemical binding]; other site 225849001269 TIGR02099 family protein; Region: TIGR02099 225849001270 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 225849001271 Predicted amidohydrolase [General function prediction only]; Region: COG0388 225849001272 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 225849001273 putative active site [active] 225849001274 catalytic triad [active] 225849001275 dimer interface [polypeptide binding]; other site 225849001276 protease TldD; Provisional; Region: tldD; PRK10735 225849001277 Outer membrane efflux protein; Region: OEP; pfam02321 225849001278 Outer membrane efflux protein; Region: OEP; pfam02321 225849001279 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 225849001280 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849001281 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849001282 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 225849001283 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 225849001284 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 225849001285 hypothetical protein; Provisional; Region: PRK05255 225849001286 peptidase PmbA; Provisional; Region: PRK11040 225849001287 Alpha/beta hydrolase of unknown function (DUF915); Region: DUF915; pfam06028 225849001288 PGAP1-like protein; Region: PGAP1; pfam07819 225849001289 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 225849001290 dimerization interface [polypeptide binding]; other site 225849001291 putative DNA binding site [nucleotide binding]; other site 225849001292 putative Zn2+ binding site [ion binding]; other site 225849001293 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 225849001294 arsenical-resistance protein; Region: acr3; TIGR00832 225849001295 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 225849001296 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 225849001297 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 225849001298 Major Facilitator Superfamily; Region: MFS_1; pfam07690 225849001299 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 225849001300 amino acid carrier protein; Region: agcS; TIGR00835 225849001301 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 225849001302 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 225849001303 IHF dimer interface [polypeptide binding]; other site 225849001304 IHF - DNA interface [nucleotide binding]; other site 225849001305 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 225849001306 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849001307 active site 225849001308 phosphorylation site [posttranslational modification] 225849001309 intermolecular recognition site; other site 225849001310 dimerization interface [polypeptide binding]; other site 225849001311 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849001312 active site 225849001313 phosphorylation site [posttranslational modification] 225849001314 intermolecular recognition site; other site 225849001315 dimerization interface [polypeptide binding]; other site 225849001316 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 225849001317 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 225849001318 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 225849001319 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 225849001320 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849001321 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849001322 metal binding site [ion binding]; metal-binding site 225849001323 active site 225849001324 I-site; other site 225849001325 TraB family; Region: TraB; pfam01963 225849001326 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 225849001327 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 225849001328 active site 1 [active] 225849001329 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 225849001330 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 225849001331 active site 225849001332 catalytic tetrad [active] 225849001333 formate--tetrahydrofolate ligase; Provisional; Region: PRK13506 225849001334 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 225849001335 Potassium binding sites [ion binding]; other site 225849001336 Cesium cation binding sites [ion binding]; other site 225849001337 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 225849001338 Mechanosensitive ion channel; Region: MS_channel; pfam00924 225849001339 Periplasmic binding protein TroA_c. These proteins are predicted to function as initial receptors in the ABC metal ion uptake in eubacteria and archaea. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a...; Region: TroA_c; cd01145 225849001340 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 225849001341 putative ligand binding site [chemical binding]; other site 225849001342 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 225849001343 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 225849001344 1-acyl-sn-glycerol-3-phosphate acyltransferase; Provisional; Region: PRK15018 225849001345 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 225849001346 putative acyl-acceptor binding pocket; other site 225849001347 RNase E inhibitor protein; Provisional; Region: PRK11191 225849001348 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 225849001349 PAS domain; Region: PAS_9; pfam13426 225849001350 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849001351 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849001352 metal binding site [ion binding]; metal-binding site 225849001353 active site 225849001354 I-site; other site 225849001355 Response regulator receiver domain; Region: Response_reg; pfam00072 225849001356 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849001357 active site 225849001358 phosphorylation site [posttranslational modification] 225849001359 intermolecular recognition site; other site 225849001360 dimerization interface [polypeptide binding]; other site 225849001361 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 225849001362 enoyl-CoA hydratase; Provisional; Region: PRK07509 225849001363 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 225849001364 substrate binding site [chemical binding]; other site 225849001365 oxyanion hole (OAH) forming residues; other site 225849001366 trimer interface [polypeptide binding]; other site 225849001367 Uncharacterized protein family, UPF0114; Region: UPF0114; cl01078 225849001368 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 225849001369 ATP-dependent helicase HepA; Validated; Region: PRK04914 225849001370 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 225849001371 ATP binding site [chemical binding]; other site 225849001372 putative Mg++ binding site [ion binding]; other site 225849001373 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 225849001374 nucleotide binding region [chemical binding]; other site 225849001375 ATP-binding site [chemical binding]; other site 225849001376 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 225849001377 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 225849001378 putative active site [active] 225849001379 PhoH-like protein; Region: PhoH; pfam02562 225849001380 Cache domain; Region: Cache_1; pfam02743 225849001381 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 225849001382 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 225849001383 putative active site [active] 225849001384 heme pocket [chemical binding]; other site 225849001385 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 225849001386 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 225849001387 putative active site [active] 225849001388 heme pocket [chemical binding]; other site 225849001389 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 225849001390 dimer interface [polypeptide binding]; other site 225849001391 phosphorylation site [posttranslational modification] 225849001392 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 225849001393 ATP binding site [chemical binding]; other site 225849001394 Mg2+ binding site [ion binding]; other site 225849001395 G-X-G motif; other site 225849001396 Response regulator receiver domain; Region: Response_reg; pfam00072 225849001397 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849001398 active site 225849001399 phosphorylation site [posttranslational modification] 225849001400 intermolecular recognition site; other site 225849001401 dimerization interface [polypeptide binding]; other site 225849001402 Response regulator receiver domain; Region: Response_reg; pfam00072 225849001403 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849001404 active site 225849001405 phosphorylation site [posttranslational modification] 225849001406 intermolecular recognition site; other site 225849001407 dimerization interface [polypeptide binding]; other site 225849001408 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 225849001409 active site 225849001410 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 225849001411 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225849001412 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 225849001413 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849001414 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849001415 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849001416 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849001417 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 225849001418 putative effector binding pocket; other site 225849001419 dimerization interface [polypeptide binding]; other site 225849001420 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 225849001421 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 225849001422 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 225849001423 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 225849001424 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 225849001425 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 225849001426 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 225849001427 oligomerisation interface [polypeptide binding]; other site 225849001428 mobile loop; other site 225849001429 roof hairpin; other site 225849001430 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 225849001431 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 225849001432 ring oligomerisation interface [polypeptide binding]; other site 225849001433 ATP/Mg binding site [chemical binding]; other site 225849001434 stacking interactions; other site 225849001435 hinge regions; other site 225849001436 Nuclease-related domain; Region: NERD; pfam08378 225849001437 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 225849001438 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 225849001439 active site 225849001440 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 225849001441 P-type DNA transfer protein VirB5; Region: VirB5; TIGR02791 225849001442 Surface antigen; Region: Bac_surface_Ag; pfam01103 225849001443 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 225849001444 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 225849001445 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 225849001446 dimer interface [polypeptide binding]; other site 225849001447 PYR/PP interface [polypeptide binding]; other site 225849001448 TPP binding site [chemical binding]; other site 225849001449 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 225849001450 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 225849001451 TPP-binding site [chemical binding]; other site 225849001452 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849001453 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849001454 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 225849001455 dimerization interface [polypeptide binding]; other site 225849001456 MarC family integral membrane protein; Region: MarC; cl00919 225849001457 Surface antigen; Region: Bac_surface_Ag; pfam01103 225849001458 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 225849001459 Protein of unknown function (DUF2785); Region: DUF2785; pfam10978 225849001460 CCGSCS motif protein; Region: CCGSCS; TIGR04101 225849001461 Mannan-binding protein; Region: MVL; pfam12151 225849001462 Cytochrome c552; Region: Cytochrom_C552; pfam02335 225849001463 Cytochrome c552; Region: Cytochrom_C552; pfam02335 225849001464 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl17257 225849001465 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 225849001466 This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This...; Region: NifX_NifB; cl00252 225849001467 EamA-like transporter family; Region: EamA; pfam00892 225849001468 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 225849001469 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 225849001470 MarR family; Region: MarR; pfam01047 225849001471 Protein of unknown function (DUF2999); Region: DUF2999; pfam11212 225849001472 Predicted permeases [General function prediction only]; Region: COG0701 225849001473 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 225849001474 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 225849001475 dimerization interface [polypeptide binding]; other site 225849001476 putative DNA binding site [nucleotide binding]; other site 225849001477 putative Zn2+ binding site [ion binding]; other site 225849001478 Domain of Unknown Function with PDB structure (DUF3857); Region: DUF3857; pfam12969 225849001479 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 225849001480 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 225849001481 Transglutaminase-like superfamily; Region: Transglut_core; cl17362 225849001482 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 225849001483 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849001484 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849001485 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 225849001486 protein binding site [polypeptide binding]; other site 225849001487 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 225849001488 Active site serine [active] 225849001489 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 225849001490 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 225849001491 dimer interface [polypeptide binding]; other site 225849001492 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849001493 catalytic residue [active] 225849001494 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 225849001495 substrate binding site [chemical binding]; other site 225849001496 Phage terminase large subunit (GpA); Region: Terminase_GpA; pfam05876 225849001497 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849001498 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849001499 metal binding site [ion binding]; metal-binding site 225849001500 active site 225849001501 I-site; other site 225849001502 Domain of unknown function (DUF1888); Region: DUF1888; pfam08985 225849001503 Domain of unknown function (DUF1888); Region: DUF1888; pfam08985 225849001504 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 225849001505 DNA binding site [nucleotide binding] 225849001506 AAA ATPase domain; Region: AAA_16; pfam13191 225849001507 Molybdopterin-binding protein [Coenzyme metabolism]; Region: MopI; COG3585 225849001508 N-terminal Early set domain associated with the catalytic domain of chitinase; Region: E_set_Chitinase_N; cd02848 225849001509 Chitinase [Carbohydrate transport and metabolism]; Region: ChiA; COG3325 225849001510 The GH18 (glycosyl hydrolases, family 18) type II chitinases hydrolyze chitin, an abundant polymer of N-acetylglucosamine and have been identified in bacteria, fungi, insects, plants, viruses, and protozoan parasites. The structure of this domain is an...; Region: GH18_chitinase; cd06548 225849001511 active site 225849001512 Uncharacterized protein contain chitin-binding domain type 3 [General function prediction only]; Region: COG3979 225849001513 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 225849001514 aromatic chitin/cellulose binding site residues [chemical binding]; other site 225849001515 Chitin-binding domain of chitinase C; Region: ChiC_BD; cd12215 225849001516 aromatic chitin/cellulose binding site residues [chemical binding]; other site 225849001517 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 225849001518 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225849001519 Ferritin-like; Region: Ferritin-like; pfam12902 225849001520 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 225849001521 Major Facilitator Superfamily; Region: MFS_1; pfam07690 225849001522 putative substrate translocation pore; other site 225849001523 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 225849001524 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 225849001525 putative RNA binding site [nucleotide binding]; other site 225849001526 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 225849001527 S-adenosylmethionine binding site [chemical binding]; other site 225849001528 PGAP1-like protein; Region: PGAP1; pfam07819 225849001529 GAF domain; Region: GAF; pfam01590 225849001530 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 225849001531 non-specific DNA binding site [nucleotide binding]; other site 225849001532 salt bridge; other site 225849001533 sequence-specific DNA binding site [nucleotide binding]; other site 225849001534 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225849001535 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 225849001536 dimer interface [polypeptide binding]; other site 225849001537 phosphorylation site [posttranslational modification] 225849001538 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 225849001539 ATP binding site [chemical binding]; other site 225849001540 Mg2+ binding site [ion binding]; other site 225849001541 G-X-G motif; other site 225849001542 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225849001543 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849001544 active site 225849001545 phosphorylation site [posttranslational modification] 225849001546 intermolecular recognition site; other site 225849001547 dimerization interface [polypeptide binding]; other site 225849001548 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 225849001549 DNA binding site [nucleotide binding] 225849001550 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 225849001551 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 225849001552 Ligand binding site; other site 225849001553 Putative Catalytic site; other site 225849001554 DXD motif; other site 225849001555 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 225849001556 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 225849001557 Predicted membrane protein [Function unknown]; Region: COG2246 225849001558 GtrA-like protein; Region: GtrA; pfam04138 225849001559 Family description; Region: VCBS; pfam13517 225849001560 Family description; Region: VCBS; pfam13517 225849001561 Family description; Region: VCBS; pfam13517 225849001562 putative outer membrane lipoprotein; Provisional; Region: PRK10510 225849001563 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225849001564 ligand binding site [chemical binding]; other site 225849001565 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 225849001566 molybdate ABC transporter periplasmic molybdate-binding protein; Provisional; Region: PRK03537 225849001567 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 225849001568 MgtE intracellular N domain; Region: MgtE_N; smart00924 225849001569 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 225849001570 Divalent cation transporter; Region: MgtE; pfam01769 225849001571 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 225849001572 dimerization domain swap beta strand [polypeptide binding]; other site 225849001573 regulatory protein interface [polypeptide binding]; other site 225849001574 active site 225849001575 regulatory phosphorylation site [posttranslational modification]; other site 225849001576 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 225849001577 AAA domain; Region: AAA_18; pfam13238 225849001578 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 225849001579 active site 225849001580 phosphorylation site [posttranslational modification] 225849001581 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 225849001582 30S subunit binding site; other site 225849001583 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 225849001584 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 225849001585 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 225849001586 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 225849001587 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 225849001588 Walker A/P-loop; other site 225849001589 ATP binding site [chemical binding]; other site 225849001590 Q-loop/lid; other site 225849001591 ABC transporter signature motif; other site 225849001592 Walker B; other site 225849001593 D-loop; other site 225849001594 H-loop/switch region; other site 225849001595 OstA-like protein; Region: OstA; cl00844 225849001596 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 225849001597 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 225849001598 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 225849001599 3-deoxy-D-manno-octulosonate 8-phosphate phosphatase; Provisional; Region: PRK09484 225849001600 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 225849001601 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 225849001602 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 225849001603 putative active site [active] 225849001604 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 225849001605 putative calcium/sodium:proton antiporter; Provisional; Region: PRK10734 225849001606 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 225849001607 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 225849001608 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 225849001609 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 225849001610 Walker A/P-loop; other site 225849001611 ATP binding site [chemical binding]; other site 225849001612 Q-loop/lid; other site 225849001613 ABC transporter signature motif; other site 225849001614 Walker B; other site 225849001615 D-loop; other site 225849001616 H-loop/switch region; other site 225849001617 Permease; Region: Permease; cl00510 225849001618 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 225849001619 mce related protein; Region: MCE; pfam02470 225849001620 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 225849001621 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 225849001622 anti sigma factor interaction site; other site 225849001623 regulatory phosphorylation site [posttranslational modification]; other site 225849001624 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 225849001625 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 225849001626 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 225849001627 hinge; other site 225849001628 active site 225849001629 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225849001630 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 225849001631 dimer interface [polypeptide binding]; other site 225849001632 phosphorylation site [posttranslational modification] 225849001633 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 225849001634 ATP binding site [chemical binding]; other site 225849001635 Mg2+ binding site [ion binding]; other site 225849001636 G-X-G motif; other site 225849001637 Response regulator receiver domain; Region: Response_reg; pfam00072 225849001638 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849001639 active site 225849001640 phosphorylation site [posttranslational modification] 225849001641 intermolecular recognition site; other site 225849001642 dimerization interface [polypeptide binding]; other site 225849001643 Helix-turn-helix domain; Region: HTH_20; pfam12840 225849001644 dimerization interface [polypeptide binding]; other site 225849001645 putative DNA binding site [nucleotide binding]; other site 225849001646 putative Zn2+ binding site [ion binding]; other site 225849001647 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 225849001648 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 225849001649 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 225849001650 protein binding site [polypeptide binding]; other site 225849001651 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 225849001652 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 225849001653 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 225849001654 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 225849001655 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 225849001656 Predicted ATPase [General function prediction only]; Region: COG1485 225849001657 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 225849001658 23S rRNA interface [nucleotide binding]; other site 225849001659 L3 interface [polypeptide binding]; other site 225849001660 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 225849001661 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 225849001662 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 225849001663 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 225849001664 GDP-binding site [chemical binding]; other site 225849001665 ACT binding site; other site 225849001666 IMP binding site; other site 225849001667 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 225849001668 exoribonuclease R; Provisional; Region: PRK11642 225849001669 Ribonuclease R winged-helix domain; Region: HTH_12; pfam08461 225849001670 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 225849001671 RNB domain; Region: RNB; pfam00773 225849001672 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 225849001673 RNA binding site [nucleotide binding]; other site 225849001674 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 225849001675 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 225849001676 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 225849001677 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 225849001678 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225849001679 Protein of unknown function, DUF481; Region: DUF481; pfam04338 225849001680 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 225849001681 primosomal replication protein N; Provisional; Region: PRK02801 225849001682 generic binding surface II; other site 225849001683 generic binding surface I; other site 225849001684 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 225849001685 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 225849001686 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 225849001687 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 225849001688 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 225849001689 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 225849001690 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 225849001691 Peptidase S46; Region: Peptidase_S46; pfam10459 225849001692 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 225849001693 replicative DNA helicase; Provisional; Region: PRK08840 225849001694 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 225849001695 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 225849001696 Walker A motif; other site 225849001697 ATP binding site [chemical binding]; other site 225849001698 Walker B motif; other site 225849001699 DNA binding loops [nucleotide binding] 225849001700 alanine racemase; Reviewed; Region: alr; PRK00053 225849001701 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 225849001702 active site 225849001703 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 225849001704 substrate binding site [chemical binding]; other site 225849001705 catalytic residues [active] 225849001706 dimer interface [polypeptide binding]; other site 225849001707 Surface antigen; Region: Bac_surface_Ag; pfam01103 225849001708 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 225849001709 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849001710 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849001711 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 225849001712 dimerization interface [polypeptide binding]; other site 225849001713 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849001714 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849001715 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 225849001716 dimerization interface [polypeptide binding]; other site 225849001717 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 225849001718 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 225849001719 molybdopterin cofactor binding site; other site 225849001720 The MopB_CT_DmsA-EC CD includes the DmsA enzyme of the dmsABC operon encoding the anaerobic dimethylsulfoxide reductase (DMSOR) of Escherichia coli and other related DMSOR-like enzymes. Unlike other DMSOR-like enzymes, this group has a predicted...; Region: MopB_CT_DmsA-EC; cd02794 225849001721 putative molybdopterin cofactor binding site; other site 225849001722 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 225849001723 4Fe-4S binding domain; Region: Fer4; pfam00037 225849001724 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 225849001725 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 225849001726 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 225849001727 FMN binding site [chemical binding]; other site 225849001728 active site 225849001729 catalytic residues [active] 225849001730 substrate binding site [chemical binding]; other site 225849001731 PspC domain; Region: PspC; pfam04024 225849001732 enoyl-CoA hydratase; Provisional; Region: PRK06688 225849001733 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 225849001734 substrate binding site [chemical binding]; other site 225849001735 oxyanion hole (OAH) forming residues; other site 225849001736 trimer interface [polypeptide binding]; other site 225849001737 Protein of unknown function (DUF461); Region: DUF461; pfam04314 225849001738 Uncharacterized protein conserved in bacteria (DUF2333); Region: DUF2333; pfam10095 225849001739 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 225849001740 Protein of unknown function (DUF2390); Region: DUF2390; pfam09523 225849001741 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 225849001742 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849001743 Walker A/P-loop; other site 225849001744 ATP binding site [chemical binding]; other site 225849001745 Q-loop/lid; other site 225849001746 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 225849001747 ABC transporter; Region: ABC_tran_2; pfam12848 225849001748 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 225849001749 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 225849001750 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 225849001751 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 225849001752 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 225849001753 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 225849001754 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 225849001755 ATP binding site [chemical binding]; other site 225849001756 Mg++ binding site [ion binding]; other site 225849001757 motif III; other site 225849001758 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 225849001759 nucleotide binding region [chemical binding]; other site 225849001760 ATP-binding site [chemical binding]; other site 225849001761 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 225849001762 putative RNA binding site [nucleotide binding]; other site 225849001763 HDOD domain; Region: HDOD; pfam08668 225849001764 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 225849001765 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 225849001766 inhibitor-cofactor binding pocket; inhibition site 225849001767 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849001768 catalytic residue [active] 225849001769 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 225849001770 Arginine N-succinyltransferase beta subunit; Region: AstA; pfam04958 225849001771 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 225849001772 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 225849001773 NAD(P) binding site [chemical binding]; other site 225849001774 catalytic residues [active] 225849001775 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 225849001776 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225849001777 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 225849001778 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 225849001779 ATP binding site [chemical binding]; other site 225849001780 Mg2+ binding site [ion binding]; other site 225849001781 G-X-G motif; other site 225849001782 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225849001783 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849001784 active site 225849001785 phosphorylation site [posttranslational modification] 225849001786 intermolecular recognition site; other site 225849001787 dimerization interface [polypeptide binding]; other site 225849001788 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 225849001789 DNA binding site [nucleotide binding] 225849001790 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 225849001791 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 225849001792 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 225849001793 ligand binding site [chemical binding]; other site 225849001794 flexible hinge region; other site 225849001795 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 225849001796 putative switch regulator; other site 225849001797 non-specific DNA interactions [nucleotide binding]; other site 225849001798 DNA binding site [nucleotide binding] 225849001799 sequence specific DNA binding site [nucleotide binding]; other site 225849001800 putative cAMP binding site [chemical binding]; other site 225849001801 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 225849001802 phosphoribulokinase; Provisional; Region: PRK15453 225849001803 active site 225849001804 Uncharacterized protein family (UPF0270); Region: UPF0270; cl01180 225849001805 putative hydrolase; Provisional; Region: PRK10985 225849001806 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 225849001807 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 225849001808 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 225849001809 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 225849001810 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 225849001811 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 225849001812 dimer interface [polypeptide binding]; other site 225849001813 ADP-ribose binding site [chemical binding]; other site 225849001814 active site 225849001815 nudix motif; other site 225849001816 metal binding site [ion binding]; metal-binding site 225849001817 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 225849001818 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 225849001819 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 225849001820 active site 225849001821 metal binding site [ion binding]; metal-binding site 225849001822 hexamer interface [polypeptide binding]; other site 225849001823 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 225849001824 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 225849001825 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 225849001826 ATP binding site [chemical binding]; other site 225849001827 Mg2+ binding site [ion binding]; other site 225849001828 G-X-G motif; other site 225849001829 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 225849001830 anchoring element; other site 225849001831 dimer interface [polypeptide binding]; other site 225849001832 ATP binding site [chemical binding]; other site 225849001833 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 225849001834 active site 225849001835 metal binding site [ion binding]; metal-binding site 225849001836 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 225849001837 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 225849001838 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 225849001839 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 225849001840 CAP-like domain; other site 225849001841 active site 225849001842 primary dimer interface [polypeptide binding]; other site 225849001843 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 225849001844 Putative D-isomer specific 2-hydroxyacid dehydrogenase; Region: 2-Hacid_dh_1; cd05300 225849001845 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 225849001846 NAD binding site [chemical binding]; other site 225849001847 ligand binding site [chemical binding]; other site 225849001848 catalytic site [active] 225849001849 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 225849001850 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 225849001851 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 225849001852 active site 225849001853 catalytic site [active] 225849001854 putative mechanosensitive channel protein; Provisional; Region: PRK10929 225849001855 Mechanosensitive ion channel inner membrane domain 1; Region: MscS_TM; pfam12794 225849001856 Mechanosensitive ion channel; Region: MS_channel; pfam00924 225849001857 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 225849001858 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 225849001859 GTPase RsgA; Reviewed; Region: PRK12288 225849001860 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 225849001861 RNA binding site [nucleotide binding]; other site 225849001862 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 225849001863 GTPase/Zn-binding domain interface [polypeptide binding]; other site 225849001864 GTP/Mg2+ binding site [chemical binding]; other site 225849001865 G4 box; other site 225849001866 G5 box; other site 225849001867 G1 box; other site 225849001868 Switch I region; other site 225849001869 G2 box; other site 225849001870 G3 box; other site 225849001871 Switch II region; other site 225849001872 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 225849001873 catalytic site [active] 225849001874 putative active site [active] 225849001875 putative substrate binding site [chemical binding]; other site 225849001876 dimer interface [polypeptide binding]; other site 225849001877 putative carbohydrate kinase; Provisional; Region: PRK10565 225849001878 Uncharacterized conserved protein [Function unknown]; Region: COG0062 225849001879 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 225849001880 putative substrate binding site [chemical binding]; other site 225849001881 putative ATP binding site [chemical binding]; other site 225849001882 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 225849001883 AMIN domain; Region: AMIN; pfam11741 225849001884 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 225849001885 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 225849001886 active site 225849001887 metal binding site [ion binding]; metal-binding site 225849001888 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 225849001889 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 225849001890 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 225849001891 ATP binding site [chemical binding]; other site 225849001892 Mg2+ binding site [ion binding]; other site 225849001893 G-X-G motif; other site 225849001894 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 225849001895 ATP binding site [chemical binding]; other site 225849001896 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 225849001897 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 225849001898 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 225849001899 bacterial Hfq-like; Region: Hfq; cd01716 225849001900 hexamer interface [polypeptide binding]; other site 225849001901 Sm1 motif; other site 225849001902 RNA binding site [nucleotide binding]; other site 225849001903 Sm2 motif; other site 225849001904 GTPase HflX; Provisional; Region: PRK11058 225849001905 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 225849001906 HflX GTPase family; Region: HflX; cd01878 225849001907 G1 box; other site 225849001908 GTP/Mg2+ binding site [chemical binding]; other site 225849001909 Switch I region; other site 225849001910 G2 box; other site 225849001911 G3 box; other site 225849001912 Switch II region; other site 225849001913 G4 box; other site 225849001914 G5 box; other site 225849001915 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 225849001916 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 225849001917 HflK protein; Region: hflK; TIGR01933 225849001918 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 225849001919 FtsH protease regulator HflC; Provisional; Region: PRK11029 225849001920 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 225849001921 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 225849001922 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 225849001923 [2Fe-2S] cluster binding site [ion binding]; other site 225849001924 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 225849001925 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 225849001926 Qi binding site; other site 225849001927 intrachain domain interface; other site 225849001928 interchain domain interface [polypeptide binding]; other site 225849001929 heme bH binding site [chemical binding]; other site 225849001930 heme bL binding site [chemical binding]; other site 225849001931 Qo binding site; other site 225849001932 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cd00290 225849001933 interchain domain interface [polypeptide binding]; other site 225849001934 intrachain domain interface; other site 225849001935 Qi binding site; other site 225849001936 Qo binding site; other site 225849001937 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 225849001938 stringent starvation protein A; Provisional; Region: sspA; PRK09481 225849001939 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 225849001940 C-terminal domain interface [polypeptide binding]; other site 225849001941 putative GSH binding site (G-site) [chemical binding]; other site 225849001942 dimer interface [polypeptide binding]; other site 225849001943 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 225849001944 dimer interface [polypeptide binding]; other site 225849001945 N-terminal domain interface [polypeptide binding]; other site 225849001946 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 225849001947 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 225849001948 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 225849001949 glutamine binding [chemical binding]; other site 225849001950 catalytic triad [active] 225849001951 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 225849001952 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225849001953 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 225849001954 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 225849001955 ATP binding site [chemical binding]; other site 225849001956 Mg++ binding site [ion binding]; other site 225849001957 motif III; other site 225849001958 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 225849001959 nucleotide binding region [chemical binding]; other site 225849001960 ATP-binding site [chemical binding]; other site 225849001961 Protein of unknown function (DUF3565); Region: DUF3565; pfam12088 225849001962 Protein of unknown function (DUF3622); Region: DUF3622; pfam12286 225849001963 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11174 225849001964 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 225849001965 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849001966 Walker A/P-loop; other site 225849001967 ATP binding site [chemical binding]; other site 225849001968 Q-loop/lid; other site 225849001969 ABC transporter signature motif; other site 225849001970 Walker B; other site 225849001971 D-loop; other site 225849001972 H-loop/switch region; other site 225849001973 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed; Region: PRK11160 225849001974 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849001975 Walker A/P-loop; other site 225849001976 ATP binding site [chemical binding]; other site 225849001977 Q-loop/lid; other site 225849001978 ABC transporter signature motif; other site 225849001979 Walker B; other site 225849001980 D-loop; other site 225849001981 H-loop/switch region; other site 225849001982 Cache domain; Region: Cache_1; pfam02743 225849001983 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 225849001984 dimerization interface [polypeptide binding]; other site 225849001985 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225849001986 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849001987 dimer interface [polypeptide binding]; other site 225849001988 putative CheW interface [polypeptide binding]; other site 225849001989 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 225849001990 Proline dehydrogenase; Region: Pro_dh; pfam01619 225849001991 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 225849001992 Glutamate binding site [chemical binding]; other site 225849001993 NAD binding site [chemical binding]; other site 225849001994 catalytic residues [active] 225849001995 Bacterial SH3 domain homologues; Region: SH3b; smart00287 225849001996 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 225849001997 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 225849001998 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 225849001999 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 225849002000 Uncharacterized conserved protein [Function unknown]; Region: COG3025 225849002001 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 225849002002 putative active site [active] 225849002003 putative metal binding residues [ion binding]; other site 225849002004 signature motif; other site 225849002005 putative triphosphate binding site [ion binding]; other site 225849002006 Ion transport protein; Region: Ion_trans; pfam00520 225849002007 Ion channel; Region: Ion_trans_2; pfam07885 225849002008 Domain of unknown function (DUF4178); Region: DUF4178; pfam13785 225849002009 PspA/IM30 family; Region: PspA_IM30; pfam04012 225849002010 Uncharacterized protein conserved in bacteria (DUF2170); Region: DUF2170; pfam09938 225849002011 spermidine synthase; Provisional; Region: PRK03612 225849002012 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 225849002013 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 225849002014 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 225849002015 metal binding triad; other site 225849002016 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 225849002017 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 225849002018 metal binding triad; other site 225849002019 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 225849002020 Domain of unknown function (DUF4347); Region: DUF4347; pfam14252 225849002021 SnoaL-like domain; Region: SnoaL_2; pfam12680 225849002022 Protein of unknown function (DUF3224); Region: DUF3224; pfam11528 225849002023 Predicted ATPase [General function prediction only]; Region: COG1485 225849002024 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 225849002025 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 225849002026 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 225849002027 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 225849002028 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 225849002029 GAF domain; Region: GAF; pfam01590 225849002030 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 225849002031 Walker A motif; other site 225849002032 ATP binding site [chemical binding]; other site 225849002033 Walker B motif; other site 225849002034 arginine finger; other site 225849002035 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 225849002036 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 225849002037 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 225849002038 putative acyl-acceptor binding pocket; other site 225849002039 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 225849002040 cellulose synthase; Region: PLN02189 225849002041 Helix-turn-helix domain; Region: HTH_17; pfam12728 225849002042 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 225849002043 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 225849002044 cofactor binding site; other site 225849002045 DNA binding site [nucleotide binding] 225849002046 substrate interaction site [chemical binding]; other site 225849002047 SinI restriction endonuclease; Region: RE_SinI; pfam09570 225849002048 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225849002049 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 225849002050 Transcription factor zinc-finger; Region: zf-TFIIB; pfam13453 225849002051 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 225849002052 MltA-interacting protein MipA; Region: MipA; cl01504 225849002053 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 225849002054 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 225849002055 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 225849002056 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 225849002057 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 225849002058 ligand binding site [chemical binding]; other site 225849002059 homodimer interface [polypeptide binding]; other site 225849002060 NAD(P) binding site [chemical binding]; other site 225849002061 trimer interface B [polypeptide binding]; other site 225849002062 trimer interface A [polypeptide binding]; other site 225849002063 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 225849002064 Flavodoxin; Region: Flavodoxin_1; pfam00258 225849002065 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 225849002066 FAD binding pocket [chemical binding]; other site 225849002067 FAD binding motif [chemical binding]; other site 225849002068 catalytic residues [active] 225849002069 NAD binding pocket [chemical binding]; other site 225849002070 phosphate binding motif [ion binding]; other site 225849002071 beta-alpha-beta structure motif; other site 225849002072 sulfite reductase subunit beta; Provisional; Region: PRK13504 225849002073 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 225849002074 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 225849002075 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 225849002076 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 225849002077 Active Sites [active] 225849002078 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 225849002079 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 225849002080 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 225849002081 catalytic triad [active] 225849002082 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 225849002083 tetramer (dimer of dimers) interface [polypeptide binding]; other site 225849002084 active site 225849002085 dimer interface [polypeptide binding]; other site 225849002086 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 225849002087 Transposase; Region: DEDD_Tnp_IS110; pfam01548 225849002088 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 225849002089 Protein of unknown function (DUF808); Region: DUF808; pfam05661 225849002090 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 225849002091 putative metal binding site [ion binding]; other site 225849002092 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 225849002093 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 225849002094 PhoD-like phosphatase; Region: PhoD; pfam09423 225849002095 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 225849002096 putative active site [active] 225849002097 putative metal binding site [ion binding]; other site 225849002098 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 225849002099 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 225849002100 active site 225849002101 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 225849002102 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 225849002103 Zn binding site [ion binding]; other site 225849002104 uncharacterized proteobacterial lipoprotein; Region: lp_; TIGR02722 225849002105 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3014 225849002106 SlyX; Region: SlyX; pfam04102 225849002107 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK10902 225849002108 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 225849002109 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 225849002110 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 225849002111 Protein of unknown function (DUF1289); Region: DUF1289; cl01304 225849002112 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225849002113 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 225849002114 dimer interface [polypeptide binding]; other site 225849002115 phosphorylation site [posttranslational modification] 225849002116 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 225849002117 ATP binding site [chemical binding]; other site 225849002118 Mg2+ binding site [ion binding]; other site 225849002119 G-X-G motif; other site 225849002120 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 225849002121 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849002122 active site 225849002123 phosphorylation site [posttranslational modification] 225849002124 intermolecular recognition site; other site 225849002125 dimerization interface [polypeptide binding]; other site 225849002126 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 225849002127 DNA binding site [nucleotide binding] 225849002128 Protein of unknown function (DUF3019); Region: DUF3019; pfam11456 225849002129 MltA-interacting protein MipA; Region: MipA; cl01504 225849002130 YcxB-like protein; Region: YcxB; pfam14317 225849002131 Domain of unknown function (DUF1971); Region: DUF1971; cl17717 225849002132 universal stress protein UspE; Provisional; Region: PRK11175 225849002133 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 225849002134 Ligand Binding Site [chemical binding]; other site 225849002135 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 225849002136 Ligand Binding Site [chemical binding]; other site 225849002137 short chain dehydrogenase; Provisional; Region: PRK08251 225849002138 classical (c) SDR, subgroup 6; Region: SDR_c6; cd05350 225849002139 putative NAD(P) binding site [chemical binding]; other site 225849002140 active site 225849002141 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 225849002142 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 225849002143 active site 225849002144 metal binding site [ion binding]; metal-binding site 225849002145 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 225849002146 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 225849002147 Predicted transcriptional regulator [Transcription]; Region: COG2345 225849002148 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 225849002149 putative DNA binding site [nucleotide binding]; other site 225849002150 putative Zn2+ binding site [ion binding]; other site 225849002151 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 225849002152 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 225849002153 RNA binding surface [nucleotide binding]; other site 225849002154 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 225849002155 active site 225849002156 uracil binding [chemical binding]; other site 225849002157 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849002158 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 225849002159 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 225849002160 dimerization interface [polypeptide binding]; other site 225849002161 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 225849002162 GPR1/FUN34/yaaH family; Region: Grp1_Fun34_YaaH; cl00685 225849002163 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 225849002164 Major Facilitator Superfamily; Region: MFS_1; pfam07690 225849002165 putative substrate translocation pore; other site 225849002166 LrgB-like family; Region: LrgB; pfam04172 225849002167 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 225849002168 Proteolipid membrane potential modulator; Region: Pmp3; cl00431 225849002169 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 225849002170 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 225849002171 HIGH motif; other site 225849002172 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 225849002173 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 225849002174 active site 225849002175 KMSKS motif; other site 225849002176 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 225849002177 tRNA binding surface [nucleotide binding]; other site 225849002178 anticodon binding site; other site 225849002179 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 225849002180 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 225849002181 Cell division protein ZapA; Region: ZapA; pfam05164 225849002182 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 225849002183 2-octaprenyl-6-methoxyphenyl hydroxylase; Validated; Region: PRK05732 225849002184 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 225849002185 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 225849002186 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 225849002187 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 225849002188 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 225849002189 glycine cleavage system protein H; Provisional; Region: PRK13380 225849002190 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 225849002191 lipoyl attachment site [posttranslational modification]; other site 225849002192 glycine dehydrogenase; Provisional; Region: PRK05367 225849002193 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 225849002194 tetramer interface [polypeptide binding]; other site 225849002195 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849002196 catalytic residue [active] 225849002197 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 225849002198 tetramer interface [polypeptide binding]; other site 225849002199 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849002200 catalytic residue [active] 225849002201 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 225849002202 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cl03439 225849002203 heme-binding residues [chemical binding]; other site 225849002204 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 225849002205 Helix-turn-helix domain; Region: HTH_18; pfam12833 225849002206 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225849002207 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 225849002208 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 225849002209 N-terminal plug; other site 225849002210 ligand-binding site [chemical binding]; other site 225849002211 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 225849002212 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 225849002213 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 225849002214 active site 225849002215 Domain of unknown function (DUF1842); Region: DUF1842; pfam08896 225849002216 Inclusion body protein; Region: PixA; pfam12306 225849002217 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12668 225849002218 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 225849002219 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 225849002220 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 225849002221 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 225849002222 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 225849002223 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK07375 225849002224 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12507 225849002225 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 225849002226 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12508 225849002227 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; pfam03334 225849002228 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12599 225849002229 Na+/H+ ion antiporter subunit; Region: MNHE; pfam01899 225849002230 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 225849002231 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 225849002232 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 225849002233 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 225849002234 Cephalosporin acylase (CA) belongs to a family of beta-lactam acylases that includes penicillin G acylase (PGA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_CA; cd01936 225849002235 active site 225849002236 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 225849002237 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; cl00246 225849002238 FAD binding site [chemical binding]; other site 225849002239 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 225849002240 C factor cell-cell signaling protein; Provisional; Region: PRK09009 225849002241 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 225849002242 NADP binding site [chemical binding]; other site 225849002243 homodimer interface [polypeptide binding]; other site 225849002244 active site 225849002245 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 225849002246 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 225849002247 N-terminal plug; other site 225849002248 ligand-binding site [chemical binding]; other site 225849002249 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 225849002250 catalytic motif [active] 225849002251 Zn binding site [ion binding]; other site 225849002252 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 225849002253 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 225849002254 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 225849002255 active site 225849002256 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 225849002257 FOG: CBS domain [General function prediction only]; Region: COG0517 225849002258 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 225849002259 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 225849002260 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 225849002261 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 225849002262 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 225849002263 Beta-lactamase; Region: Beta-lactamase; pfam00144 225849002264 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849002265 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849002266 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 225849002267 dimerization interface [polypeptide binding]; other site 225849002268 Protein of unknown function (DUF3083); Region: DUF3083; pfam11281 225849002269 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849002270 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849002271 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 225849002272 dimerization interface [polypeptide binding]; other site 225849002273 succinic semialdehyde dehydrogenase; Region: PLN02278 225849002274 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 225849002275 tetramerization interface [polypeptide binding]; other site 225849002276 NAD(P) binding site [chemical binding]; other site 225849002277 catalytic residues [active] 225849002278 4-aminobutyrate aminotransferase; Provisional; Region: PRK07495 225849002279 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 225849002280 inhibitor-cofactor binding pocket; inhibition site 225849002281 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849002282 catalytic residue [active] 225849002283 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 225849002284 Iron-binding zinc finger CDGSH type; Region: zf-CDGSH; pfam09360 225849002285 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 225849002286 active site 225849002287 FMN binding site [chemical binding]; other site 225849002288 substrate binding site [chemical binding]; other site 225849002289 3Fe-4S cluster binding site [ion binding]; other site 225849002290 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 225849002291 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 225849002292 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 225849002293 catalytic residue [active] 225849002294 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 225849002295 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 225849002296 FMN binding site [chemical binding]; other site 225849002297 active site 225849002298 substrate binding site [chemical binding]; other site 225849002299 catalytic residue [active] 225849002300 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225849002301 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225849002302 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 225849002303 PII uridylyl-transferase; Provisional; Region: PRK05007 225849002304 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 225849002305 metal binding triad; other site 225849002306 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 225849002307 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225849002308 Zn2+ binding site [ion binding]; other site 225849002309 Mg2+ binding site [ion binding]; other site 225849002310 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 225849002311 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 225849002312 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 225849002313 active site 225849002314 tetramer interface [polypeptide binding]; other site 225849002315 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 225849002316 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 225849002317 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 225849002318 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 225849002319 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225849002320 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225849002321 Ribosome recycling factor; Region: RRF_GI; pfam12614 225849002322 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 225849002323 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 225849002324 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849002325 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849002326 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 225849002327 dimerization interface [polypeptide binding]; other site 225849002328 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 225849002329 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225849002330 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 225849002331 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 225849002332 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 225849002333 substrate binding pocket [chemical binding]; other site 225849002334 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 225849002335 B12 binding site [chemical binding]; other site 225849002336 cobalt ligand [ion binding]; other site 225849002337 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 225849002338 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 225849002339 catalytic core [active] 225849002340 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 225849002341 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 225849002342 Walker A/P-loop; other site 225849002343 ATP binding site [chemical binding]; other site 225849002344 Q-loop/lid; other site 225849002345 ABC transporter signature motif; other site 225849002346 Walker B; other site 225849002347 D-loop; other site 225849002348 H-loop/switch region; other site 225849002349 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 225849002350 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 225849002351 ABC-ATPase subunit interface; other site 225849002352 dimer interface [polypeptide binding]; other site 225849002353 putative PBP binding regions; other site 225849002354 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 225849002355 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 225849002356 putative dimer interface [polypeptide binding]; other site 225849002357 active site pocket [active] 225849002358 putative cataytic base [active] 225849002359 cobalamin synthase; Reviewed; Region: cobS; PRK00235 225849002360 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 225849002361 homotrimer interface [polypeptide binding]; other site 225849002362 Walker A motif; other site 225849002363 GTP binding site [chemical binding]; other site 225849002364 Walker B motif; other site 225849002365 cobyric acid synthase; Provisional; Region: PRK00784 225849002366 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 225849002367 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 225849002368 catalytic triad [active] 225849002369 Cob(I)alamin adenosyltransferase N terminal; Region: Co_AT_N; pfam12557 225849002370 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 225849002371 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 225849002372 homodimer interface [polypeptide binding]; other site 225849002373 Walker A motif; other site 225849002374 ATP binding site [chemical binding]; other site 225849002375 hydroxycobalamin binding site [chemical binding]; other site 225849002376 Walker B motif; other site 225849002377 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 225849002378 PCI domain; Region: PCI; cl02111 225849002379 Integrase core domain; Region: rve; pfam00665 225849002380 AAA domain; Region: AAA_22; pfam13401 225849002381 Bacterial TniB protein; Region: TniB; pfam05621 225849002382 AAA domain; Region: AAA_22; pfam13401 225849002383 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 225849002384 ATP binding site [chemical binding]; other site 225849002385 putative Mg++ binding site [ion binding]; other site 225849002386 Helicase conserved C-terminal domain; Region: Helicase_C; pfam00271 225849002387 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 225849002388 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 225849002389 non-specific DNA binding site [nucleotide binding]; other site 225849002390 salt bridge; other site 225849002391 sequence-specific DNA binding site [nucleotide binding]; other site 225849002392 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849002393 Walker A/P-loop; other site 225849002394 ATP binding site [chemical binding]; other site 225849002395 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 225849002396 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 225849002397 active site 225849002398 metal binding site [ion binding]; metal-binding site 225849002399 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 225849002400 TniQ; Region: TniQ; pfam06527 225849002401 CRISPR/Cas system-associated RAMP superfamily protein Csy2; Region: Csy2_I-F; cl12127 225849002402 CRISPR/Cas system-associated RAMP superfamily protein Csy3; Region: Csy3_I-F; cl09832 225849002403 CRISPR/Cas system-associated RAMP superfamily protein Cas6f; Region: Cas6_I-F; cl09835 225849002404 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 225849002405 A sub-family of peptidase C39 which contains Cyclolysin and Hemolysin processing peptidases. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine...; Region: Peptidase_C39_likeA; cd02417 225849002406 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 225849002407 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 225849002408 ATP-binding cassette domain of hemolysin B, subfamily C; Region: ABCC_Hemolysin; cd03252 225849002409 Walker A/P-loop; other site 225849002410 ATP binding site [chemical binding]; other site 225849002411 Q-loop/lid; other site 225849002412 ABC transporter signature motif; other site 225849002413 Walker B; other site 225849002414 D-loop; other site 225849002415 H-loop/switch region; other site 225849002416 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 225849002417 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849002418 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849002419 RTX toxins and related Ca2+-binding proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2931 225849002420 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 225849002421 Domain of unknown function (DUF4329); Region: DUF4329; pfam14220 225849002422 vitamin B12-transporter protein BtuF; Provisional; Region: PRK03379 225849002423 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 225849002424 cobalamin binding residues [chemical binding]; other site 225849002425 putative BtuC binding residues; other site 225849002426 dimer interface [polypeptide binding]; other site 225849002427 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 225849002428 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 225849002429 putative substrate translocation pore; other site 225849002430 short chain dehydrogenase; Provisional; Region: PRK07041 225849002431 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225849002432 NAD(P) binding site [chemical binding]; other site 225849002433 active site 225849002434 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 225849002435 putative effector binding pocket; other site 225849002436 dimerization interface [polypeptide binding]; other site 225849002437 MAPEG family; Region: MAPEG; cl09190 225849002438 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 225849002439 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 225849002440 putative active site [active] 225849002441 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 225849002442 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849002443 Walker A/P-loop; other site 225849002444 ATP binding site [chemical binding]; other site 225849002445 Q-loop/lid; other site 225849002446 ABC transporter signature motif; other site 225849002447 Walker B; other site 225849002448 D-loop; other site 225849002449 H-loop/switch region; other site 225849002450 HEXXH motif domain; Region: mod_HExxH; TIGR04267 225849002451 radical SAM/SPASM domain, FxsB family; Region: SAM_SPASM_FxsB; TIGR04269 225849002452 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 225849002453 FeS/SAM binding site; other site 225849002454 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 225849002455 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849002456 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 225849002457 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849002458 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 225849002459 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 225849002460 Walker A/P-loop; other site 225849002461 ATP binding site [chemical binding]; other site 225849002462 Q-loop/lid; other site 225849002463 ABC transporter signature motif; other site 225849002464 Walker B; other site 225849002465 D-loop; other site 225849002466 H-loop/switch region; other site 225849002467 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 225849002468 FtsX-like permease family; Region: FtsX; pfam02687 225849002469 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 225849002470 FtsX-like permease family; Region: FtsX; pfam02687 225849002471 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 225849002472 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849002473 active site 225849002474 phosphorylation site [posttranslational modification] 225849002475 intermolecular recognition site; other site 225849002476 dimerization interface [polypeptide binding]; other site 225849002477 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 225849002478 Walker A motif; other site 225849002479 ATP binding site [chemical binding]; other site 225849002480 Walker B motif; other site 225849002481 arginine finger; other site 225849002482 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225849002483 PAS domain; Region: PAS_8; pfam13188 225849002484 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 225849002485 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 225849002486 ATP binding site [chemical binding]; other site 225849002487 Mg2+ binding site [ion binding]; other site 225849002488 G-X-G motif; other site 225849002489 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849002490 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849002491 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 225849002492 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 225849002493 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225849002494 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225849002495 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 225849002496 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 225849002497 NAD(P) binding site [chemical binding]; other site 225849002498 catalytic residues [active] 225849002499 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 225849002500 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 225849002501 Ligand Binding Site [chemical binding]; other site 225849002502 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 225849002503 Ligand Binding Site [chemical binding]; other site 225849002504 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 225849002505 Predicted membrane protein [Function unknown]; Region: COG3428 225849002506 Bacterial PH domain; Region: DUF304; pfam03703 225849002507 Bacterial PH domain; Region: DUF304; pfam03703 225849002508 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 225849002509 Bacterial PH domain; Region: DUF304; pfam03703 225849002510 Uncharacterized protein conserved in bacteria (DUF2131); Region: DUF2131; pfam09904 225849002511 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 225849002512 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 225849002513 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 225849002514 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 225849002515 conserved cys residue [active] 225849002516 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225849002517 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225849002518 Ion transport protein; Region: Ion_trans; pfam00520 225849002519 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 225849002520 DNA-binding transcriptional regulator TorR; Provisional; Region: PRK10766 225849002521 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849002522 active site 225849002523 phosphorylation site [posttranslational modification] 225849002524 intermolecular recognition site; other site 225849002525 dimerization interface [polypeptide binding]; other site 225849002526 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 225849002527 DNA binding site [nucleotide binding] 225849002528 TMAO reductase system periplasmic protein TorT; Region: TMAO_TorT; TIGR02955 225849002529 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 225849002530 TMAO reductase sytem sensor TorS; Region: TMAO_torS; TIGR02956 225849002531 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 225849002532 dimer interface [polypeptide binding]; other site 225849002533 phosphorylation site [posttranslational modification] 225849002534 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 225849002535 ATP binding site [chemical binding]; other site 225849002536 Mg2+ binding site [ion binding]; other site 225849002537 G-X-G motif; other site 225849002538 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849002539 active site 225849002540 phosphorylation site [posttranslational modification] 225849002541 intermolecular recognition site; other site 225849002542 dimerization interface [polypeptide binding]; other site 225849002543 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 225849002544 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 225849002545 active site 225849002546 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 225849002547 DNA-binding site [nucleotide binding]; DNA binding site 225849002548 RNA-binding motif; other site 225849002549 anaerobic nitric oxide reductase flavorubredoxin; Provisional; Region: PRK05452 225849002550 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 225849002551 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 225849002552 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 225849002553 iron binding site [ion binding]; other site 225849002554 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 225849002555 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225849002556 EamA-like transporter family; Region: EamA; cl17759 225849002557 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 225849002558 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 225849002559 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 225849002560 FMN binding site [chemical binding]; other site 225849002561 active site 225849002562 substrate binding site [chemical binding]; other site 225849002563 catalytic residue [active] 225849002564 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 225849002565 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 225849002566 dimer interface [polypeptide binding]; other site 225849002567 active site 225849002568 metal binding site [ion binding]; metal-binding site 225849002569 glutathione binding site [chemical binding]; other site 225849002570 short chain dehydrogenase; Provisional; Region: PRK06172 225849002571 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225849002572 NAD(P) binding site [chemical binding]; other site 225849002573 active site 225849002574 Response regulator receiver domain; Region: Response_reg; pfam00072 225849002575 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849002576 active site 225849002577 phosphorylation site [posttranslational modification] 225849002578 intermolecular recognition site; other site 225849002579 dimerization interface [polypeptide binding]; other site 225849002580 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 225849002581 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 225849002582 dimer interface [polypeptide binding]; other site 225849002583 phosphorylation site [posttranslational modification] 225849002584 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 225849002585 ATP binding site [chemical binding]; other site 225849002586 Mg2+ binding site [ion binding]; other site 225849002587 G-X-G motif; other site 225849002588 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849002589 active site 225849002590 phosphorylation site [posttranslational modification] 225849002591 intermolecular recognition site; other site 225849002592 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 225849002593 N-terminal domain interface [polypeptide binding]; other site 225849002594 dimer interface [polypeptide binding]; other site 225849002595 active site 225849002596 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 225849002597 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 225849002598 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 225849002599 motif II; other site 225849002600 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 225849002601 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 225849002602 active site 225849002603 Zn binding site [ion binding]; other site 225849002604 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 225849002605 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 225849002606 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 225849002607 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 225849002608 dimer interface [polypeptide binding]; other site 225849002609 FMN binding site [chemical binding]; other site 225849002610 Uncharacterized conserved protein [Function unknown]; Region: COG1359 225849002611 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 225849002612 SPFH domain / Band 7 family; Region: Band_7; pfam01145 225849002613 Protein of unknown function (DUF465); Region: DUF465; pfam04325 225849002614 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 225849002615 Carbon starvation protein CstA; Region: CstA; pfam02554 225849002616 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 225849002617 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 225849002618 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 225849002619 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 225849002620 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 225849002621 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 225849002622 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 225849002623 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225849002624 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 225849002625 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 225849002626 DNA binding residues [nucleotide binding] 225849002627 DNA primase; Validated; Region: dnaG; PRK05667 225849002628 CHC2 zinc finger; Region: zf-CHC2; pfam01807 225849002629 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 225849002630 TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_DnaG_primases; cd03364 225849002631 active site 225849002632 metal binding site [ion binding]; metal-binding site 225849002633 interdomain interaction site; other site 225849002634 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 225849002635 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 225849002636 Yqey-like protein; Region: YqeY; pfam09424 225849002637 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 225849002638 UGMP family protein; Validated; Region: PRK09604 225849002639 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 225849002640 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 225849002641 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 225849002642 homooctamer interface [polypeptide binding]; other site 225849002643 active site 225849002644 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 225849002645 catalytic center binding site [active] 225849002646 ATP binding site [chemical binding]; other site 225849002647 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 225849002648 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 225849002649 Methyltransferase domain; Region: Methyltransf_11; pfam08241 225849002650 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 225849002651 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 225849002652 Murein lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG4238; cl11539 225849002653 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 225849002654 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 225849002655 active site 225849002656 NTP binding site [chemical binding]; other site 225849002657 metal binding triad [ion binding]; metal-binding site 225849002658 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 225849002659 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225849002660 Zn2+ binding site [ion binding]; other site 225849002661 Mg2+ binding site [ion binding]; other site 225849002662 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 225849002663 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 225849002664 Walker A motif; other site 225849002665 ATP binding site [chemical binding]; other site 225849002666 Walker B motif; other site 225849002667 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 225849002668 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 225849002669 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 225849002670 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 225849002671 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 225849002672 inhibitor-cofactor binding pocket; inhibition site 225849002673 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849002674 catalytic residue [active] 225849002675 aspartate carbamoyltransferase; Provisional; Region: PRK08192 225849002676 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 225849002677 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 225849002678 SH3 domain protein; Region: SH3_and_anchor; TIGR04211 225849002679 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 225849002680 ApbE family; Region: ApbE; pfam02424 225849002681 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 225849002682 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 225849002683 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 225849002684 N-terminal plug; other site 225849002685 ligand-binding site [chemical binding]; other site 225849002686 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 225849002687 active site 225849002688 catalytic triad [active] 225849002689 oxyanion hole [active] 225849002690 switch loop; other site 225849002691 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 225849002692 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849002693 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849002694 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 225849002695 putative dimerization interface [polypeptide binding]; other site 225849002696 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 225849002697 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 225849002698 Tetratricopeptide repeat; Region: TPR_9; pfam13371 225849002699 Protein of unknown function (DUF819); Region: DUF819; cl02317 225849002700 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 225849002701 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 225849002702 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 225849002703 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 225849002704 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 225849002705 active site 225849002706 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 225849002707 Na2 binding site [ion binding]; other site 225849002708 putative substrate binding site 1 [chemical binding]; other site 225849002709 Na binding site 1 [ion binding]; other site 225849002710 putative substrate binding site 2 [chemical binding]; other site 225849002711 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 225849002712 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 225849002713 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 225849002714 Predicted integral membrane protein [Function unknown]; Region: COG5652 225849002715 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 225849002716 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 225849002717 AmpG-like permease; Region: 2A0125; TIGR00901 225849002718 muropeptide transporter; Reviewed; Region: ampG; PRK11902 225849002719 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 225849002720 substrate binding site [chemical binding]; other site 225849002721 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: COG3056 225849002722 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 225849002723 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 225849002724 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 225849002725 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 225849002726 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 225849002727 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 225849002728 DNA binding site [nucleotide binding] 225849002729 Domain of unknown function (DUF4405); Region: DUF4405; pfam14358 225849002730 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 225849002731 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 225849002732 S-adenosylmethionine binding site [chemical binding]; other site 225849002733 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 225849002734 ACT domain; Region: ACT_6; pfam13740 225849002735 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 225849002736 BolA-like protein; Region: BolA; cl00386 225849002737 S-ribosylhomocysteinase; Provisional; Region: PRK02260 225849002738 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 225849002739 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 225849002740 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 225849002741 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 225849002742 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 225849002743 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 225849002744 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 225849002745 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 225849002746 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 225849002747 catalytic loop [active] 225849002748 iron binding site [ion binding]; other site 225849002749 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 225849002750 FAD binding pocket [chemical binding]; other site 225849002751 FAD binding motif [chemical binding]; other site 225849002752 phosphate binding motif [ion binding]; other site 225849002753 beta-alpha-beta structure motif; other site 225849002754 NAD binding pocket [chemical binding]; other site 225849002755 Photosystem II Pbs27; Region: PSII_Pbs27; cl11841 225849002756 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 225849002757 ApbE family; Region: ApbE; pfam02424 225849002758 Protein of unknown function (DUF539); Region: DUF539; cl01129 225849002759 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 225849002760 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 225849002761 heme binding site [chemical binding]; other site 225849002762 ferroxidase pore; other site 225849002763 ferroxidase diiron center [ion binding]; other site 225849002764 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 225849002765 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 225849002766 heme binding site [chemical binding]; other site 225849002767 ferroxidase pore; other site 225849002768 ferroxidase diiron center [ion binding]; other site 225849002769 Cache domain; Region: Cache_1; pfam02743 225849002770 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 225849002771 dimerization interface [polypeptide binding]; other site 225849002772 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849002773 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225849002774 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849002775 dimer interface [polypeptide binding]; other site 225849002776 putative CheW interface [polypeptide binding]; other site 225849002777 DNA polymerase IV; Validated; Region: PRK02406 225849002778 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 225849002779 DNA binding site [nucleotide binding] 225849002780 active site 225849002781 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 225849002782 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 225849002783 metal binding site [ion binding]; metal-binding site 225849002784 dimer interface [polypeptide binding]; other site 225849002785 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 225849002786 multifunctional aminopeptidase A; Provisional; Region: PRK00913 225849002787 interface (dimer of trimers) [polypeptide binding]; other site 225849002788 Substrate-binding/catalytic site; other site 225849002789 Zn-binding sites [ion binding]; other site 225849002790 SUKH-4 immunity protein; Region: SUKH-4; pfam14435 225849002791 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 225849002792 SMI1 / KNR4 family (SUKH-1); Region: SMI1_KNR4; pfam09346 225849002793 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 225849002794 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 225849002795 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 225849002796 putative active site [active] 225849002797 putative NTP binding site [chemical binding]; other site 225849002798 putative nucleic acid binding site [nucleotide binding]; other site 225849002799 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 225849002800 gamma-glutamyl kinase; Provisional; Region: PRK05429 225849002801 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 225849002802 homotetrameric interface [polypeptide binding]; other site 225849002803 putative phosphate binding site [ion binding]; other site 225849002804 putative allosteric binding site; other site 225849002805 nucleotide binding site [chemical binding]; other site 225849002806 PUA domain; Region: PUA; pfam01472 225849002807 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 225849002808 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 225849002809 putative catalytic cysteine [active] 225849002810 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 225849002811 EamA-like transporter family; Region: EamA; pfam00892 225849002812 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 225849002813 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 225849002814 nucleotide binding site [chemical binding]; other site 225849002815 chaperone protein DnaJ; Provisional; Region: PRK10767 225849002816 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 225849002817 HSP70 interaction site [polypeptide binding]; other site 225849002818 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 225849002819 substrate binding site [polypeptide binding]; other site 225849002820 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 225849002821 Zn binding sites [ion binding]; other site 225849002822 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 225849002823 dimer interface [polypeptide binding]; other site 225849002824 Peptidase family M48; Region: Peptidase_M48; pfam01435 225849002825 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 225849002826 peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK11570 225849002827 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 225849002828 dihydrodipicolinate reductase; Provisional; Region: PRK00048 225849002829 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 225849002830 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 225849002831 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 225849002832 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 225849002833 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 225849002834 catalytic site [active] 225849002835 subunit interface [polypeptide binding]; other site 225849002836 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 225849002837 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 225849002838 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 225849002839 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 225849002840 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 225849002841 ATP-grasp domain; Region: ATP-grasp_4; cl17255 225849002842 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 225849002843 IMP binding site; other site 225849002844 dimer interface [polypeptide binding]; other site 225849002845 interdomain contacts; other site 225849002846 partial ornithine binding site; other site 225849002847 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 225849002848 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 225849002849 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 225849002850 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK12933 225849002851 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 225849002852 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 225849002853 protein-export membrane protein SecF; Region: 3a0501s07; TIGR00966 225849002854 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 225849002855 Protein export membrane protein; Region: SecD_SecF; pfam02355 225849002856 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 225849002857 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 225849002858 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 225849002859 S-adenosylmethionine binding site [chemical binding]; other site 225849002860 ATP-dependent metalloprotease; Reviewed; Region: hflB; PRK10733 225849002861 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 225849002862 Walker A motif; other site 225849002863 ATP binding site [chemical binding]; other site 225849002864 Walker B motif; other site 225849002865 arginine finger; other site 225849002866 Peptidase family M41; Region: Peptidase_M41; pfam01434 225849002867 dihydropteroate synthase; Region: DHPS; TIGR01496 225849002868 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 225849002869 substrate binding pocket [chemical binding]; other site 225849002870 dimer interface [polypeptide binding]; other site 225849002871 inhibitor binding site; inhibition site 225849002872 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 225849002873 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 225849002874 active site 225849002875 substrate binding site [chemical binding]; other site 225849002876 metal binding site [ion binding]; metal-binding site 225849002877 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 225849002878 triosephosphate isomerase; Provisional; Region: PRK14567 225849002879 substrate binding site [chemical binding]; other site 225849002880 dimer interface [polypeptide binding]; other site 225849002881 catalytic triad [active] 225849002882 Preprotein translocase SecG subunit; Region: SecG; pfam03840 225849002883 ribosome maturation protein RimP; Reviewed; Region: PRK00092 225849002884 Sm and related proteins; Region: Sm_like; cl00259 225849002885 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 225849002886 putative oligomer interface [polypeptide binding]; other site 225849002887 putative RNA binding site [nucleotide binding]; other site 225849002888 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 225849002889 NusA N-terminal domain; Region: NusA_N; pfam08529 225849002890 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 225849002891 RNA binding site [nucleotide binding]; other site 225849002892 homodimer interface [polypeptide binding]; other site 225849002893 NusA-like KH domain; Region: KH_5; pfam13184 225849002894 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 225849002895 G-X-X-G motif; other site 225849002896 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 225849002897 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 225849002898 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 225849002899 translation initiation factor IF-2; Region: IF-2; TIGR00487 225849002900 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 225849002901 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 225849002902 G1 box; other site 225849002903 putative GEF interaction site [polypeptide binding]; other site 225849002904 GTP/Mg2+ binding site [chemical binding]; other site 225849002905 Switch I region; other site 225849002906 G2 box; other site 225849002907 G3 box; other site 225849002908 Switch II region; other site 225849002909 G4 box; other site 225849002910 G5 box; other site 225849002911 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 225849002912 Translation-initiation factor 2; Region: IF-2; pfam11987 225849002913 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 225849002914 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 225849002915 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 225849002916 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 225849002917 RNA binding site [nucleotide binding]; other site 225849002918 active site 225849002919 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 225849002920 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 225849002921 16S/18S rRNA binding site [nucleotide binding]; other site 225849002922 S13e-L30e interaction site [polypeptide binding]; other site 225849002923 25S rRNA binding site [nucleotide binding]; other site 225849002924 biofilm formation regulator HmsP; Provisional; Region: PRK11829 225849002925 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849002926 metal binding site [ion binding]; metal-binding site 225849002927 active site 225849002928 I-site; other site 225849002929 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 225849002930 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 225849002931 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 225849002932 RNase E interface [polypeptide binding]; other site 225849002933 trimer interface [polypeptide binding]; other site 225849002934 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 225849002935 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 225849002936 RNase E interface [polypeptide binding]; other site 225849002937 trimer interface [polypeptide binding]; other site 225849002938 active site 225849002939 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 225849002940 putative nucleic acid binding region [nucleotide binding]; other site 225849002941 G-X-X-G motif; other site 225849002942 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 225849002943 RNA binding site [nucleotide binding]; other site 225849002944 domain interface; other site 225849002945 lipoprotein NlpI; Provisional; Region: PRK11189 225849002946 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 225849002947 binding surface 225849002948 TPR motif; other site 225849002949 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 225849002950 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 225849002951 G1 box; other site 225849002952 putative GEF interaction site [polypeptide binding]; other site 225849002953 GTP/Mg2+ binding site [chemical binding]; other site 225849002954 Switch I region; other site 225849002955 G2 box; other site 225849002956 G3 box; other site 225849002957 Switch II region; other site 225849002958 G4 box; other site 225849002959 G5 box; other site 225849002960 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 225849002961 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 225849002962 active site 225849002963 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 225849002964 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 225849002965 Nucleoside recognition; Region: Gate; pfam07670 225849002966 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 225849002967 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; pfam03502 225849002968 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 225849002969 intersubunit interface [polypeptide binding]; other site 225849002970 active site 225849002971 catalytic residue [active] 225849002972 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 225849002973 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 225849002974 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 225849002975 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 225849002976 phosphopentomutase; Provisional; Region: PRK05362 225849002977 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 225849002978 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 225849002979 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 225849002980 phosphoserine phosphatase SerB; Region: serB; TIGR00338 225849002981 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 225849002982 motif II; other site 225849002983 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 225849002984 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 225849002985 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849002986 active site 225849002987 phosphorylation site [posttranslational modification] 225849002988 intermolecular recognition site; other site 225849002989 dimerization interface [polypeptide binding]; other site 225849002990 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 225849002991 DNA binding residues [nucleotide binding] 225849002992 dimerization interface [polypeptide binding]; other site 225849002993 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 225849002994 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225849002995 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 225849002996 dimer interface [polypeptide binding]; other site 225849002997 phosphorylation site [posttranslational modification] 225849002998 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 225849002999 ATP binding site [chemical binding]; other site 225849003000 Mg2+ binding site [ion binding]; other site 225849003001 G-X-G motif; other site 225849003002 thiosulfate reductase PhsA; Provisional; Region: PRK15488 225849003003 The MopB_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_Thiosulfate-R-like; cd02755 225849003004 putative [Fe4-S4] binding site [ion binding]; other site 225849003005 putative molybdopterin cofactor binding site [chemical binding]; other site 225849003006 The MopB_CT_Thiosulfate-R-like CD contains thiosulfate-, sulfur-, and polysulfide-reductases, and other related proteins. Thiosulfate reductase catalyzes the cleavage of sulfur-sulfur bonds in thiosulfate. Polysulfide reductase is a membrane-bound enzyme...; Region: MopB_CT_Thiosulfate-R-like; cd02778 225849003007 putative molybdopterin cofactor binding site; other site 225849003008 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 225849003009 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 225849003010 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 225849003011 PilZ domain; Region: PilZ; pfam07238 225849003012 PilZ domain; Region: PilZ; pfam07238 225849003013 DNA repair protein RadA; Provisional; Region: PRK11823 225849003014 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 225849003015 Walker A motif; other site 225849003016 ATP binding site [chemical binding]; other site 225849003017 Walker B motif; other site 225849003018 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 225849003019 PilZ domain; Region: PilZ; pfam07238 225849003020 Bacterial inner membrane protein; Region: Imp-YgjV; pfam10688 225849003021 Surface antigen; Region: Bac_surface_Ag; pfam01103 225849003022 DEAD-like helicases superfamily; Region: DEXDc; smart00487 225849003023 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 225849003024 ATP binding site [chemical binding]; other site 225849003025 Mg++ binding site [ion binding]; other site 225849003026 motif III; other site 225849003027 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 225849003028 nucleotide binding region [chemical binding]; other site 225849003029 ATP-binding site [chemical binding]; other site 225849003030 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 225849003031 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849003032 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849003033 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 225849003034 dimerization interface [polypeptide binding]; other site 225849003035 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 225849003036 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 225849003037 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 225849003038 putative acyl-acceptor binding pocket; other site 225849003039 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 225849003040 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 225849003041 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 225849003042 putative active site [active] 225849003043 putative metal binding site [ion binding]; other site 225849003044 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 225849003045 Nucleoside recognition; Region: Gate; pfam07670 225849003046 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 225849003047 PAS domain; Region: PAS_9; pfam13426 225849003048 putative active site [active] 225849003049 heme pocket [chemical binding]; other site 225849003050 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225849003051 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849003052 dimer interface [polypeptide binding]; other site 225849003053 putative CheW interface [polypeptide binding]; other site 225849003054 putative protease; Provisional; Region: PRK15447 225849003055 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 225849003056 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 225849003057 Peptidase family U32; Region: Peptidase_U32; pfam01136 225849003058 SCP-2 sterol transfer family; Region: SCP2; cl01225 225849003059 recombination associated protein; Reviewed; Region: rdgC; PRK00321 225849003060 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 225849003061 trimer interface [polypeptide binding]; other site 225849003062 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 225849003063 eyelet of channel; other site 225849003064 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 225849003065 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849003066 active site 225849003067 phosphorylation site [posttranslational modification] 225849003068 intermolecular recognition site; other site 225849003069 dimerization interface [polypeptide binding]; other site 225849003070 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 225849003071 DNA binding site [nucleotide binding] 225849003072 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 225849003073 phosphate regulon sensor protein; Provisional; Region: phoR; PRK11006 225849003074 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 225849003075 putative active site [active] 225849003076 heme pocket [chemical binding]; other site 225849003077 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 225849003078 dimer interface [polypeptide binding]; other site 225849003079 phosphorylation site [posttranslational modification] 225849003080 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 225849003081 ATP binding site [chemical binding]; other site 225849003082 Mg2+ binding site [ion binding]; other site 225849003083 G-X-G motif; other site 225849003084 PBP superfamily domain; Region: PBP_like_2; cl17296 225849003085 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 225849003086 leukotriene A-4 hydrolase/aminopeptidase; Region: leuko_A4_hydro; TIGR02411 225849003087 Peptidase M1 family contains leukotriene A4 hydrolase; Region: M1_LTA4H; cd09599 225849003088 active site 225849003089 Zn binding site [ion binding]; other site 225849003090 Leukotriene A4 hydrolase, C-terminal; Region: Leuk-A4-hydro_C; pfam09127 225849003091 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 225849003092 catalytic residues [active] 225849003093 dimer interface [polypeptide binding]; other site 225849003094 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 225849003095 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 225849003096 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 225849003097 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 225849003098 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849003099 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849003100 metal binding site [ion binding]; metal-binding site 225849003101 active site 225849003102 I-site; other site 225849003103 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 225849003104 NOL1/NOP2/sun family putative RNA methylase; Region: nop2p; TIGR00446 225849003105 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 225849003106 The band 7 domain of flotillin (reggie) like proteins. This group contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual proteins of this...; Region: Band_7; cd02106 225849003107 vitamin B12/cobalamin outer membrane transporter; Provisional; Region: btuB; PRK10641 225849003108 Conserved hypothetical protein (DUF2461); Region: DUF2461; pfam09365 225849003109 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 225849003110 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 225849003111 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225849003112 ligand binding site [chemical binding]; other site 225849003113 mechanosensitive channel MscS; Provisional; Region: PRK10334 225849003114 Mechanosensitive ion channel; Region: MS_channel; pfam00924 225849003115 Predicted membrane protein [Function unknown]; Region: COG2860 225849003116 UPF0126 domain; Region: UPF0126; pfam03458 225849003117 UPF0126 domain; Region: UPF0126; pfam03458 225849003118 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 225849003119 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 225849003120 tetramer interface [polypeptide binding]; other site 225849003121 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849003122 catalytic residue [active] 225849003123 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 225849003124 dimer interface [polypeptide binding]; other site 225849003125 Alkaline phosphatase homologues; Region: alkPPc; smart00098 225849003126 active site 225849003127 Alkaline phosphatase homologues; Region: alkPPc; smart00098 225849003128 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 225849003129 active site 225849003130 dimer interface [polypeptide binding]; other site 225849003131 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 225849003132 active site 2 [active] 225849003133 active site 1 [active] 225849003134 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 225849003135 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225849003136 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849003137 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849003138 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849003139 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 225849003140 Protein export membrane protein; Region: SecD_SecF; cl14618 225849003141 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 225849003142 putative DNA binding site [nucleotide binding]; other site 225849003143 dimerization interface [polypeptide binding]; other site 225849003144 putative Zn2+ binding site [ion binding]; other site 225849003145 Transposase; Region: DEDD_Tnp_IS110; pfam01548 225849003146 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_6; cd06154 225849003147 homotrimer interaction site [polypeptide binding]; other site 225849003148 putative active site [active] 225849003149 Domain of unknown function (DUF4336); Region: DUF4336; pfam14234 225849003150 putative alcohol dehydrogenase; Provisional; Region: PRK09860 225849003151 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 225849003152 dimer interface [polypeptide binding]; other site 225849003153 active site 225849003154 metal binding site [ion binding]; metal-binding site 225849003155 4-alpha-glucanotransferase [Carbohydrate transport and metabolism]; Region: MalQ; COG1640 225849003156 glycogen branching enzyme; Provisional; Region: PRK05402 225849003157 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 225849003158 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 225849003159 active site 225849003160 catalytic site [active] 225849003161 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; pfam02806 225849003162 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 225849003163 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 225849003164 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 225849003165 active site 225849003166 catalytic site [active] 225849003167 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 225849003168 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 225849003169 active site pocket [active] 225849003170 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00725 225849003171 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 225849003172 ligand binding site; other site 225849003173 oligomer interface; other site 225849003174 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 225849003175 dimer interface [polypeptide binding]; other site 225849003176 N-terminal domain interface [polypeptide binding]; other site 225849003177 sulfate 1 binding site; other site 225849003178 This family is most closely related to the GT1 family of glycosyltransferases. Glycogen synthase catalyzes the formation and elongation of the alpha-1,4-glucose backbone using ADP-glucose, the second and key step of glycogen biosynthesis. This family...; Region: GT1_Glycogen_synthase_DULL1_like; cd03791 225849003179 glycogen synthase; Provisional; Region: glgA; PRK00654 225849003180 ADP-binding pocket [chemical binding]; other site 225849003181 homodimer interface [polypeptide binding]; other site 225849003182 Uncharacterized conserved protein [Function unknown]; Region: COG1432 225849003183 LabA_like proteins; Region: LabA; cd10911 225849003184 putative metal binding site [ion binding]; other site 225849003185 MAPEG family; Region: MAPEG; pfam01124 225849003186 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 225849003187 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 225849003188 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 225849003189 active site 225849003190 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225849003191 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849003192 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849003193 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 225849003194 Shewanella-like phosphatases, metallophosphatase domain; Region: MPP_Shelphs; cd07425 225849003195 active site 225849003196 metal binding site [ion binding]; metal-binding site 225849003197 Acyltransferase family; Region: Acyl_transf_3; pfam01757 225849003198 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 225849003199 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849003200 Walker A/P-loop; other site 225849003201 ATP binding site [chemical binding]; other site 225849003202 Q-loop/lid; other site 225849003203 ABC transporter signature motif; other site 225849003204 Walker B; other site 225849003205 D-loop; other site 225849003206 H-loop/switch region; other site 225849003207 ABC transporter; Region: ABC_tran_2; pfam12848 225849003208 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 225849003209 Domain of unknown function (DUF3943); Region: DUF3943; pfam13084 225849003210 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 225849003211 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 225849003212 dimer interface [polypeptide binding]; other site 225849003213 active site 225849003214 glycine-pyridoxal phosphate binding site [chemical binding]; other site 225849003215 folate binding site [chemical binding]; other site 225849003216 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 225849003217 ATP cone domain; Region: ATP-cone; pfam03477 225849003218 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 225849003219 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 225849003220 catalytic motif [active] 225849003221 Zn binding site [ion binding]; other site 225849003222 RibD C-terminal domain; Region: RibD_C; cl17279 225849003223 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 225849003224 Lumazine binding domain; Region: Lum_binding; pfam00677 225849003225 Lumazine binding domain; Region: Lum_binding; pfam00677 225849003226 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 225849003227 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 225849003228 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 225849003229 dimerization interface [polypeptide binding]; other site 225849003230 active site 225849003231 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 225849003232 homopentamer interface [polypeptide binding]; other site 225849003233 active site 225849003234 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 225849003235 putative RNA binding site [nucleotide binding]; other site 225849003236 thiamine monophosphate kinase; Provisional; Region: PRK05731 225849003237 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 225849003238 ATP binding site [chemical binding]; other site 225849003239 dimerization interface [polypeptide binding]; other site 225849003240 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 225849003241 tetramer interfaces [polypeptide binding]; other site 225849003242 binuclear metal-binding site [ion binding]; other site 225849003243 recombination and repair protein; Provisional; Region: PRK10869 225849003244 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 225849003245 Walker A/P-loop; other site 225849003246 ATP binding site [chemical binding]; other site 225849003247 Q-loop/lid; other site 225849003248 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 225849003249 ABC transporter signature motif; other site 225849003250 Walker B; other site 225849003251 D-loop; other site 225849003252 H-loop/switch region; other site 225849003253 Predicted permeases [General function prediction only]; Region: COG0679 225849003254 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849003255 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849003256 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 225849003257 putative effector binding pocket; other site 225849003258 dimerization interface [polypeptide binding]; other site 225849003259 Protein of unknown function (DUF416); Region: DUF416; pfam04222 225849003260 hybrid sensory histidine kinase BarA; Provisional; Region: PRK11107 225849003261 Uncharacterized signal transduction histidine kinase domain (DUF2222); Region: DUF2222; pfam09984 225849003262 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 225849003263 dimerization interface [polypeptide binding]; other site 225849003264 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 225849003265 dimer interface [polypeptide binding]; other site 225849003266 phosphorylation site [posttranslational modification] 225849003267 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 225849003268 ATP binding site [chemical binding]; other site 225849003269 Mg2+ binding site [ion binding]; other site 225849003270 G-X-G motif; other site 225849003271 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849003272 active site 225849003273 phosphorylation site [posttranslational modification] 225849003274 intermolecular recognition site; other site 225849003275 dimerization interface [polypeptide binding]; other site 225849003276 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 225849003277 putative binding surface; other site 225849003278 active site 225849003279 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 225849003280 TRAM domain; Region: TRAM; pfam01938 225849003281 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 225849003282 S-adenosylmethionine binding site [chemical binding]; other site 225849003283 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 225849003284 HD domain; Region: HD_4; pfam13328 225849003285 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 225849003286 synthetase active site [active] 225849003287 NTP binding site [chemical binding]; other site 225849003288 metal binding site [ion binding]; metal-binding site 225849003289 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 225849003290 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 225849003291 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 225849003292 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 225849003293 homodimer interface [polypeptide binding]; other site 225849003294 metal binding site [ion binding]; metal-binding site 225849003295 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 225849003296 homodimer interface [polypeptide binding]; other site 225849003297 active site 225849003298 putative chemical substrate binding site [chemical binding]; other site 225849003299 metal binding site [ion binding]; metal-binding site 225849003300 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 225849003301 CTP synthetase; Validated; Region: pyrG; PRK05380 225849003302 active site 225849003303 UTP binding site [chemical binding]; other site 225849003304 Catalytic site [active] 225849003305 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 225849003306 active site 225849003307 putative oxyanion hole; other site 225849003308 catalytic triad [active] 225849003309 enolase; Provisional; Region: eno; PRK00077 225849003310 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 225849003311 dimer interface [polypeptide binding]; other site 225849003312 metal binding site [ion binding]; metal-binding site 225849003313 substrate binding pocket [chemical binding]; other site 225849003314 Septum formation initiator; Region: DivIC; cl17659 225849003315 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 225849003316 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 225849003317 substrate binding site; other site 225849003318 dimer interface; other site 225849003319 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 225849003320 homotrimer interaction site [polypeptide binding]; other site 225849003321 zinc binding site [ion binding]; other site 225849003322 CDP-binding sites; other site 225849003323 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 225849003324 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 225849003325 Permutation of conserved domain; other site 225849003326 active site 225849003327 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 225849003328 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 225849003329 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 225849003330 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 225849003331 S-adenosylmethionine binding site [chemical binding]; other site 225849003332 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 225849003333 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 225849003334 Peptidase family M23; Region: Peptidase_M23; pfam01551 225849003335 RNA polymerase sigma factor RpoS; Validated; Region: PRK05657 225849003336 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 225849003337 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225849003338 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 225849003339 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 225849003340 DNA binding residues [nucleotide binding] 225849003341 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 225849003342 MutS domain I; Region: MutS_I; pfam01624 225849003343 MutS domain II; Region: MutS_II; pfam05188 225849003344 MutS domain III; Region: MutS_III; pfam05192 225849003345 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 225849003346 Walker A/P-loop; other site 225849003347 ATP binding site [chemical binding]; other site 225849003348 Q-loop/lid; other site 225849003349 ABC transporter signature motif; other site 225849003350 Walker B; other site 225849003351 D-loop; other site 225849003352 H-loop/switch region; other site 225849003353 recombinase A; Provisional; Region: recA; PRK09354 225849003354 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 225849003355 hexamer interface [polypeptide binding]; other site 225849003356 Walker A motif; other site 225849003357 ATP binding site [chemical binding]; other site 225849003358 Walker B motif; other site 225849003359 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 225849003360 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 225849003361 motif 1; other site 225849003362 active site 225849003363 motif 2; other site 225849003364 motif 3; other site 225849003365 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 225849003366 DHHA1 domain; Region: DHHA1; pfam02272 225849003367 carbon storage regulator; Provisional; Region: PRK01712 225849003368 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 225849003369 Sulfatase; Region: Sulfatase; pfam00884 225849003370 MoxR-like ATPases [General function prediction only]; Region: COG0714 225849003371 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 225849003372 Walker A motif; other site 225849003373 ATP binding site [chemical binding]; other site 225849003374 Walker B motif; other site 225849003375 arginine finger; other site 225849003376 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 225849003377 Protein of unknown function DUF58; Region: DUF58; pfam01882 225849003378 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 225849003379 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 225849003380 metal ion-dependent adhesion site (MIDAS); other site 225849003381 von Willebrand factor type A domain; Region: VWA_2; pfam13519 225849003382 metal ion-dependent adhesion site (MIDAS); other site 225849003383 Tetratricopeptide repeat; Region: TPR_12; pfam13424 225849003384 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 225849003385 TPR motif; other site 225849003386 binding surface 225849003387 Oxygen tolerance; Region: BatD; pfam13584 225849003388 Oxaloacetate decarboxylase, gamma chain; Region: OAD_gamma; pfam04277 225849003389 oxaloacetate decarboxylase; Provisional; Region: PRK14040 225849003390 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 225849003391 active site 225849003392 catalytic residues [active] 225849003393 metal binding site [ion binding]; metal-binding site 225849003394 homodimer binding site [polypeptide binding]; other site 225849003395 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 225849003396 carboxyltransferase (CT) interaction site; other site 225849003397 biotinylation site [posttranslational modification]; other site 225849003398 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 225849003399 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 225849003400 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 225849003401 Walker A/P-loop; other site 225849003402 ATP binding site [chemical binding]; other site 225849003403 Q-loop/lid; other site 225849003404 ABC transporter signature motif; other site 225849003405 Walker B; other site 225849003406 D-loop; other site 225849003407 H-loop/switch region; other site 225849003408 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 225849003409 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849003410 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849003411 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 225849003412 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 225849003413 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 225849003414 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 225849003415 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 225849003416 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 225849003417 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 225849003418 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 225849003419 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 225849003420 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 225849003421 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 225849003422 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 225849003423 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 225849003424 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 225849003425 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 225849003426 glutamate--cysteine ligase; Provisional; Region: PRK02107 225849003427 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 225849003428 N-acetyl-D-glucosamine binding site [chemical binding]; other site 225849003429 catalytic residue [active] 225849003430 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225849003431 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849003432 dimer interface [polypeptide binding]; other site 225849003433 putative CheW interface [polypeptide binding]; other site 225849003434 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 225849003435 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 225849003436 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849003437 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849003438 metal binding site [ion binding]; metal-binding site 225849003439 active site 225849003440 I-site; other site 225849003441 AIR carboxylase; Region: AIRC; pfam00731 225849003442 RNA polymerase sigma factor; Provisional; Region: PRK12513 225849003443 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225849003444 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 225849003445 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 225849003446 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 225849003447 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 225849003448 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 225849003449 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 225849003450 protein binding site [polypeptide binding]; other site 225849003451 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 225849003452 Domain interface; other site 225849003453 Peptide binding site; other site 225849003454 Active site tetrad [active] 225849003455 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 225849003456 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849003457 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849003458 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 225849003459 Cache domain; Region: Cache_1; pfam02743 225849003460 PAS domain; Region: PAS_9; pfam13426 225849003461 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 225849003462 PAS fold; Region: PAS_3; pfam08447 225849003463 putative active site [active] 225849003464 heme pocket [chemical binding]; other site 225849003465 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 225849003466 putative active site [active] 225849003467 PAS fold; Region: PAS_3; pfam08447 225849003468 heme pocket [chemical binding]; other site 225849003469 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 225849003470 dimer interface [polypeptide binding]; other site 225849003471 phosphorylation site [posttranslational modification] 225849003472 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 225849003473 ATP binding site [chemical binding]; other site 225849003474 Mg2+ binding site [ion binding]; other site 225849003475 G-X-G motif; other site 225849003476 Response regulator receiver domain; Region: Response_reg; pfam00072 225849003477 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849003478 active site 225849003479 phosphorylation site [posttranslational modification] 225849003480 intermolecular recognition site; other site 225849003481 dimerization interface [polypeptide binding]; other site 225849003482 Response regulator receiver domain; Region: Response_reg; pfam00072 225849003483 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849003484 active site 225849003485 phosphorylation site [posttranslational modification] 225849003486 intermolecular recognition site; other site 225849003487 dimerization interface [polypeptide binding]; other site 225849003488 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 225849003489 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 225849003490 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849003491 active site 225849003492 phosphorylation site [posttranslational modification] 225849003493 intermolecular recognition site; other site 225849003494 dimerization interface [polypeptide binding]; other site 225849003495 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225849003496 Zn2+ binding site [ion binding]; other site 225849003497 Mg2+ binding site [ion binding]; other site 225849003498 Complex I intermediate-associated protein 30 (CIA30); Region: CIA30; pfam08547 225849003499 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 225849003500 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 225849003501 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 225849003502 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 225849003503 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225849003504 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 225849003505 substrate binding pocket [chemical binding]; other site 225849003506 membrane-bound complex binding site; other site 225849003507 hinge residues; other site 225849003508 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 225849003509 Helix-turn-helix domain; Region: HTH_18; pfam12833 225849003510 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225849003511 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 225849003512 dimer interface [polypeptide binding]; other site 225849003513 FMN binding site [chemical binding]; other site 225849003514 NADPH bind site [chemical binding]; other site 225849003515 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 225849003516 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 225849003517 PhnA protein; Region: PhnA; pfam03831 225849003518 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 225849003519 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 225849003520 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 225849003521 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 225849003522 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 225849003523 D-pathway; other site 225849003524 Putative ubiquinol binding site [chemical binding]; other site 225849003525 Low-spin heme (heme b) binding site [chemical binding]; other site 225849003526 Putative water exit pathway; other site 225849003527 Binuclear center (heme o3/CuB) [ion binding]; other site 225849003528 K-pathway; other site 225849003529 Putative proton exit pathway; other site 225849003530 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 225849003531 Subunit I/III interface [polypeptide binding]; other site 225849003532 Subunit III/IV interface [polypeptide binding]; other site 225849003533 cytochrome o ubiquinol oxidase subunit IV; Region: CyoD; TIGR02847 225849003534 protoheme IX farnesyltransferase; Provisional; Region: PRK13362 225849003535 UbiA prenyltransferase family; Region: UbiA; pfam01040 225849003536 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 225849003537 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 225849003538 active site 225849003539 Zn binding site [ion binding]; other site 225849003540 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 225849003541 SmpB-tmRNA interface; other site 225849003542 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 225849003543 putative coenzyme Q binding site [chemical binding]; other site 225849003544 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 225849003545 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 225849003546 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 225849003547 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 225849003548 malate synthase A; Region: malate_syn_A; TIGR01344 225849003549 active site 225849003550 HDOD domain; Region: HDOD; pfam08668 225849003551 GAF domain; Region: GAF_3; pfam13492 225849003552 SnoaL-like domain; Region: SnoaL_3; pfam13474 225849003553 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 225849003554 ParA-like protein; Provisional; Region: PHA02518 225849003555 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 225849003556 P-loop; other site 225849003557 Magnesium ion binding site [ion binding]; other site 225849003558 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 225849003559 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 225849003560 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 225849003561 Coenzyme A binding pocket [chemical binding]; other site 225849003562 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 225849003563 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849003564 Coenzyme A binding pocket [chemical binding]; other site 225849003565 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 225849003566 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 225849003567 active site 225849003568 metal binding site [ion binding]; metal-binding site 225849003569 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 225849003570 Domain of unknown function DUF21; Region: DUF21; pfam01595 225849003571 FOG: CBS domain [General function prediction only]; Region: COG0517 225849003572 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 225849003573 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 225849003574 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 225849003575 FeS/SAM binding site; other site 225849003576 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 225849003577 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 225849003578 TPR motif; other site 225849003579 binding surface 225849003580 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 225849003581 TPR motif; other site 225849003582 binding surface 225849003583 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 225849003584 binding surface 225849003585 TPR motif; other site 225849003586 cytoskeletal protein RodZ; Provisional; Region: PRK10856 225849003587 Helix-turn-helix domain; Region: HTH_25; pfam13413 225849003588 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 225849003589 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 225849003590 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 225849003591 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 225849003592 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 225849003593 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 225849003594 dimer interface [polypeptide binding]; other site 225849003595 motif 1; other site 225849003596 active site 225849003597 motif 2; other site 225849003598 motif 3; other site 225849003599 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 225849003600 anticodon binding site; other site 225849003601 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 225849003602 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 225849003603 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 225849003604 Trp docking motif [polypeptide binding]; other site 225849003605 active site 225849003606 GTP-binding protein Der; Reviewed; Region: PRK00093 225849003607 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 225849003608 G1 box; other site 225849003609 GTP/Mg2+ binding site [chemical binding]; other site 225849003610 Switch I region; other site 225849003611 G2 box; other site 225849003612 Switch II region; other site 225849003613 G3 box; other site 225849003614 G4 box; other site 225849003615 G5 box; other site 225849003616 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 225849003617 G1 box; other site 225849003618 GTP/Mg2+ binding site [chemical binding]; other site 225849003619 Switch I region; other site 225849003620 G2 box; other site 225849003621 G3 box; other site 225849003622 Switch II region; other site 225849003623 G4 box; other site 225849003624 G5 box; other site 225849003625 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 225849003626 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 225849003627 non-specific DNA binding site [nucleotide binding]; other site 225849003628 salt bridge; other site 225849003629 sequence-specific DNA binding site [nucleotide binding]; other site 225849003630 Putative bacterial lipoprotein (DUF799); Region: DUF799; cl01813 225849003631 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4259 225849003632 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 225849003633 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 225849003634 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 225849003635 generic binding surface II; other site 225849003636 generic binding surface I; other site 225849003637 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 225849003638 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 225849003639 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 225849003640 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 225849003641 active site 225849003642 GMP synthase; Reviewed; Region: guaA; PRK00074 225849003643 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 225849003644 AMP/PPi binding site [chemical binding]; other site 225849003645 candidate oxyanion hole; other site 225849003646 catalytic triad [active] 225849003647 potential glutamine specificity residues [chemical binding]; other site 225849003648 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 225849003649 ATP Binding subdomain [chemical binding]; other site 225849003650 Ligand Binding sites [chemical binding]; other site 225849003651 Dimerization subdomain; other site 225849003652 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 225849003653 nucleoside/Zn binding site; other site 225849003654 dimer interface [polypeptide binding]; other site 225849003655 catalytic motif [active] 225849003656 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 225849003657 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225849003658 substrate binding pocket [chemical binding]; other site 225849003659 membrane-bound complex binding site; other site 225849003660 hinge residues; other site 225849003661 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 225849003662 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 225849003663 N-acetyl-D-glucosamine binding site [chemical binding]; other site 225849003664 catalytic residue [active] 225849003665 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 225849003666 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 225849003667 dimerization interface [polypeptide binding]; other site 225849003668 ATP binding site [chemical binding]; other site 225849003669 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 225849003670 dimerization interface [polypeptide binding]; other site 225849003671 ATP binding site [chemical binding]; other site 225849003672 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 225849003673 putative active site [active] 225849003674 catalytic triad [active] 225849003675 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 225849003676 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 225849003677 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 225849003678 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 225849003679 Membrane bound YbgT-like protein; Region: YbgT_YccB; cl02039 225849003680 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225849003681 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849003682 dimer interface [polypeptide binding]; other site 225849003683 putative CheW interface [polypeptide binding]; other site 225849003684 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225849003685 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849003686 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849003687 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 225849003688 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849003689 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225849003690 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225849003691 Protein of unknown function (DUF2947); Region: DUF2947; pfam11163 225849003692 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225849003693 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849003694 dimer interface [polypeptide binding]; other site 225849003695 putative CheW interface [polypeptide binding]; other site 225849003696 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849003697 Coenzyme A binding pocket [chemical binding]; other site 225849003698 Pregnancy-associated plasma protein-A; Region: Peptidase_M43; cl17409 225849003699 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 225849003700 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 225849003701 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 225849003702 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 225849003703 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 225849003704 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 225849003705 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 225849003706 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 225849003707 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 225849003708 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 225849003709 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 225849003710 LPP20 lipoprotein; Region: LPP20; cl15824 225849003711 FlgN protein; Region: FlgN; pfam05130 225849003712 Anti-sigma-28 factor, FlgM; Region: FlgM; pfam04316 225849003713 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 225849003714 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 225849003715 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 225849003716 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 225849003717 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849003718 active site 225849003719 phosphorylation site [posttranslational modification] 225849003720 intermolecular recognition site; other site 225849003721 dimerization interface [polypeptide binding]; other site 225849003722 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 225849003723 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 225849003724 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 225849003725 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12625 225849003726 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 225849003727 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 225849003728 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 225849003729 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 225849003730 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 225849003731 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 225849003732 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 225849003733 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 225849003734 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 225849003735 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 225849003736 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 225849003737 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 225849003738 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 225849003739 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 225849003740 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 225849003741 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 225849003742 Flagellar L-ring protein; Region: FlgH; pfam02107 225849003743 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 225849003744 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 225849003745 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 225849003746 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 225849003747 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 225849003748 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK08871 225849003749 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 225849003750 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 225849003751 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 225849003752 flagellin; Reviewed; Region: PRK08869 225849003753 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 225849003754 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 225849003755 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 225849003756 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 225849003757 FlaG protein; Region: FlaG; pfam03646 225849003758 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 225849003759 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 225849003760 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 225849003761 flagellar protein FliS; Validated; Region: fliS; PRK05685 225849003762 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 225849003763 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 225849003764 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 225849003765 Walker A motif; other site 225849003766 ATP binding site [chemical binding]; other site 225849003767 Walker B motif; other site 225849003768 arginine finger; other site 225849003769 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225849003770 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 225849003771 PAS domain; Region: PAS; smart00091 225849003772 putative active site [active] 225849003773 heme pocket [chemical binding]; other site 225849003774 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 225849003775 dimer interface [polypeptide binding]; other site 225849003776 phosphorylation site [posttranslational modification] 225849003777 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 225849003778 ATP binding site [chemical binding]; other site 225849003779 Mg2+ binding site [ion binding]; other site 225849003780 G-X-G motif; other site 225849003781 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 225849003782 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849003783 active site 225849003784 phosphorylation site [posttranslational modification] 225849003785 intermolecular recognition site; other site 225849003786 dimerization interface [polypeptide binding]; other site 225849003787 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 225849003788 Walker A motif; other site 225849003789 ATP binding site [chemical binding]; other site 225849003790 Walker B motif; other site 225849003791 arginine finger; other site 225849003792 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225849003793 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 225849003794 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 225849003795 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 225849003796 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 225849003797 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 225849003798 MgtE intracellular N domain; Region: MgtE_N; smart00924 225849003799 FliG C-terminal domain; Region: FliG_C; pfam01706 225849003800 flagellar assembly protein H; Validated; Region: fliH; PRK05687 225849003801 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 225849003802 Flagellar assembly protein FliH; Region: FliH; pfam02108 225849003803 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 225849003804 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 225849003805 Walker A motif/ATP binding site; other site 225849003806 Walker B motif; other site 225849003807 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 225849003808 Flagellar FliJ protein; Region: FliJ; pfam02050 225849003809 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 225849003810 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 225849003811 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 225849003812 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 225849003813 flagellar motor switch protein; Validated; Region: fliN; PRK08983 225849003814 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 225849003815 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 225849003816 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 225849003817 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 225849003818 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 225849003819 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 225849003820 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 225849003821 FHIPEP family; Region: FHIPEP; pfam00771 225849003822 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 225849003823 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 225849003824 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 225849003825 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 225849003826 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 225849003827 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 225849003828 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225849003829 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 225849003830 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 225849003831 DNA binding residues [nucleotide binding] 225849003832 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 225849003833 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849003834 active site 225849003835 phosphorylation site [posttranslational modification] 225849003836 intermolecular recognition site; other site 225849003837 dimerization interface [polypeptide binding]; other site 225849003838 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 225849003839 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 225849003840 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 225849003841 putative binding surface; other site 225849003842 active site 225849003843 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 225849003844 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 225849003845 ATP binding site [chemical binding]; other site 225849003846 Mg2+ binding site [ion binding]; other site 225849003847 G-X-G motif; other site 225849003848 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 225849003849 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 225849003850 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849003851 active site 225849003852 phosphorylation site [posttranslational modification] 225849003853 intermolecular recognition site; other site 225849003854 dimerization interface [polypeptide binding]; other site 225849003855 CheB methylesterase; Region: CheB_methylest; pfam01339 225849003856 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 225849003857 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 225849003858 P-loop; other site 225849003859 Magnesium ion binding site [ion binding]; other site 225849003860 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 225849003861 Magnesium ion binding site [ion binding]; other site 225849003862 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 225849003863 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 225849003864 putative CheA interaction surface; other site 225849003865 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 225849003866 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 225849003867 VacJ like lipoprotein; Region: VacJ; cl01073 225849003868 Response regulator receiver domain; Region: Response_reg; pfam00072 225849003869 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849003870 active site 225849003871 phosphorylation site [posttranslational modification] 225849003872 intermolecular recognition site; other site 225849003873 response regulator of RpoS; Provisional; Region: PRK10693 225849003874 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cl00120 225849003875 POT family; Region: PTR2; cl17359 225849003876 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 225849003877 transcriptional activator RfaH; Region: RfaH; TIGR01955 225849003878 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 225849003879 heterodimer interface [polypeptide binding]; other site 225849003880 homodimer interface [polypeptide binding]; other site 225849003881 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 225849003882 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 225849003883 SLBB domain; Region: SLBB; pfam10531 225849003884 SLBB domain; Region: SLBB; pfam10531 225849003885 SLBB domain; Region: SLBB; pfam10531 225849003886 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 225849003887 SLBB domain; Region: SLBB; pfam10531 225849003888 Chain length determinant protein [Cell envelope biogenesis, outer membrane]; Region: WzzB; COG3765 225849003889 Chain length determinant protein; Region: Wzz; pfam02706 225849003890 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 225849003891 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 225849003892 Bacterial sugar transferase; Region: Bac_transf; pfam02397 225849003893 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 225849003894 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 225849003895 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 225849003896 active site 225849003897 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 225849003898 ligand binding site; other site 225849003899 tetramer interface; other site 225849003900 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 225849003901 Putative D-3-Phosphoglycerate Dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_like_2; cd12172 225849003902 putative ligand binding site [chemical binding]; other site 225849003903 putative NAD binding site [chemical binding]; other site 225849003904 catalytic site [active] 225849003905 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 225849003906 classical (c) SDRs; Region: SDR_c; cd05233 225849003907 NAD(P) binding site [chemical binding]; other site 225849003908 active site 225849003909 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 225849003910 Protein of unknown function DUF115; Region: MAF_flag10; pfam01973 225849003911 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 225849003912 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 225849003913 active site 225849003914 polysaccharide export protein Wza; Provisional; Region: PRK15078 225849003915 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 225849003916 SLBB domain; Region: SLBB; pfam10531 225849003917 SLBB domain; Region: SLBB; pfam10531 225849003918 Low molecular weight phosphatase family; Region: LMWPc; cd00115 225849003919 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 225849003920 active site 225849003921 tyrosine kinase; Provisional; Region: PRK11519 225849003922 Chain length determinant protein; Region: Wzz; pfam02706 225849003923 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 225849003924 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 225849003925 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 225849003926 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 225849003927 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 225849003928 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 225849003929 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 225849003930 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 225849003931 NAD binding site [chemical binding]; other site 225849003932 substrate binding site [chemical binding]; other site 225849003933 homodimer interface [polypeptide binding]; other site 225849003934 active site 225849003935 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 225849003936 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 225849003937 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 225849003938 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 225849003939 putative ADP-binding pocket [chemical binding]; other site 225849003940 Bacterial sugar transferase; Region: Bac_transf; pfam02397 225849003941 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 225849003942 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 225849003943 inhibitor-cofactor binding pocket; inhibition site 225849003944 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849003945 catalytic residue [active] 225849003946 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 225849003947 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 225849003948 Active Sites [active] 225849003949 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 225849003950 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 225849003951 CysD dimerization site [polypeptide binding]; other site 225849003952 G1 box; other site 225849003953 putative GEF interaction site [polypeptide binding]; other site 225849003954 GTP/Mg2+ binding site [chemical binding]; other site 225849003955 Switch I region; other site 225849003956 G2 box; other site 225849003957 G3 box; other site 225849003958 Switch II region; other site 225849003959 G4 box; other site 225849003960 G5 box; other site 225849003961 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 225849003962 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 225849003963 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 225849003964 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 225849003965 TrkA-C domain; Region: TrkA_C; pfam02080 225849003966 TrkA-C domain; Region: TrkA_C; pfam02080 225849003967 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 225849003968 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 225849003969 ligand-binding site [chemical binding]; other site 225849003970 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 225849003971 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 225849003972 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 225849003973 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 225849003974 NAD(P) binding site [chemical binding]; other site 225849003975 homodimer interface [polypeptide binding]; other site 225849003976 substrate binding site [chemical binding]; other site 225849003977 active site 225849003978 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 225849003979 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 225849003980 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 225849003981 NAD binding site [chemical binding]; other site 225849003982 substrate binding site [chemical binding]; other site 225849003983 homodimer interface [polypeptide binding]; other site 225849003984 active site 225849003985 Transposase IS200 like; Region: Y1_Tnp; pfam01797 225849003986 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 225849003987 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 225849003988 Beta-Casp domain; Region: Beta-Casp; smart01027 225849003989 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 225849003990 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; cl17405 225849003991 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 225849003992 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 225849003993 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 225849003994 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 225849003995 active site 225849003996 nucleotide binding site [chemical binding]; other site 225849003997 HIGH motif; other site 225849003998 KMSKS motif; other site 225849003999 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 225849004000 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 225849004001 active site 225849004002 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 225849004003 putative trimer interface [polypeptide binding]; other site 225849004004 putative CoA binding site [chemical binding]; other site 225849004005 Teichoic acid biosynthesis proteins [Cell envelope biogenesis, outer membrane]; Region: WecG; COG1922 225849004006 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 225849004007 exopolysaccharide biosynthesis polyprenyl glycosylphosphotransferase; Region: EPS_sugtrans; TIGR03025 225849004008 Bacterial sugar transferase; Region: Bac_transf; pfam02397 225849004009 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 225849004010 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 225849004011 active site 225849004012 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 225849004013 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 225849004014 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 225849004015 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 225849004016 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 225849004017 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 225849004018 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 225849004019 anti sigma factor interaction site; other site 225849004020 regulatory phosphorylation site [posttranslational modification]; other site 225849004021 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 225849004022 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 225849004023 Response regulator receiver domain; Region: Response_reg; pfam00072 225849004024 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849004025 active site 225849004026 phosphorylation site [posttranslational modification] 225849004027 intermolecular recognition site; other site 225849004028 dimerization interface [polypeptide binding]; other site 225849004029 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 225849004030 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 225849004031 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 225849004032 dimerization interface [polypeptide binding]; other site 225849004033 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 225849004034 dimerization interface [polypeptide binding]; other site 225849004035 PAS domain S-box; Region: sensory_box; TIGR00229 225849004036 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 225849004037 putative active site [active] 225849004038 heme pocket [chemical binding]; other site 225849004039 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 225849004040 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 225849004041 putative active site [active] 225849004042 heme pocket [chemical binding]; other site 225849004043 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 225849004044 dimer interface [polypeptide binding]; other site 225849004045 phosphorylation site [posttranslational modification] 225849004046 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 225849004047 ATP binding site [chemical binding]; other site 225849004048 Mg2+ binding site [ion binding]; other site 225849004049 G-X-G motif; other site 225849004050 Response regulator receiver domain; Region: Response_reg; pfam00072 225849004051 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849004052 active site 225849004053 phosphorylation site [posttranslational modification] 225849004054 intermolecular recognition site; other site 225849004055 dimerization interface [polypeptide binding]; other site 225849004056 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 225849004057 putative binding surface; other site 225849004058 active site 225849004059 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 225849004060 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849004061 active site 225849004062 phosphorylation site [posttranslational modification] 225849004063 intermolecular recognition site; other site 225849004064 dimerization interface [polypeptide binding]; other site 225849004065 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 225849004066 Walker A motif; other site 225849004067 ATP binding site [chemical binding]; other site 225849004068 Walker B motif; other site 225849004069 arginine finger; other site 225849004070 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225849004071 putative hydrolase; Validated; Region: PRK09248 225849004072 Polymerase and Histidinol Phosphatase domain of Ycdx like; Region: PHP_HisPPase_Ycdx_like; cd07437 225849004073 active site 225849004074 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 225849004075 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 225849004076 NADP binding site [chemical binding]; other site 225849004077 active site 225849004078 putative substrate binding site [chemical binding]; other site 225849004079 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 225849004080 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 225849004081 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 225849004082 PA14 domain; Region: PA14; cl08459 225849004083 Fibronectin type III-like domain; Region: Fn3-like; pfam14310 225849004084 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 225849004085 Cupin-like domain; Region: Cupin_8; pfam13621 225849004086 SapC; Region: SapC; pfam07277 225849004087 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 225849004088 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 225849004089 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 225849004090 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 225849004091 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 225849004092 Transcriptional regulators [Transcription]; Region: PurR; COG1609 225849004093 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 225849004094 DNA binding site [nucleotide binding] 225849004095 domain linker motif; other site 225849004096 Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism; Region: PBP1_GalS_like; cd06270 225849004097 dimerization interface (closed form) [polypeptide binding]; other site 225849004098 ligand binding site [chemical binding]; other site 225849004099 melibiose:sodium symporter; Provisional; Region: PRK10429; cl15392 225849004100 putative symporter YagG; Provisional; Region: PRK09669 225849004101 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 225849004102 beta-galactosidase; Region: BGL; TIGR03356 225849004103 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 225849004104 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 225849004105 putative substrate translocation pore; other site 225849004106 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 225849004107 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 225849004108 Glycosyl hydrolase family 3 C-terminal domain; Region: Glyco_hydro_3_C; pfam01915 225849004109 Laminarinase, member of the glycosyl hydrolase family 16; Region: GH16_laminarinase_like; cd08023 225849004110 active site 225849004111 catalytic residues [active] 225849004112 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 225849004113 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 225849004114 active site 225849004115 fructokinase; Reviewed; Region: PRK09557 225849004116 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 225849004117 nucleotide binding site [chemical binding]; other site 225849004118 Uncharacterized conserved protein [Function unknown]; Region: COG1434 225849004119 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 225849004120 putative active site [active] 225849004121 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 225849004122 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 225849004123 ferredoxin-type protein; Provisional; Region: PRK10194 225849004124 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 225849004125 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 225849004126 4Fe-4S binding domain; Region: Fer4; cl02805 225849004127 UDP-glucose 4-epimerase; Region: PLN02240 225849004128 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 225849004129 NAD binding site [chemical binding]; other site 225849004130 homodimer interface [polypeptide binding]; other site 225849004131 active site 225849004132 substrate binding site [chemical binding]; other site 225849004133 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 225849004134 active site 225849004135 tetramer interface; other site 225849004136 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 225849004137 cofactor binding site; other site 225849004138 metal binding site [ion binding]; metal-binding site 225849004139 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 225849004140 aromatic arch; other site 225849004141 DCoH dimer interaction site [polypeptide binding]; other site 225849004142 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 225849004143 DCoH tetramer interaction site [polypeptide binding]; other site 225849004144 substrate binding site [chemical binding]; other site 225849004145 DNA-binding transcriptional regulator TyrR; Provisional; Region: PRK10820 225849004146 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 225849004147 putative aromatic amino acid binding site; other site 225849004148 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 225849004149 putative active site [active] 225849004150 heme pocket [chemical binding]; other site 225849004151 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 225849004152 Walker A motif; other site 225849004153 ATP binding site [chemical binding]; other site 225849004154 Walker B motif; other site 225849004155 arginine finger; other site 225849004156 GIYX(10-11)YIG family of class I homing endonucleases C-terminus (GIY-YIG_Cterm). Homing endonucleases promote the mobility of intron or intein by recognizing and cleaving a homologous allele that lacks the sequence. They catalyze a double-strand break...; Region: GIY-YIG_Cterm; cl11508 225849004157 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 225849004158 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 225849004159 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 225849004160 maleylacetoacetate isomerase; Region: maiA; TIGR01262 225849004161 C-terminal domain interface [polypeptide binding]; other site 225849004162 GSH binding site (G-site) [chemical binding]; other site 225849004163 putative dimer interface [polypeptide binding]; other site 225849004164 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 225849004165 dimer interface [polypeptide binding]; other site 225849004166 N-terminal domain interface [polypeptide binding]; other site 225849004167 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 225849004168 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849004169 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849004170 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 225849004171 dimerization interface [polypeptide binding]; other site 225849004172 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 225849004173 Major Facilitator Superfamily; Region: MFS_1; pfam07690 225849004174 putative substrate translocation pore; other site 225849004175 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 225849004176 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 225849004177 putative substrate translocation pore; other site 225849004178 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 225849004179 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 225849004180 active site 225849004181 HIGH motif; other site 225849004182 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 225849004183 active site 225849004184 KMSKS motif; other site 225849004185 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 225849004186 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 225849004187 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849004188 Walker A/P-loop; other site 225849004189 ATP binding site [chemical binding]; other site 225849004190 Q-loop/lid; other site 225849004191 ABC transporter signature motif; other site 225849004192 Walker B; other site 225849004193 D-loop; other site 225849004194 H-loop/switch region; other site 225849004195 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 225849004196 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 225849004197 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225849004198 AlkA N-terminal domain; Region: AlkA_N; pfam06029 225849004199 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 225849004200 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 225849004201 minor groove reading motif; other site 225849004202 helix-hairpin-helix signature motif; other site 225849004203 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 225849004204 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 225849004205 DNA binding site [nucleotide binding] 225849004206 active site 225849004207 helicase 45; Provisional; Region: PTZ00424 225849004208 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 225849004209 ATP binding site [chemical binding]; other site 225849004210 Mg++ binding site [ion binding]; other site 225849004211 motif III; other site 225849004212 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 225849004213 nucleotide binding region [chemical binding]; other site 225849004214 ATP-binding site [chemical binding]; other site 225849004215 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 225849004216 active site 225849004217 catalytic residues [active] 225849004218 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 225849004219 PLD-like domain; Region: PLDc_2; pfam13091 225849004220 putative active site [active] 225849004221 catalytic site [active] 225849004222 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 225849004223 PLD-like domain; Region: PLDc_2; pfam13091 225849004224 putative active site [active] 225849004225 catalytic site [active] 225849004226 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 225849004227 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 225849004228 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849004229 active site 225849004230 phosphorylation site [posttranslational modification] 225849004231 intermolecular recognition site; other site 225849004232 dimerization interface [polypeptide binding]; other site 225849004233 serine/threonine transporter SstT; Provisional; Region: PRK13628 225849004234 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 225849004235 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 225849004236 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 225849004237 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 225849004238 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 225849004239 active site 225849004240 Protein of unknown function, DUF479; Region: DUF479; cl01203 225849004241 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 225849004242 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 225849004243 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 225849004244 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 225849004245 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 225849004246 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 225849004247 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 225849004248 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 225849004249 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 225849004250 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 225849004251 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 225849004252 Protein export membrane protein; Region: SecD_SecF; pfam02355 225849004253 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 225849004254 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 225849004255 active site residue [active] 225849004256 Siroheme synthase (precorrin-2 oxidase/ferrochelatase domain) [Coenzyme metabolism]; Region: CysG; COG1648 225849004257 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 225849004258 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 225849004259 YaeQ protein; Region: YaeQ; pfam07152 225849004260 probable metal-binding protein; Region: matur_matur; TIGR03853 225849004261 Phosphate-starvation-inducible E; Region: PsiE; pfam06146 225849004262 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 225849004263 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 225849004264 active site 225849004265 dimerization interface [polypeptide binding]; other site 225849004266 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 225849004267 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 225849004268 serine O-acetyltransferase; Region: cysE; TIGR01172 225849004269 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 225849004270 trimer interface [polypeptide binding]; other site 225849004271 active site 225849004272 substrate binding site [chemical binding]; other site 225849004273 CoA binding site [chemical binding]; other site 225849004274 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 225849004275 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 225849004276 Rrf2 family protein; Region: rrf2_super; TIGR00738 225849004277 cysteine desulfurase; Provisional; Region: PRK14012 225849004278 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 225849004279 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 225849004280 catalytic residue [active] 225849004281 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 225849004282 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 225849004283 trimerization site [polypeptide binding]; other site 225849004284 active site 225849004285 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 225849004286 co-chaperone HscB; Provisional; Region: hscB; PRK05014 225849004287 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 225849004288 HSP70 interaction site [polypeptide binding]; other site 225849004289 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 225849004290 chaperone protein HscA; Provisional; Region: hscA; PRK05183 225849004291 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 225849004292 nucleotide binding site [chemical binding]; other site 225849004293 putative NEF/HSP70 interaction site [polypeptide binding]; other site 225849004294 SBD interface [polypeptide binding]; other site 225849004295 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 225849004296 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 225849004297 catalytic loop [active] 225849004298 iron binding site [ion binding]; other site 225849004299 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 225849004300 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 225849004301 active site 225849004302 multimer interface [polypeptide binding]; other site 225849004303 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 225849004304 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 225849004305 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 225849004306 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 225849004307 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 225849004308 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 225849004309 FMN binding site [chemical binding]; other site 225849004310 active site 225849004311 catalytic residues [active] 225849004312 substrate binding site [chemical binding]; other site 225849004313 hypothetical protein; Provisional; Region: PRK05409 225849004314 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 225849004315 hypothetical protein; Provisional; Region: PRK10527 225849004316 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 225849004317 active site 225849004318 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14949 225849004319 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 225849004320 Walker A motif; other site 225849004321 ATP binding site [chemical binding]; other site 225849004322 Walker B motif; other site 225849004323 arginine finger; other site 225849004324 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 225849004325 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 225849004326 hypothetical protein; Validated; Region: PRK00153 225849004327 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 225849004328 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 225849004329 FeS/SAM binding site; other site 225849004330 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 225849004331 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 225849004332 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849004333 active site 225849004334 phosphorylation site [posttranslational modification] 225849004335 intermolecular recognition site; other site 225849004336 dimerization interface [polypeptide binding]; other site 225849004337 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 225849004338 DNA binding residues [nucleotide binding] 225849004339 dimerization interface [polypeptide binding]; other site 225849004340 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 225849004341 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 225849004342 Histidine kinase; Region: HisKA_3; pfam07730 225849004343 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 225849004344 ATP binding site [chemical binding]; other site 225849004345 Mg2+ binding site [ion binding]; other site 225849004346 G-X-G motif; other site 225849004347 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 225849004348 Sulfatase; Region: Sulfatase; pfam00884 225849004349 MoxR-like ATPases [General function prediction only]; Region: COG0714 225849004350 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 225849004351 Walker A motif; other site 225849004352 ATP binding site [chemical binding]; other site 225849004353 Walker B motif; other site 225849004354 arginine finger; other site 225849004355 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 225849004356 Protein of unknown function DUF58; Region: DUF58; pfam01882 225849004357 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 225849004358 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 225849004359 metal ion-dependent adhesion site (MIDAS); other site 225849004360 von Willebrand factor type A domain; Region: VWA_2; pfam13519 225849004361 metal ion-dependent adhesion site (MIDAS); other site 225849004362 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 225849004363 binding surface 225849004364 TPR motif; other site 225849004365 Oxygen tolerance; Region: BatD; pfam13584 225849004366 recombination protein RecR; Reviewed; Region: recR; PRK00076 225849004367 RecR protein; Region: RecR; pfam02132 225849004368 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 225849004369 putative active site [active] 225849004370 putative metal-binding site [ion binding]; other site 225849004371 tetramer interface [polypeptide binding]; other site 225849004372 heat shock protein 90; Provisional; Region: PRK05218 225849004373 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 225849004374 ATP binding site [chemical binding]; other site 225849004375 Mg2+ binding site [ion binding]; other site 225849004376 G-X-G motif; other site 225849004377 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 225849004378 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 225849004379 adenylate kinase; Reviewed; Region: adk; PRK00279 225849004380 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 225849004381 AMP-binding site [chemical binding]; other site 225849004382 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 225849004383 ferrochelatase; Reviewed; Region: hemH; PRK00035 225849004384 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 225849004385 C-terminal domain interface [polypeptide binding]; other site 225849004386 active site 225849004387 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 225849004388 active site 225849004389 N-terminal domain interface [polypeptide binding]; other site 225849004390 inosine/guanosine kinase; Provisional; Region: PRK15074 225849004391 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 225849004392 maltose O-acetyltransferase; Provisional; Region: PRK10092 225849004393 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 225849004394 active site 225849004395 substrate binding site [chemical binding]; other site 225849004396 trimer interface [polypeptide binding]; other site 225849004397 CoA binding site [chemical binding]; other site 225849004398 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 225849004399 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 225849004400 Bacterial Ig-like domain (group 1); Region: Big_1; cl17740 225849004401 succinylarginine dihydrolase; Provisional; Region: PRK13281 225849004402 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 225849004403 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 225849004404 active site 225849004405 interdomain interaction site; other site 225849004406 putative metal-binding site [ion binding]; other site 225849004407 nucleotide binding site [chemical binding]; other site 225849004408 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 225849004409 domain I; other site 225849004410 DNA binding groove [nucleotide binding] 225849004411 phosphate binding site [ion binding]; other site 225849004412 domain II; other site 225849004413 domain III; other site 225849004414 nucleotide binding site [chemical binding]; other site 225849004415 catalytic site [active] 225849004416 domain IV; other site 225849004417 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 225849004418 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 225849004419 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 225849004420 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 225849004421 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 225849004422 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849004423 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 225849004424 substrate binding site [chemical binding]; other site 225849004425 dimerization interface [polypeptide binding]; other site 225849004426 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 225849004427 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 225849004428 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 225849004429 beta-hexosaminidase; Provisional; Region: PRK05337 225849004430 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 225849004431 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 225849004432 HAMP domain; Region: HAMP; pfam00672 225849004433 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849004434 dimer interface [polypeptide binding]; other site 225849004435 putative CheW interface [polypeptide binding]; other site 225849004436 hypothetical protein; Provisional; Region: PRK04940 225849004437 acylphosphatase; Provisional; Region: PRK14429 225849004438 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 225849004439 transcription-repair coupling factor; Provisional; Region: PRK10689 225849004440 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 225849004441 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 225849004442 ATP binding site [chemical binding]; other site 225849004443 putative Mg++ binding site [ion binding]; other site 225849004444 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 225849004445 nucleotide binding region [chemical binding]; other site 225849004446 ATP-binding site [chemical binding]; other site 225849004447 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 225849004448 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 225849004449 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 225849004450 FtsX-like permease family; Region: FtsX; pfam02687 225849004451 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 225849004452 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 225849004453 Walker A/P-loop; other site 225849004454 ATP binding site [chemical binding]; other site 225849004455 Q-loop/lid; other site 225849004456 ABC transporter signature motif; other site 225849004457 Walker B; other site 225849004458 D-loop; other site 225849004459 H-loop/switch region; other site 225849004460 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 225849004461 FtsX-like permease family; Region: FtsX; pfam02687 225849004462 nitrobindin heme-binding domain; Region: nitrobindin; cl10502 225849004463 nitrobindin heme-binding domain; Region: nitrobindin; cl10502 225849004464 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 2 [Coenzyme metabolism]; Region: ThiF; COG0476 225849004465 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 225849004466 ATP binding site [chemical binding]; other site 225849004467 substrate interface [chemical binding]; other site 225849004468 bacteriocin biosynthesis cyclodehydratase domain; Region: cyclo_dehyd_2; TIGR03882 225849004469 YcaO-like family; Region: YcaO; pfam02624 225849004470 thiazole/oxazole-forming peptide maturase, SagD family component; Region: TOMM_cyclo_SagD; TIGR03604 225849004471 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 225849004472 Oxidoreductase (NAD-binding), involved in siderophore biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PchG; COG4693 225849004473 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 225849004474 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 225849004475 putative active site [active] 225849004476 Zn binding site [ion binding]; other site 225849004477 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849004478 Coenzyme A binding pocket [chemical binding]; other site 225849004479 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_4; cd07268 225849004480 putative metal binding site [ion binding]; other site 225849004481 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 225849004482 Ion transport protein; Region: Ion_trans; pfam00520 225849004483 Ion channel; Region: Ion_trans_2; pfam07885 225849004484 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 225849004485 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 225849004486 Protein of unknown function (DUF2986); Region: DUF2986; pfam11661 225849004487 ASC-1 homology domain, subfamily similar to Escherichia coli Yqfb. The ASCH domain, a small beta-barrel domain found in all three kingdoms of life, resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as...; Region: ASCH_yqfb_like; cd06552 225849004488 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225849004489 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225849004490 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849004491 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225849004492 Protein export membrane protein; Region: SecD_SecF; cl14618 225849004493 Protein export membrane protein; Region: SecD_SecF; cl14618 225849004494 Predicted membrane protein [Function unknown]; Region: COG3235 225849004495 Cobalt uptake substrate-specific transmembrane region; Region: CbiM; pfam01891 225849004496 Uncharacterized conserved protein [Function unknown]; Region: COG3791 225849004497 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 225849004498 Protein of unknown function (DUF1538); Region: DUF1538; pfam07556 225849004499 Nitrogen regulatory protein P-II; Region: P-II; smart00938 225849004500 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 225849004501 Tellurite resistance protein TerB; Region: TerB; cl17311 225849004502 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 225849004503 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins; Region: GAT1_Peptidase_E_like; cd03129 225849004504 catalytic triad [active] 225849004505 active site nucleophile [active] 225849004506 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 225849004507 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 225849004508 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 225849004509 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 225849004510 ligand binding site [chemical binding]; other site 225849004511 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an N-terminal Iron-Sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible...; Region: FNR_N-term_Iron_sulfur_binding; cd06194 225849004512 FAD binding pocket [chemical binding]; other site 225849004513 FAD binding motif [chemical binding]; other site 225849004514 phosphate binding motif [ion binding]; other site 225849004515 beta-alpha-beta structure motif; other site 225849004516 NAD binding pocket [chemical binding]; other site 225849004517 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 225849004518 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 225849004519 Protein of unknown function (DUF445); Region: DUF445; pfam04286 225849004520 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 225849004521 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 225849004522 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 225849004523 putative substrate binding pocket [chemical binding]; other site 225849004524 trimer interface [polypeptide binding]; other site 225849004525 asparagine synthetase B; Provisional; Region: asnB; PRK09431 225849004526 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 225849004527 active site 225849004528 dimer interface [polypeptide binding]; other site 225849004529 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 225849004530 Ligand Binding Site [chemical binding]; other site 225849004531 Molecular Tunnel; other site 225849004532 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 225849004533 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 225849004534 PA/protease or protease-like domain interface [polypeptide binding]; other site 225849004535 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 225849004536 Peptidase family M28; Region: Peptidase_M28; pfam04389 225849004537 metal binding site [ion binding]; metal-binding site 225849004538 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 225849004539 FAD binding domain; Region: FAD_binding_4; pfam01565 225849004540 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 225849004541 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 225849004542 L-lactate permease; Region: Lactate_perm; cl00701 225849004543 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 225849004544 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 225849004545 Histidine kinase; Region: HisKA_3; pfam07730 225849004546 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 225849004547 ATP binding site [chemical binding]; other site 225849004548 Mg2+ binding site [ion binding]; other site 225849004549 G-X-G motif; other site 225849004550 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 225849004551 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849004552 active site 225849004553 phosphorylation site [posttranslational modification] 225849004554 intermolecular recognition site; other site 225849004555 dimerization interface [polypeptide binding]; other site 225849004556 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 225849004557 DNA binding residues [nucleotide binding] 225849004558 dimerization interface [polypeptide binding]; other site 225849004559 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 225849004560 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 225849004561 active site 225849004562 substrate binding site [chemical binding]; other site 225849004563 cosubstrate binding site; other site 225849004564 catalytic site [active] 225849004565 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 225849004566 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 225849004567 dimerization interface [polypeptide binding]; other site 225849004568 putative ATP binding site [chemical binding]; other site 225849004569 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 225849004570 active site 225849004571 Predicted permease [General function prediction only]; Region: COG2056 225849004572 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 225849004573 peroxidase; Provisional; Region: PRK15000 225849004574 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 225849004575 dimer interface [polypeptide binding]; other site 225849004576 decamer (pentamer of dimers) interface [polypeptide binding]; other site 225849004577 catalytic triad [active] 225849004578 peroxidatic and resolving cysteines [active] 225849004579 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 225849004580 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 225849004581 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 225849004582 nucleophilic elbow; other site 225849004583 catalytic triad; other site 225849004584 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 225849004585 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 225849004586 dimer interface [polypeptide binding]; other site 225849004587 catalytic site [active] 225849004588 putative active site [active] 225849004589 putative substrate binding site [chemical binding]; other site 225849004590 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 225849004591 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225849004592 ligand binding site [chemical binding]; other site 225849004593 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 225849004594 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225849004595 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 225849004596 active site 225849004597 TolQ protein; Region: tolQ; TIGR02796 225849004598 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 225849004599 TolR protein; Region: tolR; TIGR02801 225849004600 TolA protein; Region: tolA_full; TIGR02794 225849004601 TolA C-terminal; Region: TolA; pfam06519 225849004602 translocation protein TolB; Provisional; Region: tolB; PRK04792 225849004603 TolB amino-terminal domain; Region: TolB_N; pfam04052 225849004604 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 225849004605 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 225849004606 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 225849004607 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 225849004608 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 225849004609 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225849004610 ligand binding site [chemical binding]; other site 225849004611 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 225849004612 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 225849004613 GSH binding site [chemical binding]; other site 225849004614 catalytic residues [active] 225849004615 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 225849004616 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 225849004617 ATP binding site [chemical binding]; other site 225849004618 putative Mg++ binding site [ion binding]; other site 225849004619 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 225849004620 nucleotide binding region [chemical binding]; other site 225849004621 ATP-binding site [chemical binding]; other site 225849004622 Double zinc ribbon; Region: DZR; pfam12773 225849004623 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849004624 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849004625 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 225849004626 putative effector binding pocket; other site 225849004627 dimerization interface [polypeptide binding]; other site 225849004628 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 225849004629 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 225849004630 NAD binding site [chemical binding]; other site 225849004631 acetyl-CoA synthetase; Provisional; Region: PRK00174 225849004632 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 225849004633 active site 225849004634 CoA binding site [chemical binding]; other site 225849004635 acyl-activating enzyme (AAE) consensus motif; other site 225849004636 AMP binding site [chemical binding]; other site 225849004637 acetate binding site [chemical binding]; other site 225849004638 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 225849004639 Na binding site [ion binding]; other site 225849004640 PAS fold; Region: PAS_7; pfam12860 225849004641 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 225849004642 dimer interface [polypeptide binding]; other site 225849004643 phosphorylation site [posttranslational modification] 225849004644 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 225849004645 ATP binding site [chemical binding]; other site 225849004646 Mg2+ binding site [ion binding]; other site 225849004647 G-X-G motif; other site 225849004648 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 225849004649 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849004650 active site 225849004651 phosphorylation site [posttranslational modification] 225849004652 intermolecular recognition site; other site 225849004653 dimerization interface [polypeptide binding]; other site 225849004654 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 225849004655 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 225849004656 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 225849004657 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849004658 active site 225849004659 phosphorylation site [posttranslational modification] 225849004660 intermolecular recognition site; other site 225849004661 dimerization interface [polypeptide binding]; other site 225849004662 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 225849004663 DNA binding residues [nucleotide binding] 225849004664 dimerization interface [polypeptide binding]; other site 225849004665 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 225849004666 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 225849004667 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849004668 Coenzyme A binding pocket [chemical binding]; other site 225849004669 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12756 225849004670 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 225849004671 PEP synthetase regulatory protein; Provisional; Region: PRK05339 225849004672 phosphoenolpyruvate synthase; Validated; Region: PRK06464 225849004673 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 225849004674 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 225849004675 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 225849004676 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 225849004677 FAD binding domain; Region: FAD_binding_4; pfam01565 225849004678 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 225849004679 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 225849004680 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 225849004681 Periplasmic lysozyme inhibitor, I-type (PliI) and similar proteins; Region: PliI_like; cd09632 225849004682 dimer interface [polypeptide binding]; other site 225849004683 putative inhibitory loop; other site 225849004684 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 225849004685 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 225849004686 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 225849004687 NAD binding site [chemical binding]; other site 225849004688 Phe binding site; other site 225849004689 Cupin superfamily protein; Region: Cupin_4; pfam08007 225849004690 Cupin domain; Region: Cupin_2; cl17218 225849004691 Cupin domain; Region: Cupin_2; cl17218 225849004692 adenylosuccinate lyase; Provisional; Region: PRK09285 225849004693 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 225849004694 tetramer interface [polypeptide binding]; other site 225849004695 active site 225849004696 putative lysogenization regulator; Reviewed; Region: PRK00218 225849004697 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 225849004698 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 225849004699 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 225849004700 nudix motif; other site 225849004701 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 225849004702 pseudouridine synthase; Region: TIGR00093 225849004703 active site 225849004704 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 225849004705 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 225849004706 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 225849004707 DNA-binding site [nucleotide binding]; DNA binding site 225849004708 RNA-binding motif; other site 225849004709 Uncharacterized conserved protein [Function unknown]; Region: COG2127 225849004710 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 225849004711 Clp amino terminal domain; Region: Clp_N; pfam02861 225849004712 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 225849004713 Walker A motif; other site 225849004714 ATP binding site [chemical binding]; other site 225849004715 Walker B motif; other site 225849004716 arginine finger; other site 225849004717 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 225849004718 Walker A motif; other site 225849004719 ATP binding site [chemical binding]; other site 225849004720 Walker B motif; other site 225849004721 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 225849004722 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 225849004723 rRNA binding site [nucleotide binding]; other site 225849004724 predicted 30S ribosome binding site; other site 225849004725 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 225849004726 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 225849004727 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 225849004728 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 225849004729 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 225849004730 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 225849004731 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225849004732 DNA-binding site [nucleotide binding]; DNA binding site 225849004733 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 225849004734 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849004735 homodimer interface [polypeptide binding]; other site 225849004736 catalytic residue [active] 225849004737 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 225849004738 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 225849004739 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 225849004740 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225849004741 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 225849004742 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 225849004743 Metallo-dependent hydrolases, subgroup A is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_A; cd01299 225849004744 active site 225849004745 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 225849004746 GST_N family, Omega-like subfamily; composed of uncharacterized proteins with similarity to class Omega GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_Omega_like; cd03060 225849004747 putative GSH binding site (G-site) [chemical binding]; other site 225849004748 active site cysteine [active] 225849004749 putative C-terminal domain interface [polypeptide binding]; other site 225849004750 putative dimer interface [polypeptide binding]; other site 225849004751 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 225849004752 putative N-terminal domain interface [polypeptide binding]; other site 225849004753 putative dimer interface [polypeptide binding]; other site 225849004754 putative substrate binding pocket (H-site) [chemical binding]; other site 225849004755 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 225849004756 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 225849004757 active site residue [active] 225849004758 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 225849004759 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 225849004760 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 225849004761 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 225849004762 dimer interface [polypeptide binding]; other site 225849004763 active site residues [active] 225849004764 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 225849004765 putative chaperone; Provisional; Region: PRK11678 225849004766 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 225849004767 nucleotide binding site [chemical binding]; other site 225849004768 putative NEF/HSP70 interaction site [polypeptide binding]; other site 225849004769 SBD interface [polypeptide binding]; other site 225849004770 CreA protein; Region: CreA; pfam05981 225849004771 Cupredoxin-like domain; Region: Cupredoxin_1; cl17234 225849004772 GTPase RsgA; Reviewed; Region: PRK01889 225849004773 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 225849004774 GTPase/Zn-binding domain interface [polypeptide binding]; other site 225849004775 GTP/Mg2+ binding site [chemical binding]; other site 225849004776 G4 box; other site 225849004777 G5 box; other site 225849004778 G1 box; other site 225849004779 Switch I region; other site 225849004780 G2 box; other site 225849004781 G3 box; other site 225849004782 Switch II region; other site 225849004783 Protein of unknown function (DUF1097); Region: DUF1097; pfam06496 225849004784 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225849004785 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849004786 dimer interface [polypeptide binding]; other site 225849004787 putative CheW interface [polypeptide binding]; other site 225849004788 CshA-type fibril repeat; Region: CshA_fibril_rpt; TIGR04225 225849004789 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 225849004790 dimerization interface [polypeptide binding]; other site 225849004791 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849004792 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849004793 metal binding site [ion binding]; metal-binding site 225849004794 active site 225849004795 I-site; other site 225849004796 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 225849004797 Uncharacterized conserved protein [Function unknown]; Region: COG0585 225849004798 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 225849004799 putative catalytic site [active] 225849004800 putative phosphate binding site [ion binding]; other site 225849004801 active site 225849004802 metal binding site A [ion binding]; metal-binding site 225849004803 DNA binding site [nucleotide binding] 225849004804 putative AP binding site [nucleotide binding]; other site 225849004805 putative metal binding site B [ion binding]; other site 225849004806 YciI-like protein; Reviewed; Region: PRK11370 225849004807 intracellular septation protein A; Reviewed; Region: PRK00259 225849004808 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 225849004809 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 225849004810 inhibitor site; inhibition site 225849004811 active site 225849004812 dimer interface [polypeptide binding]; other site 225849004813 catalytic residue [active] 225849004814 Transposase; Region: DEDD_Tnp_IS110; pfam01548 225849004815 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 225849004816 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 225849004817 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 225849004818 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 225849004819 Transposase; Region: DEDD_Tnp_IS110; pfam01548 225849004820 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 225849004821 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 225849004822 Transposase; Region: DEDD_Tnp_IS110; pfam01548 225849004823 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 225849004824 Protein of unknown function (DUF3644); Region: DUF3644; pfam12358 225849004825 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 225849004826 integron integrase; Region: integrase_gron; TIGR02249 225849004827 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 225849004828 active site 225849004829 DNA binding site [nucleotide binding] 225849004830 Int/Topo IB signature motif; other site 225849004831 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 225849004832 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 225849004833 substrate binding site [chemical binding]; other site 225849004834 active site 225849004835 catalytic residues [active] 225849004836 heterodimer interface [polypeptide binding]; other site 225849004837 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 225849004838 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 225849004839 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849004840 catalytic residue [active] 225849004841 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 225849004842 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 225849004843 active site 225849004844 ribulose/triose binding site [chemical binding]; other site 225849004845 phosphate binding site [ion binding]; other site 225849004846 substrate (anthranilate) binding pocket [chemical binding]; other site 225849004847 product (indole) binding pocket [chemical binding]; other site 225849004848 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 225849004849 active site 225849004850 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 225849004851 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 225849004852 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 225849004853 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 225849004854 Glutamine amidotransferase class-I; Region: GATase; pfam00117 225849004855 glutamine binding [chemical binding]; other site 225849004856 catalytic triad [active] 225849004857 anthranilate synthase component I; Provisional; Region: PRK13564 225849004858 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 225849004859 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 225849004860 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 225849004861 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 225849004862 active site 225849004863 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 225849004864 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 225849004865 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 225849004866 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 225849004867 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 225849004868 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 225849004869 RNA binding surface [nucleotide binding]; other site 225849004870 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 225849004871 probable active site [active] 225849004872 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 225849004873 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225849004874 NAD(P) binding site [chemical binding]; other site 225849004875 active site 225849004876 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 225849004877 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 225849004878 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 225849004879 putative inner membrane peptidase; Provisional; Region: PRK11778 225849004880 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 225849004881 tandem repeat interface [polypeptide binding]; other site 225849004882 oligomer interface [polypeptide binding]; other site 225849004883 active site residues [active] 225849004884 Helix-turn-helix domain; Region: HTH_18; pfam12833 225849004885 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 225849004886 parallel beta-helix repeat-containing protein; Region: beta_helix_1; TIGR03805 225849004887 conserved hypothetical protein, HNE_0200 family; Region: chp_HNE_0200; TIGR03806 225849004888 Planctomycete cytochrome C; Region: PSCyt1; pfam07635 225849004889 Protein of unknown function, DUF481; Region: DUF481; pfam04338 225849004890 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 225849004891 active site 225849004892 catalytic triad [active] 225849004893 oxyanion hole [active] 225849004894 switch loop; other site 225849004895 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 225849004896 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 225849004897 Walker A/P-loop; other site 225849004898 ATP binding site [chemical binding]; other site 225849004899 Q-loop/lid; other site 225849004900 ABC transporter signature motif; other site 225849004901 Walker B; other site 225849004902 D-loop; other site 225849004903 H-loop/switch region; other site 225849004904 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 225849004905 FtsX-like permease family; Region: FtsX; pfam02687 225849004906 atypical (a) SDRs, subgroup 8; Region: SDR_a8; cd05242 225849004907 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 225849004908 putative NAD(P) binding site [chemical binding]; other site 225849004909 putative active site [active] 225849004910 Domain of unknown function DUF20; Region: UPF0118; pfam01594 225849004911 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 225849004912 S-adenosylmethionine-dependent methyltransferase; Region: Methyltrans_SAM; pfam10672 225849004913 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 225849004914 S-adenosylmethionine binding site [chemical binding]; other site 225849004915 phosphate acetyltransferase; Reviewed; Region: PRK05632 225849004916 DRTGG domain; Region: DRTGG; pfam07085 225849004917 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl17212 225849004918 propionate/acetate kinase; Provisional; Region: PRK12379 225849004919 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 225849004920 Protein of unknown function, DUF412; Region: DUF412; pfam04217 225849004921 pyruvate formate lyase-activating enzyme 1; Provisional; Region: pflA; PRK11145 225849004922 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 225849004923 FeS/SAM binding site; other site 225849004924 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 225849004925 Pyruvate formate lyase 1; Region: PFL1; cd01678 225849004926 coenzyme A binding site [chemical binding]; other site 225849004927 active site 225849004928 catalytic residues [active] 225849004929 glycine loop; other site 225849004930 Protein of unknown function (DUF3360); Region: DUF3360; pfam11840 225849004931 formate transporter FocA; Region: formate_focA; TIGR04060 225849004932 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 225849004933 FOG: CBS domain [General function prediction only]; Region: COG0517 225849004934 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 225849004935 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 225849004936 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 225849004937 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849004938 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 225849004939 putative dimerization interface [polypeptide binding]; other site 225849004940 hypothetical protein; Provisional; Region: PRK11588 225849004941 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 225849004942 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 225849004943 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 225849004944 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 225849004945 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 225849004946 gating phenylalanine in ion channel; other site 225849004947 C-20 methyltransferase BchU; Region: C20_methyl_CrtF; TIGR02716 225849004948 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225849004949 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225849004950 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 225849004951 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 225849004952 dimer interface [polypeptide binding]; other site 225849004953 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849004954 catalytic residue [active] 225849004955 RDD family; Region: RDD; pfam06271 225849004956 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 225849004957 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849004958 active site 225849004959 phosphorylation site [posttranslational modification] 225849004960 intermolecular recognition site; other site 225849004961 dimerization interface [polypeptide binding]; other site 225849004962 Response regulator receiver domain; Region: Response_reg; pfam00072 225849004963 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849004964 active site 225849004965 phosphorylation site [posttranslational modification] 225849004966 intermolecular recognition site; other site 225849004967 dimerization interface [polypeptide binding]; other site 225849004968 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849004969 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849004970 metal binding site [ion binding]; metal-binding site 225849004971 active site 225849004972 I-site; other site 225849004973 DOMON-like type 9 carbohydrate binding module; Region: CBM9_like_2; cd09618 225849004974 putative ligand binding site [chemical binding]; other site 225849004975 putative sulfate transport protein CysZ; Validated; Region: PRK04949 225849004976 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 225849004977 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 225849004978 Walker A/P-loop; other site 225849004979 ATP binding site [chemical binding]; other site 225849004980 Q-loop/lid; other site 225849004981 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 225849004982 ABC transporter signature motif; other site 225849004983 Walker B; other site 225849004984 D-loop; other site 225849004985 H-loop/switch region; other site 225849004986 cell division protein ZipA; Provisional; Region: PRK03427 225849004987 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 225849004988 FtsZ protein binding site [polypeptide binding]; other site 225849004989 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 225849004990 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 225849004991 nucleotide binding pocket [chemical binding]; other site 225849004992 K-X-D-G motif; other site 225849004993 catalytic site [active] 225849004994 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 225849004995 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 225849004996 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 225849004997 Dimer interface [polypeptide binding]; other site 225849004998 BRCT sequence motif; other site 225849004999 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 225849005000 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 225849005001 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225849005002 Zn2+ binding site [ion binding]; other site 225849005003 Mg2+ binding site [ion binding]; other site 225849005004 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 225849005005 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 225849005006 putative NAD(P) binding site [chemical binding]; other site 225849005007 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 225849005008 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 225849005009 catalytic residues [active] 225849005010 hinge region; other site 225849005011 alpha helical domain; other site 225849005012 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 225849005013 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 225849005014 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 225849005015 Na binding site [ion binding]; other site 225849005016 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 225849005017 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 225849005018 ligand binding site [chemical binding]; other site 225849005019 flexible hinge region; other site 225849005020 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 225849005021 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 225849005022 metal binding triad; other site 225849005023 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 225849005024 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 225849005025 active site 225849005026 catalytic site [active] 225849005027 substrate binding site [chemical binding]; other site 225849005028 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225849005029 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 225849005030 dimer interface [polypeptide binding]; other site 225849005031 phosphorylation site [posttranslational modification] 225849005032 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 225849005033 ATP binding site [chemical binding]; other site 225849005034 Mg2+ binding site [ion binding]; other site 225849005035 G-X-G motif; other site 225849005036 Response regulator receiver domain; Region: Response_reg; pfam00072 225849005037 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849005038 active site 225849005039 phosphorylation site [posttranslational modification] 225849005040 intermolecular recognition site; other site 225849005041 dimerization interface [polypeptide binding]; other site 225849005042 Heme NO binding; Region: HNOB; pfam07700 225849005043 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 225849005044 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 225849005045 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 225849005046 dimer interface [polypeptide binding]; other site 225849005047 active site 225849005048 CoA binding pocket [chemical binding]; other site 225849005049 Transcriptional regulators [Transcription]; Region: GntR; COG1802 225849005050 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225849005051 DNA-binding site [nucleotide binding]; DNA binding site 225849005052 FCD domain; Region: FCD; pfam07729 225849005053 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 225849005054 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 225849005055 dimer interface [polypeptide binding]; other site 225849005056 NADP binding site [chemical binding]; other site 225849005057 catalytic residues [active] 225849005058 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 225849005059 Proline racemase [Amino acid transport and metabolism]; Region: COG3938 225849005060 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 225849005061 inhibitor site; inhibition site 225849005062 active site 225849005063 Class I aldolases; Region: Aldolase_Class_I; cl17187 225849005064 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 225849005065 Proline racemase; Region: Pro_racemase; pfam05544 225849005066 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 225849005067 hydroxyglutarate oxidase; Provisional; Region: PRK11728 225849005068 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 225849005069 proline aminopeptidase P II; Provisional; Region: PRK10879 225849005070 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 225849005071 active site 225849005072 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 225849005073 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 225849005074 active site 225849005075 motif I; other site 225849005076 motif II; other site 225849005077 PAS domain; Region: PAS_9; pfam13426 225849005078 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 225849005079 putative active site [active] 225849005080 heme pocket [chemical binding]; other site 225849005081 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 225849005082 dimerization interface [polypeptide binding]; other site 225849005083 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225849005084 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849005085 dimer interface [polypeptide binding]; other site 225849005086 putative CheW interface [polypeptide binding]; other site 225849005087 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 225849005088 FAD binding domain; Region: FAD_binding_4; pfam01565 225849005089 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 225849005090 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 225849005091 Biotin operon repressor [Transcription]; Region: BirA; COG1654 225849005092 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 225849005093 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 225849005094 pantothenate kinase; Provisional; Region: PRK05439 225849005095 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 225849005096 ATP-binding site [chemical binding]; other site 225849005097 CoA-binding site [chemical binding]; other site 225849005098 Mg2+-binding site [ion binding]; other site 225849005099 elongation factor Tu; Reviewed; Region: PRK00049 225849005100 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 225849005101 G1 box; other site 225849005102 GEF interaction site [polypeptide binding]; other site 225849005103 GTP/Mg2+ binding site [chemical binding]; other site 225849005104 Switch I region; other site 225849005105 G2 box; other site 225849005106 G3 box; other site 225849005107 Switch II region; other site 225849005108 G4 box; other site 225849005109 G5 box; other site 225849005110 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 225849005111 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 225849005112 Antibiotic Binding Site [chemical binding]; other site 225849005113 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 225849005114 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 225849005115 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 225849005116 putative homodimer interface [polypeptide binding]; other site 225849005117 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 225849005118 heterodimer interface [polypeptide binding]; other site 225849005119 homodimer interface [polypeptide binding]; other site 225849005120 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 225849005121 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 225849005122 23S rRNA interface [nucleotide binding]; other site 225849005123 L7/L12 interface [polypeptide binding]; other site 225849005124 putative thiostrepton binding site; other site 225849005125 L25 interface [polypeptide binding]; other site 225849005126 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 225849005127 mRNA/rRNA interface [nucleotide binding]; other site 225849005128 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 225849005129 23S rRNA interface [nucleotide binding]; other site 225849005130 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 225849005131 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 225849005132 core dimer interface [polypeptide binding]; other site 225849005133 peripheral dimer interface [polypeptide binding]; other site 225849005134 L10 interface [polypeptide binding]; other site 225849005135 L11 interface [polypeptide binding]; other site 225849005136 putative EF-Tu interaction site [polypeptide binding]; other site 225849005137 putative EF-G interaction site [polypeptide binding]; other site 225849005138 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 225849005139 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 225849005140 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 225849005141 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 225849005142 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 225849005143 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 225849005144 RPB3 interaction site [polypeptide binding]; other site 225849005145 RPB1 interaction site [polypeptide binding]; other site 225849005146 RPB11 interaction site [polypeptide binding]; other site 225849005147 RPB10 interaction site [polypeptide binding]; other site 225849005148 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 225849005149 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 225849005150 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 225849005151 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 225849005152 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 225849005153 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 225849005154 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 225849005155 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 225849005156 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 225849005157 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 225849005158 DNA binding site [nucleotide binding] 225849005159 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 225849005160 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 225849005161 S17 interaction site [polypeptide binding]; other site 225849005162 S8 interaction site; other site 225849005163 16S rRNA interaction site [nucleotide binding]; other site 225849005164 streptomycin interaction site [chemical binding]; other site 225849005165 23S rRNA interaction site [nucleotide binding]; other site 225849005166 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 225849005167 30S ribosomal protein S7; Validated; Region: PRK05302 225849005168 elongation factor G; Reviewed; Region: PRK00007 225849005169 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 225849005170 G1 box; other site 225849005171 putative GEF interaction site [polypeptide binding]; other site 225849005172 GTP/Mg2+ binding site [chemical binding]; other site 225849005173 Switch I region; other site 225849005174 G2 box; other site 225849005175 G3 box; other site 225849005176 Switch II region; other site 225849005177 G4 box; other site 225849005178 G5 box; other site 225849005179 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 225849005180 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 225849005181 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 225849005182 elongation factor Tu; Reviewed; Region: PRK00049 225849005183 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 225849005184 G1 box; other site 225849005185 GEF interaction site [polypeptide binding]; other site 225849005186 GTP/Mg2+ binding site [chemical binding]; other site 225849005187 Switch I region; other site 225849005188 G2 box; other site 225849005189 G3 box; other site 225849005190 Switch II region; other site 225849005191 G4 box; other site 225849005192 G5 box; other site 225849005193 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 225849005194 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 225849005195 Antibiotic Binding Site [chemical binding]; other site 225849005196 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 225849005197 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 225849005198 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 225849005199 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 225849005200 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 225849005201 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 225849005202 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 225849005203 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 225849005204 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 225849005205 putative translocon binding site; other site 225849005206 protein-rRNA interface [nucleotide binding]; other site 225849005207 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 225849005208 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 225849005209 G-X-X-G motif; other site 225849005210 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 225849005211 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 225849005212 23S rRNA interface [nucleotide binding]; other site 225849005213 5S rRNA interface [nucleotide binding]; other site 225849005214 putative antibiotic binding site [chemical binding]; other site 225849005215 L25 interface [polypeptide binding]; other site 225849005216 L27 interface [polypeptide binding]; other site 225849005217 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 225849005218 23S rRNA interface [nucleotide binding]; other site 225849005219 putative translocon interaction site; other site 225849005220 signal recognition particle (SRP54) interaction site; other site 225849005221 L23 interface [polypeptide binding]; other site 225849005222 trigger factor interaction site; other site 225849005223 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 225849005224 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 225849005225 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 225849005226 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 225849005227 RNA binding site [nucleotide binding]; other site 225849005228 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 225849005229 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 225849005230 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 225849005231 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 225849005232 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 225849005233 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 225849005234 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 225849005235 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 225849005236 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 225849005237 23S rRNA interface [nucleotide binding]; other site 225849005238 L21e interface [polypeptide binding]; other site 225849005239 5S rRNA interface [nucleotide binding]; other site 225849005240 L27 interface [polypeptide binding]; other site 225849005241 L5 interface [polypeptide binding]; other site 225849005242 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 225849005243 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 225849005244 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 225849005245 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 225849005246 23S rRNA binding site [nucleotide binding]; other site 225849005247 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 225849005248 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 225849005249 SecY translocase; Region: SecY; pfam00344 225849005250 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 225849005251 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 225849005252 30S ribosomal protein S13; Region: bact_S13; TIGR03631 225849005253 30S ribosomal protein S11; Validated; Region: PRK05309 225849005254 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 225849005255 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 225849005256 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 225849005257 RNA binding surface [nucleotide binding]; other site 225849005258 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 225849005259 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 225849005260 alphaNTD homodimer interface [polypeptide binding]; other site 225849005261 alphaNTD - beta interaction site [polypeptide binding]; other site 225849005262 alphaNTD - beta' interaction site [polypeptide binding]; other site 225849005263 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 225849005264 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 225849005265 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 225849005266 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 225849005267 heme exporter protein CcmC; Region: ccmC; TIGR01191 225849005268 CcmB protein; Region: CcmB; pfam03379 225849005269 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 225849005270 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849005271 Walker A/P-loop; other site 225849005272 ATP binding site [chemical binding]; other site 225849005273 Q-loop/lid; other site 225849005274 ABC transporter signature motif; other site 225849005275 Walker B; other site 225849005276 D-loop; other site 225849005277 H-loop/switch region; other site 225849005278 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 225849005279 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 225849005280 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 225849005281 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 225849005282 binding surface 225849005283 TPR motif; other site 225849005284 cytochrome c nitrate reductase biogenesis protein NrfE; Region: cyt_nit_nrfE; TIGR03145 225849005285 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 225849005286 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 225849005287 catalytic residues [active] 225849005288 central insert; other site 225849005289 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 225849005290 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 225849005291 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 225849005292 catalytic residues [active] 225849005293 competence damage-inducible protein A; Provisional; Region: PRK00549 225849005294 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 225849005295 putative MPT binding site; other site 225849005296 Competence-damaged protein; Region: CinA; pfam02464 225849005297 Protein of unknown function (DUF1439); Region: DUF1439; pfam07273 225849005298 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 225849005299 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 225849005300 acetylornithine deacetylase; Provisional; Region: PRK05111 225849005301 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 225849005302 metal binding site [ion binding]; metal-binding site 225849005303 putative dimer interface [polypeptide binding]; other site 225849005304 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 225849005305 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 225849005306 acetylglutamate kinase; Provisional; Region: PRK00942 225849005307 nucleotide binding site [chemical binding]; other site 225849005308 substrate binding site [chemical binding]; other site 225849005309 ornithine carbamoyltransferase; Provisional; Region: PRK14805 225849005310 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 225849005311 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 225849005312 argininosuccinate synthase; Provisional; Region: PRK13820 225849005313 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 225849005314 ANP binding site [chemical binding]; other site 225849005315 Substrate Binding Site II [chemical binding]; other site 225849005316 Substrate Binding Site I [chemical binding]; other site 225849005317 argininosuccinate lyase; Provisional; Region: PRK04833 225849005318 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 225849005319 active sites [active] 225849005320 tetramer interface [polypeptide binding]; other site 225849005321 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 225849005322 Transglycosylase; Region: Transgly; pfam00912 225849005323 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 225849005324 Cell division protein FtsA; Region: FtsA; cl17206 225849005325 Competence protein A; Region: Competence_A; pfam11104 225849005326 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 225849005327 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 225849005328 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 225849005329 Pilus assembly protein, PilO; Region: PilO; pfam04350 225849005330 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 225849005331 Pilus assembly protein, PilP; Region: PilP; pfam04351 225849005332 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 225849005333 Secretin and TonB N terminus short domain; Region: STN; smart00965 225849005334 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 225849005335 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 225849005336 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 225849005337 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 225849005338 ADP binding site [chemical binding]; other site 225849005339 magnesium binding site [ion binding]; other site 225849005340 putative shikimate binding site; other site 225849005341 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 225849005342 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 225849005343 active site 225849005344 dimer interface [polypeptide binding]; other site 225849005345 metal binding site [ion binding]; metal-binding site 225849005346 AAA domain; Region: AAA_22; pfam13401 225849005347 Sporulation related domain; Region: SPOR; cl10051 225849005348 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 225849005349 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 225849005350 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 225849005351 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 225849005352 substrate binding site [chemical binding]; other site 225849005353 hexamer interface [polypeptide binding]; other site 225849005354 metal binding site [ion binding]; metal-binding site 225849005355 phosphoglycolate phosphatase; Provisional; Region: PRK13222 225849005356 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 225849005357 motif II; other site 225849005358 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 225849005359 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 225849005360 active site 225849005361 HIGH motif; other site 225849005362 dimer interface [polypeptide binding]; other site 225849005363 KMSKS motif; other site 225849005364 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 225849005365 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849005366 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 225849005367 dimerization interface [polypeptide binding]; other site 225849005368 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 225849005369 EamA-like transporter family; Region: EamA; pfam00892 225849005370 BON domain; Region: BON; cl02771 225849005371 BON domain; Region: BON; pfam04972 225849005372 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 225849005373 dimer interface [polypeptide binding]; other site 225849005374 active site 225849005375 hypothetical protein; Reviewed; Region: PRK12497 225849005376 LppC putative lipoprotein; Region: LppC; pfam04348 225849005377 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 225849005378 putative ligand binding site [chemical binding]; other site 225849005379 SAM-dependent 16S ribosomal RNA C1402 ribose 2'-O-methyltransferase; Provisional; Region: PRK14994 225849005380 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 225849005381 putative SAM binding site [chemical binding]; other site 225849005382 putative homodimer interface [polypeptide binding]; other site 225849005383 Dystroglycan-type cadherin-like domains; Region: CADG; smart00736 225849005384 Cadherin repeat-like domain; Region: CA_like; cl15786 225849005385 Ca2+ binding site [ion binding]; other site 225849005386 Regulator of G protein signaling (RGS) domain superfamily; Region: RGS; cl02565 225849005387 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 225849005388 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 225849005389 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 225849005390 hypothetical protein; Provisional; Region: PRK10279 225849005391 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 225849005392 nucleophile elbow; other site 225849005393 Surface antigen; Region: Bac_surface_Ag; pfam01103 225849005394 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849005395 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849005396 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like_1; cd08470 225849005397 putative effector binding pocket; other site 225849005398 putative dimerization interface [polypeptide binding]; other site 225849005399 hypothetical protein; Provisional; Region: PRK11019 225849005400 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 225849005401 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 225849005402 substrate binding site [chemical binding]; other site 225849005403 catalytic Zn binding site [ion binding]; other site 225849005404 NAD binding site [chemical binding]; other site 225849005405 structural Zn binding site [ion binding]; other site 225849005406 dimer interface [polypeptide binding]; other site 225849005407 S-formylglutathione hydrolase; Region: PLN02442 225849005408 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 225849005409 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225849005410 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225849005411 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225849005412 GyrI-like small molecule binding domain; Region: GyrI-like; pfam06445 225849005413 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 225849005414 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 225849005415 N-terminal plug; other site 225849005416 ligand-binding site [chemical binding]; other site 225849005417 siderophore ferric iron reductase, AHA_1954 family; Region: sidero_Fe_reduc; TIGR03950 225849005418 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 225849005419 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 225849005420 Walker A/P-loop; other site 225849005421 ATP binding site [chemical binding]; other site 225849005422 Q-loop/lid; other site 225849005423 ABC transporter signature motif; other site 225849005424 Walker B; other site 225849005425 D-loop; other site 225849005426 H-loop/switch region; other site 225849005427 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 225849005428 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 225849005429 siderophore binding site; other site 225849005430 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 225849005431 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 225849005432 ABC-ATPase subunit interface; other site 225849005433 dimer interface [polypeptide binding]; other site 225849005434 putative PBP binding regions; other site 225849005435 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 225849005436 ABC-ATPase subunit interface; other site 225849005437 dimer interface [polypeptide binding]; other site 225849005438 putative PBP binding regions; other site 225849005439 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 225849005440 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 225849005441 L-Ala-D/L-Glu epimerase; Provisional; Region: PRK15129 225849005442 L-Ala-D/L-Glu epimerase catalyzes the epimerization of L-Ala-D/L-Glu and other dipeptides. The genomic context and the substrate specificity of characterized members of this family from E.coli and B.subtilis indicates a possible role in the metabolism of...; Region: L-Ala-DL-Glu_epimerase; cd03319 225849005443 active site 225849005444 Protein of unknown function (DUF1611); Region: DUF1611; pfam07755 225849005445 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849005446 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849005447 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 225849005448 dimerization interface [polypeptide binding]; other site 225849005449 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 225849005450 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 225849005451 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 225849005452 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 225849005453 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 225849005454 active site 225849005455 Zn binding site [ion binding]; other site 225849005456 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 225849005457 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 225849005458 active site 225849005459 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 225849005460 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 225849005461 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 225849005462 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 225849005463 putative active site [active] 225849005464 putative metal binding site [ion binding]; other site 225849005465 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 225849005466 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225849005467 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 225849005468 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 225849005469 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 225849005470 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 225849005471 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 225849005472 active site 225849005473 catalytic triad [active] 225849005474 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 225849005475 PA/protease or protease-like domain interface [polypeptide binding]; other site 225849005476 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 225849005477 catalytic residues [active] 225849005478 Peptidase S8 family domain in Vpr-like proteins; Region: Peptidases_S8_subtilisin_Vpr-like; cd07474 225849005479 catalytic triad [active] 225849005480 putative active site [active] 225849005481 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 225849005482 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225849005483 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 225849005484 DNA binding site [nucleotide binding] 225849005485 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 225849005486 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 225849005487 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 225849005488 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 225849005489 Uncharacterized conserved protein [Function unknown]; Region: COG3610 225849005490 MAPEG family; Region: MAPEG; cl09190 225849005491 hypothetical protein; Provisional; Region: PRK01254 225849005492 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 225849005493 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 225849005494 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 225849005495 Uncharacterized conserved protein [Function unknown]; Region: COG3339 225849005496 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 225849005497 Peptidase family M23; Region: Peptidase_M23; pfam01551 225849005498 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 225849005499 Peptidase family M23; Region: Peptidase_M23; pfam01551 225849005500 dimerization interface [polypeptide binding]; other site 225849005501 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 225849005502 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225849005503 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849005504 dimer interface [polypeptide binding]; other site 225849005505 putative CheW interface [polypeptide binding]; other site 225849005506 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 225849005507 trimer interface [polypeptide binding]; other site 225849005508 eyelet of channel; other site 225849005509 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 225849005510 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 225849005511 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 225849005512 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 225849005513 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 225849005514 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 225849005515 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 225849005516 putative [4Fe-4S] binding site [ion binding]; other site 225849005517 putative molybdopterin cofactor binding site [chemical binding]; other site 225849005518 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 225849005519 molybdopterin cofactor binding site; other site 225849005520 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849005521 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 225849005522 dimerization interface [polypeptide binding]; other site 225849005523 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 225849005524 4Fe-4S binding domain; Region: Fer4; pfam00037 225849005525 tetrathionate reductase subunit A; Provisional; Region: PRK14991 225849005526 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 225849005527 molybdopterin cofactor binding site; other site 225849005528 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 225849005529 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 225849005530 molybdopterin cofactor binding site; other site 225849005531 The SYLF domain (also called DUF500), a novel lipid-binding module; Region: SYLF; cd11524 225849005532 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 225849005533 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225849005534 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225849005535 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 225849005536 dimer interface [polypeptide binding]; other site 225849005537 phosphorylation site [posttranslational modification] 225849005538 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 225849005539 ATP binding site [chemical binding]; other site 225849005540 Mg2+ binding site [ion binding]; other site 225849005541 G-X-G motif; other site 225849005542 Response regulator receiver domain; Region: Response_reg; pfam00072 225849005543 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849005544 active site 225849005545 phosphorylation site [posttranslational modification] 225849005546 intermolecular recognition site; other site 225849005547 dimerization interface [polypeptide binding]; other site 225849005548 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 225849005549 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 225849005550 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 225849005551 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 225849005552 active site 225849005553 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 225849005554 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 225849005555 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 225849005556 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 225849005557 CESA_CelA_like are involved in the elongation of the glucan chain of cellulose; Region: CESA_CelA_like; cd06421 225849005558 DXD motif; other site 225849005559 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 225849005560 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 225849005561 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 225849005562 active site 225849005563 Substrate binding site; other site 225849005564 Mg++ binding site; other site 225849005565 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 225849005566 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 225849005567 anti sigma factor interaction site; other site 225849005568 regulatory phosphorylation site [posttranslational modification]; other site 225849005569 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225849005570 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849005571 active site 225849005572 phosphorylation site [posttranslational modification] 225849005573 intermolecular recognition site; other site 225849005574 dimerization interface [polypeptide binding]; other site 225849005575 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 225849005576 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 225849005577 Nitrous oxide-stimulated promoter; Region: YgbA_NO; pfam11756 225849005578 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 225849005579 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 225849005580 serine/threonine protein kinase; Provisional; Region: PRK11768 225849005581 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 225849005582 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 225849005583 catalytic residues [active] 225849005584 hinge region; other site 225849005585 alpha helical domain; other site 225849005586 Protein of unknown function (DUF1107); Region: DUF1107; pfam06526 225849005587 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 225849005588 Modulator of Rho-dependent transcription termination (ROF); Region: ROF; pfam07073 225849005589 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 225849005590 thiosulfate reductase PhsA; Provisional; Region: PRK15488 225849005591 This CD includes the respiratory arsenate reductase, As(V), catalytic subunit (ArrA) and other related proteins. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_Arsenate-R; cd02757 225849005592 putative [Fe4-S4] binding site [ion binding]; other site 225849005593 putative molybdopterin cofactor binding site [chemical binding]; other site 225849005594 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 225849005595 putative molybdopterin cofactor binding site; other site 225849005596 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 225849005597 4Fe-4S binding domain; Region: Fer4_6; pfam12837 225849005598 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 225849005599 dimerization interface [polypeptide binding]; other site 225849005600 putative DNA binding site [nucleotide binding]; other site 225849005601 putative Zn2+ binding site [ion binding]; other site 225849005602 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 225849005603 non-specific DNA binding site [nucleotide binding]; other site 225849005604 salt bridge; other site 225849005605 sequence-specific DNA binding site [nucleotide binding]; other site 225849005606 HipA N-terminal domain; Region: Couple_hipA; pfam13657 225849005607 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 225849005608 HipA-like N-terminal domain; Region: HipA_N; pfam07805 225849005609 HipA-like C-terminal domain; Region: HipA_C; pfam07804 225849005610 Integrase core domain; Region: rve; pfam00665 225849005611 Integrase core domain; Region: rve_3; pfam13683 225849005612 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 225849005613 Transposase; Region: HTH_Tnp_1; pfam01527 225849005614 Predicted restriction endonuclease [Defense mechanisms]; Region: COG3440 225849005615 HNH endonuclease; Region: HNH_2; pfam13391 225849005616 Competence protein CoiA-like family; Region: CoiA; cl11541 225849005617 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 225849005618 Transposase; Region: DEDD_Tnp_IS110; pfam01548 225849005619 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 225849005620 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 225849005621 non-specific DNA binding site [nucleotide binding]; other site 225849005622 sequence-specific DNA binding site [nucleotide binding]; other site 225849005623 salt bridge; other site 225849005624 integrase; Provisional; Region: PRK09692 225849005625 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 225849005626 active site 225849005627 Int/Topo IB signature motif; other site 225849005628 hypothetical protein; Provisional; Region: PRK11820 225849005629 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 225849005630 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 225849005631 ribonuclease PH; Reviewed; Region: rph; PRK00173 225849005632 Ribonuclease PH; Region: RNase_PH_bact; cd11362 225849005633 hexamer interface [polypeptide binding]; other site 225849005634 active site 225849005635 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 225849005636 active site 225849005637 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 225849005638 GTP cyclohydrolase I; Provisional; Region: PLN03044 225849005639 active site 225849005640 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 225849005641 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225849005642 division inhibitor protein; Provisional; Region: slmA; PRK09480 225849005643 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225849005644 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 225849005645 trimer interface [polypeptide binding]; other site 225849005646 active site 225849005647 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 225849005648 Flavoprotein; Region: Flavoprotein; pfam02441 225849005649 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 225849005650 hypothetical protein; Reviewed; Region: PRK00024 225849005651 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 225849005652 MPN+ (JAMM) motif; other site 225849005653 Zinc-binding site [ion binding]; other site 225849005654 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 225849005655 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 225849005656 N-acetylglutamate synthase; Validated; Region: PRK05279 225849005657 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 225849005658 putative feedback inhibition sensing region; other site 225849005659 putative nucleotide binding site [chemical binding]; other site 225849005660 putative substrate binding site [chemical binding]; other site 225849005661 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849005662 Coenzyme A binding pocket [chemical binding]; other site 225849005663 Predicted permeases [General function prediction only]; Region: RarD; COG2962 225849005664 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 225849005665 CoenzymeA binding site [chemical binding]; other site 225849005666 subunit interaction site [polypeptide binding]; other site 225849005667 PHB binding site; other site 225849005668 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 225849005669 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 225849005670 ATP binding site [chemical binding]; other site 225849005671 putative Mg++ binding site [ion binding]; other site 225849005672 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 225849005673 nucleotide binding region [chemical binding]; other site 225849005674 ATP-binding site [chemical binding]; other site 225849005675 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 225849005676 HRDC domain; Region: HRDC; pfam00570 225849005677 Tetratricopeptide repeat; Region: TPR_12; pfam13424 225849005678 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849005679 metal binding site [ion binding]; metal-binding site 225849005680 active site 225849005681 I-site; other site 225849005682 2-isopropylmalate synthase; Validated; Region: PRK00915 225849005683 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 225849005684 active site 225849005685 catalytic residues [active] 225849005686 metal binding site [ion binding]; metal-binding site 225849005687 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; pfam08502 225849005688 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 225849005689 tartrate dehydrogenase; Region: TTC; TIGR02089 225849005690 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 225849005691 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 225849005692 substrate binding site [chemical binding]; other site 225849005693 ligand binding site [chemical binding]; other site 225849005694 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 225849005695 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 225849005696 substrate binding site [chemical binding]; other site 225849005697 Long-chain fatty acid transport protein [Lipid metabolism]; Region: FadL; COG2067 225849005698 SnoaL-like domain; Region: SnoaL_2; pfam12680 225849005699 glycerol kinase; Provisional; Region: glpK; PRK00047 225849005700 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 225849005701 N- and C-terminal domain interface [polypeptide binding]; other site 225849005702 active site 225849005703 MgATP binding site [chemical binding]; other site 225849005704 catalytic site [active] 225849005705 metal binding site [ion binding]; metal-binding site 225849005706 glycerol binding site [chemical binding]; other site 225849005707 homotetramer interface [polypeptide binding]; other site 225849005708 homodimer interface [polypeptide binding]; other site 225849005709 FBP binding site [chemical binding]; other site 225849005710 protein IIAGlc interface [polypeptide binding]; other site 225849005711 cell division protein MraZ; Reviewed; Region: PRK00326 225849005712 MraZ protein; Region: MraZ; pfam02381 225849005713 MraZ protein; Region: MraZ; pfam02381 225849005714 MraW methylase family; Region: Methyltransf_5; pfam01795 225849005715 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 225849005716 Cell division protein FtsL; Region: FtsL; pfam04999 225849005717 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 225849005718 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 225849005719 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 225849005720 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 225849005721 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 225849005722 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 225849005723 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 225849005724 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 225849005725 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 225849005726 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 225849005727 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 225849005728 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 225849005729 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 225849005730 Mg++ binding site [ion binding]; other site 225849005731 putative catalytic motif [active] 225849005732 putative substrate binding site [chemical binding]; other site 225849005733 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 225849005734 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 225849005735 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 225849005736 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 225849005737 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 225849005738 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 225849005739 active site 225849005740 homodimer interface [polypeptide binding]; other site 225849005741 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 225849005742 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 225849005743 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 225849005744 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 225849005745 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 225849005746 Cell division protein FtsQ; Region: FtsQ; pfam03799 225849005747 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 225849005748 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 225849005749 nucleotide binding site [chemical binding]; other site 225849005750 Cell division protein FtsA; Region: FtsA; pfam14450 225849005751 cell division protein FtsZ; Validated; Region: PRK09330 225849005752 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 225849005753 nucleotide binding site [chemical binding]; other site 225849005754 SulA interaction site; other site 225849005755 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 225849005756 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 225849005757 Protein of unknown function (DUF721); Region: DUF721; cl02324 225849005758 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 225849005759 Peptidase family M23; Region: Peptidase_M23; pfam01551 225849005760 preprotein translocase subunit SecA; Reviewed; Region: PRK13107 225849005761 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 225849005762 SEC-C motif; Region: SEC-C; pfam02810 225849005763 hypothetical protein; Provisional; Region: PRK03641 225849005764 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 225849005765 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 225849005766 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 225849005767 Cl binding site [ion binding]; other site 225849005768 oligomer interface [polypeptide binding]; other site 225849005769 Protein of unknown function (DUF3135); Region: DUF3135; pfam11333 225849005770 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 225849005771 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 225849005772 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225849005773 Zn2+ binding site [ion binding]; other site 225849005774 Mg2+ binding site [ion binding]; other site 225849005775 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 225849005776 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225849005777 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 225849005778 ATP binding site [chemical binding]; other site 225849005779 Mg2+ binding site [ion binding]; other site 225849005780 G-X-G motif; other site 225849005781 DNA-binding transcriptional regulator PhoP; Provisional; Region: PRK10816 225849005782 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849005783 active site 225849005784 phosphorylation site [posttranslational modification] 225849005785 intermolecular recognition site; other site 225849005786 dimerization interface [polypeptide binding]; other site 225849005787 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 225849005788 DNA binding site [nucleotide binding] 225849005789 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 225849005790 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 225849005791 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849005792 Walker A/P-loop; other site 225849005793 ATP binding site [chemical binding]; other site 225849005794 Q-loop/lid; other site 225849005795 ABC transporter signature motif; other site 225849005796 Walker B; other site 225849005797 D-loop; other site 225849005798 H-loop/switch region; other site 225849005799 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 225849005800 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 225849005801 Pyruvate carboxylase [Energy production and conversion]; Region: PycA; COG1038 225849005802 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225849005803 HAMP domain; Region: HAMP; pfam00672 225849005804 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 225849005805 ATP binding site [chemical binding]; other site 225849005806 Mg2+ binding site [ion binding]; other site 225849005807 G-X-G motif; other site 225849005808 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 225849005809 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849005810 active site 225849005811 phosphorylation site [posttranslational modification] 225849005812 intermolecular recognition site; other site 225849005813 dimerization interface [polypeptide binding]; other site 225849005814 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 225849005815 Walker A motif; other site 225849005816 ATP binding site [chemical binding]; other site 225849005817 Walker B motif; other site 225849005818 arginine finger; other site 225849005819 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225849005820 LysE type translocator; Region: LysE; cl00565 225849005821 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 225849005822 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 225849005823 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225849005824 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 225849005825 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 225849005826 homodimer interface [polypeptide binding]; other site 225849005827 NAD binding pocket [chemical binding]; other site 225849005828 ATP binding pocket [chemical binding]; other site 225849005829 Mg binding site [ion binding]; other site 225849005830 active-site loop [active] 225849005831 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 225849005832 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl17272 225849005833 HAMP domain; Region: HAMP; pfam00672 225849005834 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849005835 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849005836 metal binding site [ion binding]; metal-binding site 225849005837 active site 225849005838 I-site; other site 225849005839 Predicted hydrolase of alkaline phosphatase superfamily [General function prediction only]; Region: COG3083 225849005840 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 225849005841 Sulfatase; Region: Sulfatase; cl17466 225849005842 hypothetical protein; Provisional; Region: PRK13689 225849005843 Nucleoid-associated protein [General function prediction only]; Region: COG3081 225849005844 nucleoid-associated protein NdpA; Validated; Region: PRK00378 225849005845 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 225849005846 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 225849005847 Peptidase family M23; Region: Peptidase_M23; pfam01551 225849005848 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 225849005849 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 225849005850 ComEC family competence protein; Provisional; Region: PRK11539 225849005851 Competence protein; Region: Competence; pfam03772 225849005852 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 225849005853 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 225849005854 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 225849005855 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 225849005856 Walker A/P-loop; other site 225849005857 ATP binding site [chemical binding]; other site 225849005858 Q-loop/lid; other site 225849005859 ABC transporter signature motif; other site 225849005860 Walker B; other site 225849005861 D-loop; other site 225849005862 H-loop/switch region; other site 225849005863 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 225849005864 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 225849005865 Uncharacterized conserved protein [Function unknown]; Region: COG2835 225849005866 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 225849005867 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 225849005868 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 225849005869 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 225849005870 active site 225849005871 Zn binding site [ion binding]; other site 225849005872 hypothetical protein; Provisional; Region: PRK06156 225849005873 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 225849005874 active site 225849005875 metal binding site [ion binding]; metal-binding site 225849005876 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 225849005877 Glycoprotease family; Region: Peptidase_M22; pfam00814 225849005878 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 225849005879 Predicted methyltransferase [General function prediction only]; Region: COG4798 225849005880 Methyltransferase domain; Region: Methyltransf_23; pfam13489 225849005881 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 225849005882 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 225849005883 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 225849005884 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 225849005885 acyl-activating enzyme (AAE) consensus motif; other site 225849005886 putative AMP binding site [chemical binding]; other site 225849005887 putative active site [active] 225849005888 putative CoA binding site [chemical binding]; other site 225849005889 ribonuclease D; Provisional; Region: PRK10829 225849005890 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 225849005891 catalytic site [active] 225849005892 putative active site [active] 225849005893 putative substrate binding site [chemical binding]; other site 225849005894 HRDC domain; Region: HRDC; pfam00570 225849005895 cell division topological specificity factor MinE; Reviewed; Region: minE; PRK00296 225849005896 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 225849005897 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 225849005898 Switch I; other site 225849005899 Switch II; other site 225849005900 septum formation inhibitor; Reviewed; Region: minC; PRK04804 225849005901 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 225849005902 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 225849005903 YcgL domain; Region: YcgL; pfam05166 225849005904 Transglycosylase SLT domain; Region: SLT_2; pfam13406 225849005905 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 225849005906 N-acetyl-D-glucosamine binding site [chemical binding]; other site 225849005907 hypothetical protein; Provisional; Region: PRK05170 225849005908 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 225849005909 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 225849005910 N-acetyl-D-glucosamine binding site [chemical binding]; other site 225849005911 catalytic residue [active] 225849005912 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 225849005913 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 225849005914 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 225849005915 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 225849005916 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 225849005917 Methyltransferase domain; Region: Methyltransf_11; pfam08241 225849005918 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 225849005919 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849005920 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 225849005921 putative dimerization interface [polypeptide binding]; other site 225849005922 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 225849005923 active site 225849005924 RNA/DNA hybrid binding site [nucleotide binding]; other site 225849005925 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 225849005926 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 225849005927 active site 225849005928 catalytic site [active] 225849005929 substrate binding site [chemical binding]; other site 225849005930 TIGR03503 family protein; Region: TIGR03503 225849005931 DHH family; Region: DHH; pfam01368 225849005932 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 225849005933 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 225849005934 DNA binding residues [nucleotide binding] 225849005935 dimer interface [polypeptide binding]; other site 225849005936 [2Fe-2S] cluster binding site [ion binding]; other site 225849005937 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849005938 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849005939 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849005940 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225849005941 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 225849005942 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 225849005943 TrkA-N domain; Region: TrkA_N; pfam02254 225849005944 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 225849005945 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 225849005946 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 225849005947 active site 225849005948 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 225849005949 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 225849005950 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 225849005951 putative active site [active] 225849005952 putative dimer interface [polypeptide binding]; other site 225849005953 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 225849005954 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849005955 active site 225849005956 phosphorylation site [posttranslational modification] 225849005957 intermolecular recognition site; other site 225849005958 dimerization interface [polypeptide binding]; other site 225849005959 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225849005960 Zn2+ binding site [ion binding]; other site 225849005961 Mg2+ binding site [ion binding]; other site 225849005962 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225849005963 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 225849005964 substrate binding pocket [chemical binding]; other site 225849005965 membrane-bound complex binding site; other site 225849005966 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 225849005967 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 225849005968 putative active site [active] 225849005969 heme pocket [chemical binding]; other site 225849005970 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 225849005971 dimer interface [polypeptide binding]; other site 225849005972 phosphorylation site [posttranslational modification] 225849005973 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 225849005974 ATP binding site [chemical binding]; other site 225849005975 Mg2+ binding site [ion binding]; other site 225849005976 G-X-G motif; other site 225849005977 Response regulator receiver domain; Region: Response_reg; pfam00072 225849005978 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849005979 active site 225849005980 phosphorylation site [posttranslational modification] 225849005981 intermolecular recognition site; other site 225849005982 dimerization interface [polypeptide binding]; other site 225849005983 Response regulator receiver domain; Region: Response_reg; pfam00072 225849005984 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849005985 active site 225849005986 phosphorylation site [posttranslational modification] 225849005987 intermolecular recognition site; other site 225849005988 dimerization interface [polypeptide binding]; other site 225849005989 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 225849005990 putative binding surface; other site 225849005991 active site 225849005992 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 225849005993 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 225849005994 active site 225849005995 DNA binding site [nucleotide binding] 225849005996 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 225849005997 putative substrate translocation pore; other site 225849005998 Major Facilitator Superfamily; Region: MFS_1; pfam07690 225849005999 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 225849006000 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 225849006001 active site 225849006002 catalytic residues [active] 225849006003 metal binding site [ion binding]; metal-binding site 225849006004 Uncharacterized conserved protein [Function unknown]; Region: COG4544 225849006005 DNA Polymerase Y-family; Region: PolY_like; cd03468 225849006006 active site 225849006007 DNA binding site [nucleotide binding] 225849006008 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 225849006009 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 225849006010 putative active site [active] 225849006011 putative PHP Thumb interface [polypeptide binding]; other site 225849006012 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 225849006013 generic binding surface II; other site 225849006014 generic binding surface I; other site 225849006015 DTW domain; Region: DTW; cl01221 225849006016 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; cl01243 225849006017 Haemolysin-III related; Region: HlyIII; cl03831 225849006018 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 225849006019 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 225849006020 ThiC-associated domain; Region: ThiC-associated; pfam13667 225849006021 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 225849006022 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 225849006023 dimer interface [polypeptide binding]; other site 225849006024 substrate binding site [chemical binding]; other site 225849006025 ATP binding site [chemical binding]; other site 225849006026 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 225849006027 active site 225849006028 thiamine phosphate binding site [chemical binding]; other site 225849006029 pyrophosphate binding site [ion binding]; other site 225849006030 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 225849006031 thiazole biosynthesis adenylyltransferase ThiF, E. coli subfamily; Region: adenyl_thiF; TIGR02356 225849006032 ATP binding site [chemical binding]; other site 225849006033 substrate interface [chemical binding]; other site 225849006034 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 225849006035 thiS-thiF/thiG interaction site; other site 225849006036 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 225849006037 ThiS interaction site; other site 225849006038 putative active site [active] 225849006039 tetramer interface [polypeptide binding]; other site 225849006040 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 225849006041 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 225849006042 FeS/SAM binding site; other site 225849006043 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 225849006044 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 225849006045 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849006046 Coenzyme A binding pocket [chemical binding]; other site 225849006047 Response regulator receiver domain; Region: Response_reg; pfam00072 225849006048 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849006049 active site 225849006050 phosphorylation site [posttranslational modification] 225849006051 intermolecular recognition site; other site 225849006052 dimerization interface [polypeptide binding]; other site 225849006053 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849006054 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849006055 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 225849006056 dimerization interface [polypeptide binding]; other site 225849006057 Domain of unknown function (DUF3541); Region: DUF3541; pfam12060 225849006058 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 225849006059 alpha-L-glutamate ligase-related protein; Region: rimK_rel_E_lig; TIGR02291 225849006060 Inactive transglutaminase fused to 7 transmembrane helices; Region: Transglut_i_TM; pfam14400 225849006061 7 transmembrane helices usually fused to an inactive transglutaminase; Region: 7TM_transglut; pfam14402 225849006062 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 225849006063 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 225849006064 Methyltransferase domain; Region: Methyltransf_31; pfam13847 225849006065 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 225849006066 S-adenosylmethionine binding site [chemical binding]; other site 225849006067 Methyltransferase domain; Region: Methyltransf_31; pfam13847 225849006068 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 225849006069 S-adenosylmethionine binding site [chemical binding]; other site 225849006070 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225849006071 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 225849006072 substrate binding pocket [chemical binding]; other site 225849006073 membrane-bound complex binding site; other site 225849006074 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225849006075 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 225849006076 substrate binding pocket [chemical binding]; other site 225849006077 membrane-bound complex binding site; other site 225849006078 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 225849006079 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225849006080 substrate binding pocket [chemical binding]; other site 225849006081 membrane-bound complex binding site; other site 225849006082 hinge residues; other site 225849006083 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849006084 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849006085 metal binding site [ion binding]; metal-binding site 225849006086 active site 225849006087 I-site; other site 225849006088 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 225849006089 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 225849006090 dimer interface [polypeptide binding]; other site 225849006091 anticodon binding site; other site 225849006092 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 225849006093 homodimer interface [polypeptide binding]; other site 225849006094 motif 1; other site 225849006095 active site 225849006096 motif 2; other site 225849006097 GAD domain; Region: GAD; pfam02938 225849006098 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 225849006099 active site 225849006100 motif 3; other site 225849006101 hypothetical protein; Validated; Region: PRK00110 225849006102 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 225849006103 active site 225849006104 putative DNA-binding cleft [nucleotide binding]; other site 225849006105 dimer interface [polypeptide binding]; other site 225849006106 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 225849006107 RuvA N terminal domain; Region: RuvA_N; pfam01330 225849006108 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 225849006109 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 225849006110 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 225849006111 Walker A motif; other site 225849006112 ATP binding site [chemical binding]; other site 225849006113 Walker B motif; other site 225849006114 arginine finger; other site 225849006115 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 225849006116 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 225849006117 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 225849006118 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 225849006119 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 225849006120 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 225849006121 N-terminal plug; other site 225849006122 ligand-binding site [chemical binding]; other site 225849006123 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 225849006124 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 225849006125 dimer interface [polypeptide binding]; other site 225849006126 active site 225849006127 metal binding site [ion binding]; metal-binding site 225849006128 glutathione binding site [chemical binding]; other site 225849006129 endonuclease III; Provisional; Region: PRK10702 225849006130 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 225849006131 minor groove reading motif; other site 225849006132 helix-hairpin-helix signature motif; other site 225849006133 substrate binding pocket [chemical binding]; other site 225849006134 active site 225849006135 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 225849006136 electron transport complex RsxE subunit; Provisional; Region: PRK12405 225849006137 electron transport complex protein RnfG; Validated; Region: PRK01908 225849006138 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 225849006139 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 225849006140 SLBB domain; Region: SLBB; pfam10531 225849006141 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 225849006142 electron transport complex protein RnfB; Provisional; Region: PRK05113 225849006143 Putative Fe-S cluster; Region: FeS; pfam04060 225849006144 4Fe-4S binding domain; Region: Fer4; cl02805 225849006145 electron transport complex protein RsxA; Provisional; Region: PRK05151 225849006146 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849006147 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849006148 active site 225849006149 I-site; other site 225849006150 metal binding site [ion binding]; metal-binding site 225849006151 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 225849006152 excinuclease ABC subunit B; Provisional; Region: PRK05298 225849006153 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 225849006154 ATP binding site [chemical binding]; other site 225849006155 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 225849006156 nucleotide binding region [chemical binding]; other site 225849006157 ATP-binding site [chemical binding]; other site 225849006158 Ultra-violet resistance protein B; Region: UvrB; pfam12344 225849006159 UvrB/uvrC motif; Region: UVR; pfam02151 225849006160 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 225849006161 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 225849006162 Ligand Binding Site [chemical binding]; other site 225849006163 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 225849006164 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 225849006165 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 225849006166 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 225849006167 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 225849006168 catalytic residue [active] 225849006169 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 225849006170 Protein of unknown function (DUF406); Region: DUF406; pfam04175 225849006171 GAF domain; Region: GAF; pfam01590 225849006172 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 225849006173 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 225849006174 PAS domain; Region: PAS_9; pfam13426 225849006175 putative active site [active] 225849006176 heme pocket [chemical binding]; other site 225849006177 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849006178 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849006179 metal binding site [ion binding]; metal-binding site 225849006180 active site 225849006181 I-site; other site 225849006182 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 225849006183 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 225849006184 SnoaL-like domain; Region: SnoaL_3; pfam13474 225849006185 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 225849006186 Smr domain; Region: Smr; pfam01713 225849006187 Peptidase family M2 Angiotensin converting enzyme (ACE); Region: M2_ACE; cd06461 225849006188 active site 225849006189 Zn binding site [ion binding]; other site 225849006190 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225849006191 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225849006192 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 225849006193 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225849006194 active site 225849006195 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 225849006196 pyruvate kinase; Provisional; Region: PRK05826 225849006197 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 225849006198 domain interfaces; other site 225849006199 active site 225849006200 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 225849006201 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 225849006202 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 225849006203 putative active site [active] 225849006204 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 225849006205 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 225849006206 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 225849006207 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 225849006208 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 225849006209 putative active site [active] 225849006210 phosphogluconate dehydratase; Validated; Region: PRK09054 225849006211 6-phosphogluconate dehydratase; Region: edd; TIGR01196 225849006212 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 225849006213 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 225849006214 active site 225849006215 intersubunit interface [polypeptide binding]; other site 225849006216 catalytic residue [active] 225849006217 ecotin; Provisional; Region: PRK03719 225849006218 secondary substrate binding site; other site 225849006219 primary substrate binding site; other site 225849006220 inhibition loop; other site 225849006221 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 225849006222 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 225849006223 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 225849006224 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 225849006225 putative Zn2+ binding site [ion binding]; other site 225849006226 putative DNA binding site [nucleotide binding]; other site 225849006227 putative metal dependent hydrolase; Provisional; Region: PRK11598 225849006228 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 225849006229 Sulfatase; Region: Sulfatase; pfam00884 225849006230 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849006231 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849006232 metal binding site [ion binding]; metal-binding site 225849006233 active site 225849006234 I-site; other site 225849006235 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 225849006236 CoA binding domain; Region: CoA_binding_2; pfam13380 225849006237 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 225849006238 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 225849006239 MoxR-like ATPases [General function prediction only]; Region: COG0714 225849006240 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 225849006241 Walker A motif; other site 225849006242 ATP binding site [chemical binding]; other site 225849006243 Walker B motif; other site 225849006244 arginine finger; other site 225849006245 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 225849006246 Protein of unknown function DUF58; Region: DUF58; pfam01882 225849006247 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 225849006248 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 225849006249 metal ion-dependent adhesion site (MIDAS); other site 225849006250 von Willebrand factor type A domain; Region: VWA_2; pfam13519 225849006251 metal ion-dependent adhesion site (MIDAS); other site 225849006252 Oxygen tolerance; Region: BatD; pfam13584 225849006253 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 225849006254 RibD C-terminal domain; Region: RibD_C; cl17279 225849006255 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225849006256 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225849006257 RecX family; Region: RecX; pfam02631 225849006258 RecX family; Region: RecX; pfam02631 225849006259 anaerobic sulfatase-maturating enzyme; Region: sulfatase_rSAM; TIGR03942 225849006260 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 225849006261 FeS/SAM binding site; other site 225849006262 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 225849006263 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 225849006264 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 225849006265 HEAT repeats; Region: HEAT_2; pfam13646 225849006266 TPR repeat; Region: TPR_11; pfam13414 225849006267 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 225849006268 binding surface 225849006269 TPR motif; other site 225849006270 TPR repeat; Region: TPR_11; pfam13414 225849006271 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 225849006272 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849006273 active site 225849006274 phosphorylation site [posttranslational modification] 225849006275 intermolecular recognition site; other site 225849006276 dimerization interface [polypeptide binding]; other site 225849006277 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 225849006278 DNA binding residues [nucleotide binding] 225849006279 dimerization interface [polypeptide binding]; other site 225849006280 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 225849006281 Histidine kinase; Region: HisKA_3; pfam07730 225849006282 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 225849006283 ATP binding site [chemical binding]; other site 225849006284 Mg2+ binding site [ion binding]; other site 225849006285 G-X-G motif; other site 225849006286 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 225849006287 Sulfatase; Region: Sulfatase; pfam00884 225849006288 Uncharacterized conserved protein [Function unknown]; Region: COG1262 225849006289 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 225849006290 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 225849006291 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849006292 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849006293 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 225849006294 dimerization interface [polypeptide binding]; other site 225849006295 putative effector binding pocket; other site 225849006296 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849006297 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849006298 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849006299 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225849006300 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 225849006301 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849006302 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849006303 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849006304 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225849006305 Transcriptional regulators [Transcription]; Region: GntR; COG1802 225849006306 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225849006307 DNA-binding site [nucleotide binding]; DNA binding site 225849006308 FCD domain; Region: FCD; pfam07729 225849006309 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 225849006310 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 225849006311 tetramer interface [polypeptide binding]; other site 225849006312 active site 225849006313 Mg2+/Mn2+ binding site [ion binding]; other site 225849006314 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 225849006315 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 225849006316 dimer interface [polypeptide binding]; other site 225849006317 active site 225849006318 citrylCoA binding site [chemical binding]; other site 225849006319 oxalacetate/citrate binding site [chemical binding]; other site 225849006320 coenzyme A binding site [chemical binding]; other site 225849006321 catalytic triad [active] 225849006322 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 225849006323 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 225849006324 substrate binding site [chemical binding]; other site 225849006325 ligand binding site [chemical binding]; other site 225849006326 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 225849006327 substrate binding site [chemical binding]; other site 225849006328 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 225849006329 Predicted transcriptional regulators [Transcription]; Region: COG1733 225849006330 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 225849006331 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 225849006332 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 225849006333 NAD(P) binding site [chemical binding]; other site 225849006334 catalytic residues [active] 225849006335 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 225849006336 Flagellin N-methylase; Region: FliB; pfam03692 225849006337 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 225849006338 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849006339 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849006340 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 225849006341 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 225849006342 Transposase; Region: DEDD_Tnp_IS110; pfam01548 225849006343 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 225849006344 Fusaric acid resistance protein family; Region: FUSC; pfam04632 225849006345 YcaO domain protein; Region: TIGR03549 225849006346 OsmC-like protein; Region: OsmC; pfam02566 225849006347 YcaO-like family; Region: YcaO; pfam02624 225849006348 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 225849006349 A new structural DNA glycosylase; Region: AlkD_like; cd06561 225849006350 active site 225849006351 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 225849006352 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849006353 Walker A/P-loop; other site 225849006354 ATP binding site [chemical binding]; other site 225849006355 Q-loop/lid; other site 225849006356 ABC transporter signature motif; other site 225849006357 Walker B; other site 225849006358 D-loop; other site 225849006359 H-loop/switch region; other site 225849006360 ABC transporter; Region: ABC_tran_2; pfam12848 225849006361 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 225849006362 Uncharacterized conserved protein (DUF2132); Region: DUF2132; cl01894 225849006363 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 225849006364 Sulfatase; Region: Sulfatase; pfam00884 225849006365 Sulfatase; Region: Sulfatase; cl17466 225849006366 DNA-binding transcriptional regulator MelR; Provisional; Region: PRK10371 225849006367 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225849006368 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225849006369 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 225849006370 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 225849006371 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 225849006372 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 225849006373 homodimer interface [polypeptide binding]; other site 225849006374 substrate-cofactor binding pocket; other site 225849006375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849006376 catalytic residue [active] 225849006377 galactokinase; Provisional; Region: PRK05101 225849006378 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 225849006379 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 225849006380 multidrug efflux protein; Reviewed; Region: PRK01766 225849006381 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 225849006382 cation binding site [ion binding]; other site 225849006383 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 225849006384 Lumazine binding domain; Region: Lum_binding; pfam00677 225849006385 Lumazine binding domain; Region: Lum_binding; pfam00677 225849006386 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 225849006387 pteridine reductase; Provisional; Region: PRK09135 225849006388 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225849006389 NAD(P) binding site [chemical binding]; other site 225849006390 active site 225849006391 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 225849006392 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 225849006393 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 225849006394 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 225849006395 active site 225849006396 dimer interface [polypeptide binding]; other site 225849006397 motif 1; other site 225849006398 motif 2; other site 225849006399 motif 3; other site 225849006400 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 225849006401 anticodon binding site; other site 225849006402 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 225849006403 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 225849006404 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 225849006405 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 225849006406 23S rRNA binding site [nucleotide binding]; other site 225849006407 L21 binding site [polypeptide binding]; other site 225849006408 L13 binding site [polypeptide binding]; other site 225849006409 thioredoxin reductase; Provisional; Region: PRK10262 225849006410 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 225849006411 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225849006412 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 225849006413 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 225849006414 putative active site [active] 225849006415 Zn binding site [ion binding]; other site 225849006416 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 225849006417 Protein of unknown function (DUF1315); Region: DUF1315; cl01215 225849006418 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 225849006419 active site 225849006420 homodimer interface [polypeptide binding]; other site 225849006421 protease 4; Provisional; Region: PRK10949 225849006422 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 225849006423 tandem repeat interface [polypeptide binding]; other site 225849006424 oligomer interface [polypeptide binding]; other site 225849006425 active site residues [active] 225849006426 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 225849006427 tandem repeat interface [polypeptide binding]; other site 225849006428 oligomer interface [polypeptide binding]; other site 225849006429 active site residues [active] 225849006430 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 225849006431 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 225849006432 active site 225849006433 FMN binding site [chemical binding]; other site 225849006434 2,4-decadienoyl-CoA binding site; other site 225849006435 catalytic residue [active] 225849006436 4Fe-4S cluster binding site [ion binding]; other site 225849006437 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 225849006438 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 225849006439 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 225849006440 Transposase; Region: DEDD_Tnp_IS110; pfam01548 225849006441 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 225849006442 YCII-related domain; Region: YCII; pfam03795 225849006443 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 225849006444 catalytic loop [active] 225849006445 iron binding site [ion binding]; other site 225849006446 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 225849006447 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 225849006448 dimer interface [polypeptide binding]; other site 225849006449 putative radical transfer pathway; other site 225849006450 diiron center [ion binding]; other site 225849006451 tyrosyl radical; other site 225849006452 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 225849006453 ATP cone domain; Region: ATP-cone; pfam03477 225849006454 Class I ribonucleotide reductase; Region: RNR_I; cd01679 225849006455 active site 225849006456 dimer interface [polypeptide binding]; other site 225849006457 catalytic residues [active] 225849006458 effector binding site; other site 225849006459 R2 peptide binding site; other site 225849006460 2-phosphoglycolate phosphatase, prokaryotic; Region: PGP_bact; TIGR01449 225849006461 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 225849006462 motif II; other site 225849006463 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 225849006464 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 225849006465 S-adenosylmethionine binding site [chemical binding]; other site 225849006466 DNA gyrase subunit A; Validated; Region: PRK05560 225849006467 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 225849006468 CAP-like domain; other site 225849006469 active site 225849006470 primary dimer interface [polypeptide binding]; other site 225849006471 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 225849006472 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 225849006473 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 225849006474 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 225849006475 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 225849006476 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 225849006477 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 225849006478 Beta-lactamase; Region: Beta-lactamase; pfam00144 225849006479 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 225849006480 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 225849006481 catalytic residue [active] 225849006482 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 225849006483 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 225849006484 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849006485 homodimer interface [polypeptide binding]; other site 225849006486 catalytic residue [active] 225849006487 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 225849006488 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 225849006489 hinge; other site 225849006490 active site 225849006491 cytidylate kinase; Provisional; Region: cmk; PRK00023 225849006492 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 225849006493 CMP-binding site; other site 225849006494 The sites determining sugar specificity; other site 225849006495 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 225849006496 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 225849006497 RNA binding site [nucleotide binding]; other site 225849006498 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 225849006499 RNA binding site [nucleotide binding]; other site 225849006500 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 225849006501 RNA binding site [nucleotide binding]; other site 225849006502 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 225849006503 RNA binding site [nucleotide binding]; other site 225849006504 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 225849006505 RNA binding site [nucleotide binding]; other site 225849006506 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 225849006507 RNA binding site [nucleotide binding]; other site 225849006508 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 225849006509 IHF dimer interface [polypeptide binding]; other site 225849006510 IHF - DNA interface [nucleotide binding]; other site 225849006511 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 225849006512 tetratricopeptide repeat protein; Provisional; Region: PRK11788 225849006513 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 225849006514 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 225849006515 active site 225849006516 dimer interface [polypeptide binding]; other site 225849006517 short chain dehydrogenase; Provisional; Region: PRK07576 225849006518 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 225849006519 NAD(P) binding site [chemical binding]; other site 225849006520 substrate binding site [chemical binding]; other site 225849006521 homotetramer interface [polypeptide binding]; other site 225849006522 active site 225849006523 homodimer interface [polypeptide binding]; other site 225849006524 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 225849006525 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 225849006526 FAD binding domain; Region: FAD_binding_4; pfam01565 225849006527 FAD linked oxidases, C-terminal domain; Region: FAD-oxidase_C; pfam02913 225849006528 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 225849006529 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 225849006530 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225849006531 active site 225849006532 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 225849006533 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 225849006534 Domain of unknown function (DUF1904); Region: DUF1904; pfam08921 225849006535 phosphatidylserine synthase; Provisional; Region: pssA; PRK09428 225849006536 Catalytic domain, repeat 1, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_1; cd09134 225849006537 domain interface [polypeptide binding]; other site 225849006538 putative active site [active] 225849006539 catalytic site [active] 225849006540 Catalytic domain, repeat 2, of phosphatidylserine synthases from gram-negative bacteria; Region: PLDc_PSS_G_neg_2; cd09136 225849006541 domain interface [polypeptide binding]; other site 225849006542 putative active site [active] 225849006543 catalytic site [active] 225849006544 Uncharacterized conserved protein [Function unknown]; Region: COG3148 225849006545 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 225849006546 DNA binding residues [nucleotide binding] 225849006547 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 225849006548 Transposase; Region: HTH_Tnp_1; pfam01527 225849006549 HTH-like domain; Region: HTH_21; pfam13276 225849006550 Integrase core domain; Region: rve; pfam00665 225849006551 Integrase core domain; Region: rve_2; pfam13333 225849006552 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 225849006553 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849006554 active site 225849006555 phosphorylation site [posttranslational modification] 225849006556 intermolecular recognition site; other site 225849006557 dimerization interface [polypeptide binding]; other site 225849006558 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 225849006559 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 225849006560 dimer interface [polypeptide binding]; other site 225849006561 phosphorylation site [posttranslational modification] 225849006562 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 225849006563 ATP binding site [chemical binding]; other site 225849006564 Mg2+ binding site [ion binding]; other site 225849006565 G-X-G motif; other site 225849006566 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 225849006567 ApbE family; Region: ApbE; pfam02424 225849006568 FMN-binding domain; Region: FMN_bind; pfam04205 225849006569 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 225849006570 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 225849006571 eyelet of channel; other site 225849006572 trimer interface [polypeptide binding]; other site 225849006573 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 225849006574 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 225849006575 active site 225849006576 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 225849006577 Peptidase family M1; Region: Peptidase_M1; pfam01433 225849006578 Zn binding site [ion binding]; other site 225849006579 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 225849006580 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 225849006581 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 225849006582 active site 225849006583 metal binding site [ion binding]; metal-binding site 225849006584 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 225849006585 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 225849006586 active site 225849006587 DNA binding site [nucleotide binding] 225849006588 Int/Topo IB signature motif; other site 225849006589 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 225849006590 Interdomain contacts; other site 225849006591 Cytokine receptor motif; other site 225849006592 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 225849006593 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 225849006594 active site 225849006595 Ecdysteroid kinase; Region: EcKinase; cl17738 225849006596 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 225849006597 Zn binding site [ion binding]; other site 225849006598 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 225849006599 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 225849006600 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 225849006601 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 225849006602 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 225849006603 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 225849006604 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 225849006605 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 225849006606 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 225849006607 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 225849006608 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 225849006609 DsrC like protein; Region: DsrC; pfam04358 225849006610 sulfur relay protein TusB/DsrH; Region: sulf_tusB_dsrH; TIGR03011 225849006611 sulfur relay protein TusC/DsrF; Region: sulf_tusC_dsrF; TIGR03010 225849006612 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 225849006613 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 225849006614 YccA-like proteins; Region: YccA_like; cd10433 225849006615 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 225849006616 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849006617 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 225849006618 dimerization interface [polypeptide binding]; other site 225849006619 putative transporter; Provisional; Region: PRK11043 225849006620 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 225849006621 putative substrate translocation pore; other site 225849006622 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225849006623 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849006624 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849006625 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849006626 SWIM/SEC-C metal-binding motif protein, PBPRA1643 family; Region: SWIM_PBPRA1643; TIGR04102 225849006627 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 225849006628 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 225849006629 DHHA2 domain; Region: DHHA2; pfam02833 225849006630 AAA domain; Region: AAA_32; pfam13654 225849006631 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 225849006632 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 225849006633 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 225849006634 Peptidase family U32; Region: Peptidase_U32; pfam01136 225849006635 Predicted protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: COG3531 225849006636 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 225849006637 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849006638 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 225849006639 Coenzyme A binding pocket [chemical binding]; other site 225849006640 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 225849006641 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225849006642 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 225849006643 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 225849006644 Coenzyme A binding pocket [chemical binding]; other site 225849006645 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 225849006646 NADH(P)-binding; Region: NAD_binding_10; pfam13460 225849006647 NAD binding site [chemical binding]; other site 225849006648 substrate binding site [chemical binding]; other site 225849006649 putative active site [active] 225849006650 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849006651 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849006652 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 225849006653 putative effector binding pocket; other site 225849006654 dimerization interface [polypeptide binding]; other site 225849006655 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 225849006656 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 225849006657 non-specific DNA binding site [nucleotide binding]; other site 225849006658 salt bridge; other site 225849006659 sequence-specific DNA binding site [nucleotide binding]; other site 225849006660 Bacteriophage replication gene A protein (GPA); Region: Phage_GPA; pfam05840 225849006661 putative major coat protein; Region: PHA00979 225849006662 Protein of unknown function (DUF2523); Region: DUF2523; cl10291 225849006663 putative assembly protein; Region: PHA00350 225849006664 Zonular occludens toxin (Zot); Region: Zot; cl17485 225849006665 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 225849006666 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 225849006667 Int/Topo IB signature motif; other site 225849006668 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 225849006669 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 225849006670 Low-spin heme binding site [chemical binding]; other site 225849006671 Putative water exit pathway; other site 225849006672 Binuclear center (active site) [active] 225849006673 Putative proton exit pathway; other site 225849006674 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 225849006675 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 225849006676 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 225849006677 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 225849006678 Cytochrome c; Region: Cytochrom_C; pfam00034 225849006679 Cytochrome c; Region: Cytochrom_C; pfam00034 225849006680 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 225849006681 FixH; Region: FixH; pfam05751 225849006682 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 225849006683 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 225849006684 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 225849006685 metal-binding site [ion binding] 225849006686 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 225849006687 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 225849006688 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 225849006689 Family description; Region: DsbD_2; pfam13386 225849006690 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 225849006691 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 225849006692 ligand binding site [chemical binding]; other site 225849006693 flexible hinge region; other site 225849006694 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 225849006695 putative switch regulator; other site 225849006696 non-specific DNA interactions [nucleotide binding]; other site 225849006697 DNA binding site [nucleotide binding] 225849006698 sequence specific DNA binding site [nucleotide binding]; other site 225849006699 putative cAMP binding site [chemical binding]; other site 225849006700 universal stress protein UspE; Provisional; Region: PRK11175 225849006701 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 225849006702 Ligand Binding Site [chemical binding]; other site 225849006703 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 225849006704 Ligand Binding Site [chemical binding]; other site 225849006705 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 225849006706 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 225849006707 Ligand Binding Site [chemical binding]; other site 225849006708 Protein of unknown function (DUF2987); Region: DUF2987; pfam11205 225849006709 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 225849006710 conserved hypothetical protein, cofD-related; Region: CofD_related; TIGR01826 225849006711 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 225849006712 phosphate binding site [ion binding]; other site 225849006713 putative substrate binding pocket [chemical binding]; other site 225849006714 dimer interface [polypeptide binding]; other site 225849006715 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 225849006716 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 225849006717 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849006718 homodimer interface [polypeptide binding]; other site 225849006719 catalytic residue [active] 225849006720 seryl-tRNA synthetase; Provisional; Region: PRK05431 225849006721 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 225849006722 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 225849006723 dimer interface [polypeptide binding]; other site 225849006724 active site 225849006725 motif 1; other site 225849006726 motif 2; other site 225849006727 motif 3; other site 225849006728 camphor resistance protein CrcB; Provisional; Region: PRK14197 225849006729 recombination factor protein RarA; Reviewed; Region: PRK13342 225849006730 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 225849006731 Walker A motif; other site 225849006732 ATP binding site [chemical binding]; other site 225849006733 Walker B motif; other site 225849006734 arginine finger; other site 225849006735 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 225849006736 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 225849006737 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 225849006738 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 225849006739 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 225849006740 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 225849006741 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 225849006742 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 225849006743 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 225849006744 putative DNA binding site [nucleotide binding]; other site 225849006745 putative Zn2+ binding site [ion binding]; other site 225849006746 AsnC family; Region: AsnC_trans_reg; pfam01037 225849006747 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 225849006748 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 225849006749 hexamer interface [polypeptide binding]; other site 225849006750 ligand binding site [chemical binding]; other site 225849006751 putative active site [active] 225849006752 NAD(P) binding site [chemical binding]; other site 225849006753 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849006754 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225849006755 active site 225849006756 phosphorylation site [posttranslational modification] 225849006757 intermolecular recognition site; other site 225849006758 dimerization interface [polypeptide binding]; other site 225849006759 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 225849006760 DNA binding site [nucleotide binding] 225849006761 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 225849006762 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 225849006763 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 225849006764 ATP binding site [chemical binding]; other site 225849006765 putative Mg++ binding site [ion binding]; other site 225849006766 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 225849006767 nucleotide binding region [chemical binding]; other site 225849006768 ATP-binding site [chemical binding]; other site 225849006769 hypothetical protein; Provisional; Region: PRK05421 225849006770 putative catalytic site [active] 225849006771 putative metal binding site [ion binding]; other site 225849006772 putative phosphate binding site [ion binding]; other site 225849006773 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 225849006774 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 225849006775 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 225849006776 putative active site [active] 225849006777 catalytic site [active] 225849006778 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 225849006779 putative active site [active] 225849006780 catalytic site [active] 225849006781 Sulfotransferase family; Region: Sulfotransfer_3; pfam13469 225849006782 Nitrate and nitrite sensing; Region: NIT; pfam08376 225849006783 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 225849006784 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225849006785 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849006786 dimer interface [polypeptide binding]; other site 225849006787 putative CheW interface [polypeptide binding]; other site 225849006788 quinolinate synthetase; Provisional; Region: PRK09375 225849006789 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 225849006790 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 225849006791 E3 interaction surface; other site 225849006792 lipoyl attachment site [posttranslational modification]; other site 225849006793 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 225849006794 E3 interaction surface; other site 225849006795 lipoyl attachment site [posttranslational modification]; other site 225849006796 e3 binding domain; Region: E3_binding; pfam02817 225849006797 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 225849006798 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 225849006799 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 225849006800 alpha subunit interface [polypeptide binding]; other site 225849006801 TPP binding site [chemical binding]; other site 225849006802 heterodimer interface [polypeptide binding]; other site 225849006803 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 225849006804 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 225849006805 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 225849006806 tetramer interface [polypeptide binding]; other site 225849006807 TPP-binding site [chemical binding]; other site 225849006808 heterodimer interface [polypeptide binding]; other site 225849006809 phosphorylation loop region [posttranslational modification] 225849006810 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 225849006811 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 225849006812 putative active site [active] 225849006813 Zn binding site [ion binding]; other site 225849006814 Peptide methionine sulfoxide reductase; Region: PMSR; pfam01625 225849006815 phosphoglucomutase; Validated; Region: PRK07564 225849006816 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 225849006817 active site 225849006818 substrate binding site [chemical binding]; other site 225849006819 metal binding site [ion binding]; metal-binding site 225849006820 replication initiation regulator SeqA; Provisional; Region: PRK11187 225849006821 PGAP1-like protein; Region: PGAP1; pfam07819 225849006822 acyl-CoA esterase; Provisional; Region: PRK10673 225849006823 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 225849006824 LexA regulated protein; Provisional; Region: PRK11675 225849006825 flavodoxin FldA; Validated; Region: PRK09267 225849006826 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 225849006827 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 225849006828 elongation factor P; Validated; Region: PRK00529 225849006829 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 225849006830 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 225849006831 RNA binding site [nucleotide binding]; other site 225849006832 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 225849006833 RNA binding site [nucleotide binding]; other site 225849006834 aminotransferase AlaT; Validated; Region: PRK09265 225849006835 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 225849006836 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849006837 homodimer interface [polypeptide binding]; other site 225849006838 catalytic residue [active] 225849006839 5'-nucleotidase; Provisional; Region: PRK03826 225849006840 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 225849006841 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 225849006842 hypothetical protein; Provisional; Region: PRK11111 225849006843 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 225849006844 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 225849006845 putative catalytic cysteine [active] 225849006846 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 225849006847 putative active site [active] 225849006848 metal binding site [ion binding]; metal-binding site 225849006849 malate synthase G; Provisional; Region: PRK02999 225849006850 active site 225849006851 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849006852 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849006853 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 225849006854 substrate binding pocket [chemical binding]; other site 225849006855 dimerization interface [polypeptide binding]; other site 225849006856 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 225849006857 Members of the ICL/PEPM_KPHMT enzyme superfamily catalyze the formation and cleavage of either P-C or C-C bonds. Typical members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate...; Region: ICL_KPHMT; cl00435 225849006858 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 225849006859 tetramer interface [polypeptide binding]; other site 225849006860 active site 225849006861 Mg2+/Mn2+ binding site [ion binding]; other site 225849006862 isocitrate lyase; Region: PLN02892 225849006863 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 225849006864 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 225849006865 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 225849006866 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 225849006867 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225849006868 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 225849006869 Fumarase C-terminus; Region: Fumerase_C; pfam05683 225849006870 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 225849006871 aminodeoxychorismate synthase subunit I; Provisional; Region: pabB; PRK15465 225849006872 chorismate binding enzyme; Region: Chorismate_bind; cl10555 225849006873 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 225849006874 putative active site [active] 225849006875 putative CoA binding site [chemical binding]; other site 225849006876 nudix motif; other site 225849006877 metal binding site [ion binding]; metal-binding site 225849006878 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 225849006879 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 225849006880 putative dimer interface [polypeptide binding]; other site 225849006881 putative anticodon binding site; other site 225849006882 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 225849006883 homodimer interface [polypeptide binding]; other site 225849006884 motif 1; other site 225849006885 motif 2; other site 225849006886 active site 225849006887 motif 3; other site 225849006888 Ni,Fe-hydrogenase I small subunit [Energy production and conversion]; Region: HyaA; COG1740 225849006889 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; pfam01058 225849006890 Ni,Fe-hydrogenase I large subunit [Energy production and conversion]; Region: HyaB; COG0374 225849006891 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; pfam00374 225849006892 Ni/Fe-hydrogenase, b-type cytochrome subunit; Region: CytB-hydogenase; TIGR02125 225849006893 Endopeptidases belonging to membrane-bound hydrogenases group. These hydrogenases transfer electrons from H2 to a cytochrome that is bound to a membrane-located complex coupling electron transfer to transmembrane proton translocation. Endopeptidase HybD...; Region: H2MP_MemB-H2up; cd06062 225849006894 putative substrate-binding site; other site 225849006895 nickel binding site [ion binding]; other site 225849006896 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 225849006897 Acylphosphatase; Region: Acylphosphatase; pfam00708 225849006898 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypF; COG0068 225849006899 HypF finger; Region: zf-HYPF; pfam07503 225849006900 HypF finger; Region: zf-HYPF; pfam07503 225849006901 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 225849006902 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 225849006903 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypC; COG0298 225849006904 hydrogenase isoenzymes formation protein HypD; Provisional; Region: PRK15062 225849006905 hydrogenase expression/formation protein HypD; Region: hypD; TIGR00075 225849006906 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 225849006907 dimerization interface [polypeptide binding]; other site 225849006908 hydrogenase expression/formation protein HypE; Region: hypE; TIGR02124 225849006909 ATP binding site [chemical binding]; other site 225849006910 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 225849006911 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 225849006912 TPR motif; other site 225849006913 TPR repeat; Region: TPR_11; pfam13414 225849006914 binding surface 225849006915 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 225849006916 TPR motif; other site 225849006917 binding surface 225849006918 TPR repeat; Region: TPR_11; pfam13414 225849006919 TPR repeat; Region: TPR_11; pfam13414 225849006920 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 225849006921 binding surface 225849006922 TPR motif; other site 225849006923 TPR repeat; Region: TPR_11; pfam13414 225849006924 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 225849006925 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 225849006926 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 225849006927 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 225849006928 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 225849006929 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 225849006930 ATP binding site [chemical binding]; other site 225849006931 Walker A motif; other site 225849006932 hexamer interface [polypeptide binding]; other site 225849006933 Walker B motif; other site 225849006934 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 225849006935 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 225849006936 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 225849006937 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 225849006938 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 225849006939 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 225849006940 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 225849006941 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 225849006942 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 225849006943 Walker A motif; other site 225849006944 ATP binding site [chemical binding]; other site 225849006945 Walker B motif; other site 225849006946 arginine finger; other site 225849006947 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 225849006948 Flp pilus assembly protein, pilin Flp [Intracellular trafficking and secretion]; Region: Flp; COG3847 225849006949 Homeodomain-like domain; Region: HTH_23; pfam13384 225849006950 Winged helix-turn helix; Region: HTH_29; pfam13551 225849006951 Homeodomain-like domain; Region: HTH_32; pfam13565 225849006952 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 225849006953 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 225849006954 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 225849006955 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 225849006956 Sulfatase; Region: Sulfatase; cl17466 225849006957 O-Antigen ligase; Region: Wzy_C; pfam04932 225849006958 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 225849006959 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 225849006960 NOL1/NOP2/sun family; Region: Nol1_Nop2_Fmu; pfam01189 225849006961 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 225849006962 S-adenosylmethionine binding site [chemical binding]; other site 225849006963 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 225849006964 putative substrate translocation pore; other site 225849006965 glucose/galactose transporter; Region: gluP; TIGR01272 225849006966 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 225849006967 Alpha amylase catalytic domain found in oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase) and related proteins; Region: AmyAc_OligoGlu; cd11330 225849006968 active site 225849006969 catalytic site [active] 225849006970 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 225849006971 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 225849006972 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 225849006973 Cyclomaltodextrinase, N-terminal; Region: Cyc-maltodext_N; pfam09087 225849006974 Alpha amylase catalytic domain found in bacterial cyclomaltodextrinases and related proteins; Region: AmyAc_bac_CMD_like_3; cd11340 225849006975 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 225849006976 Ca binding site [ion binding]; other site 225849006977 active site 225849006978 homodimer interface [polypeptide binding]; other site 225849006979 catalytic site [active] 225849006980 Cyclo-malto-dextrinase C-terminal domain; Region: Cyc-maltodext_C; pfam10438 225849006981 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 225849006982 Alpha amylase catalytic domain found in an uncharacterized protein family; Region: AmyAc_3; cd11349 225849006983 active site 225849006984 catalytic site [active] 225849006985 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 225849006986 malate synthase; Provisional; Region: PRK08951 225849006987 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 225849006988 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 225849006989 non-specific DNA binding site [nucleotide binding]; other site 225849006990 salt bridge; other site 225849006991 sequence-specific DNA binding site [nucleotide binding]; other site 225849006992 Protein of unknown function (DUF3612); Region: DUF3612; pfam12268 225849006993 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 225849006994 putative substrate translocation pore; other site 225849006995 Glycoside hydrolase family 15, N-terminal domain; Region: GH15_N; cd07430 225849006996 Domain interface; other site 225849006997 glucan 1,4-alpha-glucosidase; Region: glucan_glucosid; TIGR01535 225849006998 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 225849006999 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 225849007000 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 225849007001 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 225849007002 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 225849007003 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 225849007004 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 225849007005 Uncharacterized conserved protein [Function unknown]; Region: COG2850 225849007006 Cupin-like domain; Region: Cupin_8; pfam13621 225849007007 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 225849007008 active site 225849007009 catalytic site [active] 225849007010 substrate binding site [chemical binding]; other site 225849007011 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 225849007012 Transcriptional regulators [Transcription]; Region: PurR; COG1609 225849007013 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 225849007014 DNA binding site [nucleotide binding] 225849007015 domain linker motif; other site 225849007016 Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators; Region: PBP1_CelR; cd06295 225849007017 putative dimerization interface [polypeptide binding]; other site 225849007018 putative ligand binding site [chemical binding]; other site 225849007019 Protein of unknown function (DUF3334); Region: DUF3334; pfam11813 225849007020 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 225849007021 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4564 225849007022 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 225849007023 dimerization interface [polypeptide binding]; other site 225849007024 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225849007025 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849007026 dimer interface [polypeptide binding]; other site 225849007027 putative CheW interface [polypeptide binding]; other site 225849007028 Uncharacterized conserved protein [Function unknown]; Region: COG3603 225849007029 Family description; Region: ACT_7; pfam13840 225849007030 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 225849007031 dimerization domain swap beta strand [polypeptide binding]; other site 225849007032 regulatory protein interface [polypeptide binding]; other site 225849007033 active site 225849007034 regulatory phosphorylation site [posttranslational modification]; other site 225849007035 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 225849007036 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 225849007037 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 225849007038 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 225849007039 PTS system glucose-specific transporter subunit; Provisional; Region: PRK09439 225849007040 HPr interaction site; other site 225849007041 glycerol kinase (GK) interaction site [polypeptide binding]; other site 225849007042 active site 225849007043 phosphorylation site [posttranslational modification] 225849007044 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 225849007045 ArsC family; Region: ArsC; pfam03960 225849007046 putative catalytic residues [active] 225849007047 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 225849007048 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 225849007049 metal binding site [ion binding]; metal-binding site 225849007050 dimer interface [polypeptide binding]; other site 225849007051 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 225849007052 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 225849007053 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 225849007054 active site clefts [active] 225849007055 zinc binding site [ion binding]; other site 225849007056 dimer interface [polypeptide binding]; other site 225849007057 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 225849007058 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 225849007059 inhibitor-cofactor binding pocket; inhibition site 225849007060 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849007061 catalytic residue [active] 225849007062 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 225849007063 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 225849007064 active site 225849007065 NAD binding site [chemical binding]; other site 225849007066 metal binding site [ion binding]; metal-binding site 225849007067 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 225849007068 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 225849007069 Ligand binding site; other site 225849007070 oligomer interface; other site 225849007071 Protein of unknown function (DUF2897); Region: DUF2897; pfam11446 225849007072 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 225849007073 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 225849007074 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 225849007075 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 225849007076 active site 225849007077 DNA binding site [nucleotide binding] 225849007078 Int/Topo IB signature motif; other site 225849007079 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 225849007080 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 225849007081 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 225849007082 Walker A motif; other site 225849007083 ATP binding site [chemical binding]; other site 225849007084 Walker B motif; other site 225849007085 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 225849007086 Integrase core domain; Region: rve; pfam00665 225849007087 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 225849007088 Low molecular weight phosphatase family; Region: LMWPc; cl00105 225849007089 active site 225849007090 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 225849007091 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 225849007092 Transposase; Region: HTH_Tnp_1; pfam01527 225849007093 HTH-like domain; Region: HTH_21; pfam13276 225849007094 Integrase core domain; Region: rve; pfam00665 225849007095 Integrase core domain; Region: rve_2; pfam13333 225849007096 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 225849007097 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 225849007098 RHS protein; Region: RHS; pfam03527 225849007099 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 225849007100 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 225849007101 RHS Repeat; Region: RHS_repeat; cl11982 225849007102 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225849007103 Protein export membrane protein; Region: SecD_SecF; cl14618 225849007104 Protein export membrane protein; Region: SecD_SecF; cl14618 225849007105 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849007106 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849007107 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849007108 lipoprotein; Provisional; Region: PRK11679 225849007109 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 225849007110 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 225849007111 dihydrodipicolinate synthase; Region: dapA; TIGR00674 225849007112 dimer interface [polypeptide binding]; other site 225849007113 active site 225849007114 catalytic residue [active] 225849007115 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 225849007116 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_1; cd04893 225849007117 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 225849007118 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 225849007119 catalytic triad [active] 225849007120 Lysine efflux permease [General function prediction only]; Region: COG1279 225849007121 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 225849007122 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849007123 The C-terminal substrate binding domain of LysR-type transcriptional regulator, ArgP (IciA), for arginine exporter (ArgO); contains the type 2 periplasmic binding fold; Region: PBP2_IciA_ArgP; cd08428 225849007124 putative dimerization interface [polypeptide binding]; other site 225849007125 Domain of unknown function DUF20; Region: UPF0118; pfam01594 225849007126 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 225849007127 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 225849007128 CPxP motif; other site 225849007129 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 225849007130 Peptidase family M48; Region: Peptidase_M48; cl12018 225849007131 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 225849007132 TPR motif; other site 225849007133 binding surface 225849007134 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 225849007135 binding surface 225849007136 TPR motif; other site 225849007137 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 225849007138 ArsC family; Region: ArsC; pfam03960 225849007139 catalytic residues [active] 225849007140 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 225849007141 DNA replication initiation factor; Provisional; Region: PRK08084 225849007142 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 225849007143 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 225849007144 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 225849007145 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 225849007146 putative GSH binding site [chemical binding]; other site 225849007147 catalytic residues [active] 225849007148 superoxide dismutase; Provisional; Region: PRK10543 225849007149 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 225849007150 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 225849007151 Intracellular proteinase inhibitor; Region: BsuPI; pfam12690 225849007152 AsmA family; Region: AsmA; pfam05170 225849007153 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 225849007154 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 225849007155 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 225849007156 TMAO/DMSO reductase; Reviewed; Region: PRK05363 225849007157 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 225849007158 Moco binding site; other site 225849007159 metal coordination site [ion binding]; other site 225849007160 DNA recombination protein RmuC; Provisional; Region: PRK10361 225849007161 RmuC family; Region: RmuC; pfam02646 225849007162 lytic murein transglycosylase; Provisional; Region: PRK11619 225849007163 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 225849007164 N-acetyl-D-glucosamine binding site [chemical binding]; other site 225849007165 catalytic residue [active] 225849007166 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 225849007167 MoxR-like ATPases [General function prediction only]; Region: COG0714 225849007168 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 225849007169 Walker A motif; other site 225849007170 ATP binding site [chemical binding]; other site 225849007171 Walker B motif; other site 225849007172 arginine finger; other site 225849007173 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 225849007174 Protein of unknown function DUF58; Region: DUF58; pfam01882 225849007175 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 225849007176 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 225849007177 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 225849007178 exodeoxyribonuclease V, gamma subunit; Region: recC; TIGR01450 225849007179 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 225849007180 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 225849007181 Part of AAA domain; Region: AAA_19; pfam13245 225849007182 Family description; Region: UvrD_C_2; pfam13538 225849007183 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 225849007184 AAA domain; Region: AAA_30; pfam13604 225849007185 Family description; Region: UvrD_C_2; pfam13538 225849007186 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 225849007187 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 225849007188 ATP-grasp domain; Region: ATP-grasp_4; cl17255 225849007189 Nitrate/TMAO reductases, membrane-bound tetraheme cytochrome c subunit [Energy production and conversion]; Region: TorC; COG3005 225849007190 periplasmic nitrate (or nitrite) reductase c-type cytochrome, NapC/NirT family; Region: napC_nirT; TIGR02161 225849007191 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 225849007192 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 225849007193 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 225849007194 [4Fe-4S] binding site [ion binding]; other site 225849007195 molybdopterin cofactor binding site; other site 225849007196 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 225849007197 molybdopterin cofactor binding site; other site 225849007198 NapD protein; Region: NapD; pfam03927 225849007199 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 225849007200 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 225849007201 ATP binding site [chemical binding]; other site 225849007202 putative Mg++ binding site [ion binding]; other site 225849007203 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 225849007204 nucleotide binding region [chemical binding]; other site 225849007205 ATP-binding site [chemical binding]; other site 225849007206 Helicase associated domain (HA2); Region: HA2; pfam04408 225849007207 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 225849007208 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 225849007209 FOG: CBS domain [General function prediction only]; Region: COG0517 225849007210 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 225849007211 Protein of unknown function (DUF3233); Region: DUF3233; pfam11557 225849007212 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 225849007213 catalytic nucleophile [active] 225849007214 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 225849007215 Surface antigen; Region: Bac_surface_Ag; pfam01103 225849007216 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 225849007217 Family of unknown function (DUF490); Region: DUF490; pfam04357 225849007218 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225849007219 fatty acid metabolism regulator; Provisional; Region: PRK04984 225849007220 DNA-binding site [nucleotide binding]; DNA binding site 225849007221 FadR C-terminal domain; Region: FadR_C; pfam07840 225849007222 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cd00625 225849007223 transmembrane helices; other site 225849007224 disulfide bond formation protein B; Provisional; Region: PRK01749 225849007225 PrkA family serine protein kinase; Provisional; Region: PRK15455 225849007226 AAA ATPase domain; Region: AAA_16; pfam13191 225849007227 Walker A motif; other site 225849007228 ATP binding site [chemical binding]; other site 225849007229 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 225849007230 hypothetical protein; Provisional; Region: PRK05325 225849007231 SpoVR family protein; Provisional; Region: PRK11767 225849007232 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 225849007233 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 225849007234 5S rRNA interface [nucleotide binding]; other site 225849007235 CTC domain interface [polypeptide binding]; other site 225849007236 L16 interface [polypeptide binding]; other site 225849007237 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 225849007238 Peptidase M15; Region: Peptidase_M15_3; cl01194 225849007239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2989 225849007240 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 225849007241 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 225849007242 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 225849007243 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 225849007244 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 225849007245 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 225849007246 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 225849007247 GIY-YIG motif/motif A; other site 225849007248 active site 225849007249 catalytic site [active] 225849007250 putative DNA binding site [nucleotide binding]; other site 225849007251 metal binding site [ion binding]; metal-binding site 225849007252 UvrB/uvrC motif; Region: UVR; pfam02151 225849007253 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 225849007254 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 225849007255 DNA binding residues [nucleotide binding] 225849007256 dimerization interface [polypeptide binding]; other site 225849007257 Response regulator receiver domain; Region: Response_reg; pfam00072 225849007258 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849007259 active site 225849007260 phosphorylation site [posttranslational modification] 225849007261 intermolecular recognition site; other site 225849007262 dimerization interface [polypeptide binding]; other site 225849007263 Predicted ATP-dependent protease [Posttranslational modification, protein turnover, chaperones]; Region: LonB; COG1067 225849007264 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 225849007265 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 225849007266 active site 1 [active] 225849007267 dimer interface [polypeptide binding]; other site 225849007268 active site 2 [active] 225849007269 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 225849007270 ABC transporter ATPase component; Reviewed; Region: PRK11147 225849007271 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 225849007272 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 225849007273 ABC transporter; Region: ABC_tran_2; pfam12848 225849007274 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 225849007275 Glutaredoxin-like domain (DUF836); Region: DUF836; cl17650 225849007276 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 225849007277 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 225849007278 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 225849007279 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 225849007280 S-adenosylmethionine binding site [chemical binding]; other site 225849007281 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 225849007282 active site 225849007283 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 225849007284 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 225849007285 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 225849007286 quinone interaction residues [chemical binding]; other site 225849007287 active site 225849007288 catalytic residues [active] 225849007289 FMN binding site [chemical binding]; other site 225849007290 substrate binding site [chemical binding]; other site 225849007291 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 225849007292 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 225849007293 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 225849007294 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 225849007295 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 225849007296 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 225849007297 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 225849007298 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 225849007299 aminopeptidase N; Provisional; Region: pepN; PRK14015 225849007300 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 225849007301 active site 225849007302 Zn binding site [ion binding]; other site 225849007303 carboxy-terminal protease; Provisional; Region: PRK11186 225849007304 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 225849007305 protein binding site [polypeptide binding]; other site 225849007306 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 225849007307 Catalytic dyad [active] 225849007308 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 225849007309 ProP expression regulator; Provisional; Region: PRK04950 225849007310 ProQ/FINO family; Region: ProQ; smart00945 225849007311 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 225849007312 GAF domain; Region: GAF_2; pfam13185 225849007313 YebG protein; Region: YebG; pfam07130 225849007314 Paraquat-inducible protein A; Region: PqiA; pfam04403 225849007315 Paraquat-inducible protein A; Region: PqiA; pfam04403 225849007316 Paraquat-inducible protein B [General function prediction only]; Region: PqiB; COG3008 225849007317 mce related protein; Region: MCE; pfam02470 225849007318 mce related protein; Region: MCE; pfam02470 225849007319 mce related protein; Region: MCE; pfam02470 225849007320 mce related protein; Region: MCE; pfam02470 225849007321 mce related protein; Region: MCE; pfam02470 225849007322 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 225849007323 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 225849007324 rRNA (cytosine-C(5)-)-methyltransferase RsmF; Reviewed; Region: yebU; PRK11933 225849007325 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 225849007326 S-adenosylmethionine binding site [chemical binding]; other site 225849007327 pre-rRNA processing and ribosome biogenesis; Region: Nol1_Nop2_Fmu_2; pfam13636 225849007328 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 225849007329 active site 225849007330 PilZ domain; Region: PilZ; cl01260 225849007331 DNA polymerase III, delta' subunit; Region: holB; TIGR00678 225849007332 DNA polymerase III subunit delta'; Validated; Region: PRK08485 225849007333 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 225849007334 thymidylate kinase; Validated; Region: tmk; PRK00698 225849007335 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 225849007336 TMP-binding site; other site 225849007337 ATP-binding site [chemical binding]; other site 225849007338 YceG-like family; Region: YceG; pfam02618 225849007339 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 225849007340 dimerization interface [polypeptide binding]; other site 225849007341 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 225849007342 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 225849007343 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849007344 catalytic residue [active] 225849007345 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 225849007346 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 225849007347 Sugar specificity; other site 225849007348 Pyrimidine base specificity; other site 225849007349 ATP-binding site [chemical binding]; other site 225849007350 antiporter inner membrane protein; Provisional; Region: PRK11670 225849007351 Domain of unknown function DUF59; Region: DUF59; cl00941 225849007352 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 225849007353 Walker A motif; other site 225849007354 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 225849007355 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 225849007356 active site 225849007357 HIGH motif; other site 225849007358 KMSKS motif; other site 225849007359 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 225849007360 tRNA binding surface [nucleotide binding]; other site 225849007361 anticodon binding site; other site 225849007362 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 225849007363 dimer interface [polypeptide binding]; other site 225849007364 putative tRNA-binding site [nucleotide binding]; other site 225849007365 Uncharacterized conserved protein [Function unknown]; Region: COG0327 225849007366 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 225849007367 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 225849007368 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 225849007369 putative substrate translocation pore; other site 225849007370 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK08979 225849007371 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 225849007372 PYR/PP interface [polypeptide binding]; other site 225849007373 dimer interface [polypeptide binding]; other site 225849007374 TPP binding site [chemical binding]; other site 225849007375 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 225849007376 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 225849007377 TPP-binding site [chemical binding]; other site 225849007378 dimer interface [polypeptide binding]; other site 225849007379 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 225849007380 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 225849007381 putative valine binding site [chemical binding]; other site 225849007382 dimer interface [polypeptide binding]; other site 225849007383 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 225849007384 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 225849007385 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 225849007386 putative dimer interface [polypeptide binding]; other site 225849007387 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 225849007388 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 225849007389 active site 225849007390 metal binding site [ion binding]; metal-binding site 225849007391 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 225849007392 putative hydrolase; Provisional; Region: PRK11460 225849007393 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 225849007394 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 225849007395 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 225849007396 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 225849007397 putative dimer interface [polypeptide binding]; other site 225849007398 N-terminal domain interface [polypeptide binding]; other site 225849007399 putative substrate binding pocket (H-site) [chemical binding]; other site 225849007400 Protein of unknown function (DUF3389); Region: DUF3389; pfam11869 225849007401 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 225849007402 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 225849007403 Predicted transcriptional regulator [Transcription]; Region: COG2378 225849007404 WYL domain; Region: WYL; pfam13280 225849007405 Transglycosylase SLT domain; Region: SLT_2; pfam13406 225849007406 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 225849007407 N-acetyl-D-glucosamine binding site [chemical binding]; other site 225849007408 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 225849007409 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 225849007410 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 225849007411 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 225849007412 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849007413 active site 225849007414 phosphorylation site [posttranslational modification] 225849007415 intermolecular recognition site; other site 225849007416 dimerization interface [polypeptide binding]; other site 225849007417 integrating conjugative element protein, PFL_4701 family; Region: conj_TIGR03758 225849007418 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 225849007419 Mechanosensitive ion channel; Region: MS_channel; pfam00924 225849007420 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 225849007421 hypothetical protein; Provisional; Region: PRK11770 225849007422 Domain of unknown function (DUF307); Region: DUF307; pfam03733 225849007423 Domain of unknown function (DUF307); Region: DUF307; pfam03733 225849007424 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 225849007425 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 225849007426 M14 family of metallocarboxypeptidases and related proteins; Region: Peptidase_M14_like; cl11393 225849007427 active site 225849007428 Zn binding site [ion binding]; other site 225849007429 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 225849007430 membrane-bound complex binding site; other site 225849007431 hinge residues; other site 225849007432 Putative transmembrane protein (PGPGW); Region: PGPGW; pfam09656 225849007433 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 225849007434 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849007435 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849007436 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 225849007437 dimerization interface [polypeptide binding]; other site 225849007438 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 225849007439 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 225849007440 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 225849007441 dimer interface [polypeptide binding]; other site 225849007442 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 225849007443 active site 225849007444 Fe binding site [ion binding]; other site 225849007445 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 225849007446 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 225849007447 Protein of unknown function, DUF482; Region: DUF482; pfam04339 225849007448 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 225849007449 gamma-glutamyltranspeptidase; Region: g_glut_trans; TIGR00066 225849007450 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 225849007451 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 225849007452 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 225849007453 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 225849007454 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 225849007455 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport...; Region: FNR_like; cl06868 225849007456 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 225849007457 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 225849007458 catalytic loop [active] 225849007459 iron binding site [ion binding]; other site 225849007460 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 225849007461 FAD binding pocket [chemical binding]; other site 225849007462 FAD binding motif [chemical binding]; other site 225849007463 phosphate binding motif [ion binding]; other site 225849007464 beta-alpha-beta structure motif; other site 225849007465 NAD binding pocket [chemical binding]; other site 225849007466 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 225849007467 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 225849007468 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 225849007469 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 225849007470 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 225849007471 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 225849007472 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 225849007473 E3 interaction surface; other site 225849007474 lipoyl attachment site [posttranslational modification]; other site 225849007475 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 225849007476 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 225849007477 Beta-lactamase; Region: Beta-lactamase; pfam00144 225849007478 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 225849007479 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 225849007480 FtsX-like permease family; Region: FtsX; pfam02687 225849007481 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849007482 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849007483 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849007484 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849007485 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 225849007486 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849007487 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 225849007488 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 225849007489 Walker A/P-loop; other site 225849007490 ATP binding site [chemical binding]; other site 225849007491 Q-loop/lid; other site 225849007492 ABC transporter signature motif; other site 225849007493 Walker B; other site 225849007494 D-loop; other site 225849007495 H-loop/switch region; other site 225849007496 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 225849007497 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 225849007498 putative FMN binding site [chemical binding]; other site 225849007499 DoxX; Region: DoxX; pfam07681 225849007500 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 225849007501 active site 225849007502 ATP binding site [chemical binding]; other site 225849007503 Phosphotransferase enzyme family; Region: APH; pfam01636 225849007504 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cl17270 225849007505 substrate binding site [chemical binding]; other site 225849007506 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 225849007507 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 225849007508 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 225849007509 N-terminal plug; other site 225849007510 ligand-binding site [chemical binding]; other site 225849007511 Predicted periplasmic lipoprotein [General function prediction only]; Region: COG5633 225849007512 Putative periplasmic lipoprotein; Region: DUF1425; cd09030 225849007513 putative dimer interface [polypeptide binding]; other site 225849007514 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 225849007515 CoenzymeA binding site [chemical binding]; other site 225849007516 subunit interaction site [polypeptide binding]; other site 225849007517 PHB binding site; other site 225849007518 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 225849007519 CoenzymeA binding site [chemical binding]; other site 225849007520 subunit interaction site [polypeptide binding]; other site 225849007521 PHB binding site; other site 225849007522 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 225849007523 nucleotide binding site/active site [active] 225849007524 HIT family signature motif; other site 225849007525 catalytic residue [active] 225849007526 DNA-binding transcriptional regulator CsgD; Provisional; Region: PRK10100 225849007527 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 225849007528 DNA binding residues [nucleotide binding] 225849007529 dimerization interface [polypeptide binding]; other site 225849007530 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 225849007531 binding surface 225849007532 TPR motif; other site 225849007533 Serine/threonine protein phosphatase [Signal transduction mechanisms]; Region: PTC1; COG0631 225849007534 active site 225849007535 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 225849007536 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 225849007537 active site 225849007538 ATP binding site [chemical binding]; other site 225849007539 substrate binding site [chemical binding]; other site 225849007540 activation loop (A-loop); other site 225849007541 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 225849007542 putative sialic acid transporter; Region: 2A0112; TIGR00891 225849007543 putative substrate translocation pore; other site 225849007544 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 225849007545 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 225849007546 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 225849007547 nitrite reductase subunit NirD; Provisional; Region: PRK14989 225849007548 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 225849007549 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 225849007550 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 225849007551 ANTAR domain; Region: ANTAR; pfam03861 225849007552 hypothetical protein; Validated; Region: PRK09071 225849007553 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 225849007554 active site 225849007555 SAM binding site [chemical binding]; other site 225849007556 homodimer interface [polypeptide binding]; other site 225849007557 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 225849007558 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 225849007559 [4Fe-4S] binding site [ion binding]; other site 225849007560 molybdopterin cofactor binding site; other site 225849007561 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 225849007562 molybdopterin cofactor binding site; other site 225849007563 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 225849007564 heat shock protein HtpX; Provisional; Region: PRK05457 225849007565 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 225849007566 AAA domain; Region: AAA_26; pfam13500 225849007567 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 225849007568 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 225849007569 S-adenosylmethionine binding site [chemical binding]; other site 225849007570 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 225849007571 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 225849007572 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 225849007573 catalytic residue [active] 225849007574 biotin synthase; Region: bioB; TIGR00433 225849007575 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 225849007576 FeS/SAM binding site; other site 225849007577 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 225849007578 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 225849007579 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 225849007580 inhibitor-cofactor binding pocket; inhibition site 225849007581 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849007582 catalytic residue [active] 225849007583 Peptidase MA superfamily; Region: Peptidase_MA_2; pfam13485 225849007584 Zn binding site [ion binding]; other site 225849007585 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 225849007586 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 225849007587 dimerization interface [polypeptide binding]; other site 225849007588 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849007589 dimer interface [polypeptide binding]; other site 225849007590 putative CheW interface [polypeptide binding]; other site 225849007591 elongation factor G; Reviewed; Region: PRK00007 225849007592 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 225849007593 G1 box; other site 225849007594 putative GEF interaction site [polypeptide binding]; other site 225849007595 GTP/Mg2+ binding site [chemical binding]; other site 225849007596 Switch I region; other site 225849007597 G2 box; other site 225849007598 G3 box; other site 225849007599 Switch II region; other site 225849007600 G4 box; other site 225849007601 G5 box; other site 225849007602 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 225849007603 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 225849007604 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 225849007605 AAA domain; Region: AAA_33; pfam13671 225849007606 AAA domain; Region: AAA_17; cl17253 225849007607 NAD-dependent deacetylase; Provisional; Region: PRK00481 225849007608 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 225849007609 NAD+ binding site [chemical binding]; other site 225849007610 substrate binding site [chemical binding]; other site 225849007611 Zn binding site [ion binding]; other site 225849007612 ferric uptake regulator; Provisional; Region: fur; PRK09462 225849007613 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 225849007614 metal binding site 2 [ion binding]; metal-binding site 225849007615 putative DNA binding helix; other site 225849007616 metal binding site 1 [ion binding]; metal-binding site 225849007617 dimer interface [polypeptide binding]; other site 225849007618 structural Zn2+ binding site [ion binding]; other site 225849007619 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 225849007620 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 225849007621 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 225849007622 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 225849007623 active site 225849007624 FMN binding site [chemical binding]; other site 225849007625 substrate binding site [chemical binding]; other site 225849007626 3Fe-4S cluster binding site [ion binding]; other site 225849007627 Predicted permeases [General function prediction only]; Region: COG0679 225849007628 NLI interacting factor-like phosphatase; Region: NIF; cl17354 225849007629 Cache domain; Region: Cache_1; pfam02743 225849007630 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 225849007631 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 225849007632 dimerization interface [polypeptide binding]; other site 225849007633 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849007634 dimer interface [polypeptide binding]; other site 225849007635 putative CheW interface [polypeptide binding]; other site 225849007636 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 225849007637 CoA binding domain; Region: CoA_binding; pfam02629 225849007638 CoA-ligase; Region: Ligase_CoA; pfam00549 225849007639 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 225849007640 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 225849007641 CoA-ligase; Region: Ligase_CoA; pfam00549 225849007642 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 225849007643 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 225849007644 E3 interaction surface; other site 225849007645 lipoyl attachment site [posttranslational modification]; other site 225849007646 e3 binding domain; Region: E3_binding; pfam02817 225849007647 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 225849007648 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 225849007649 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 225849007650 TPP-binding site [chemical binding]; other site 225849007651 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 225849007652 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 225849007653 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 225849007654 L-aspartate oxidase; Provisional; Region: PRK06175 225849007655 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 225849007656 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 225849007657 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 225849007658 SdhC subunit interface [polypeptide binding]; other site 225849007659 proximal heme binding site [chemical binding]; other site 225849007660 cardiolipin binding site; other site 225849007661 Iron-sulfur protein interface; other site 225849007662 proximal quinone binding site [chemical binding]; other site 225849007663 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 225849007664 Iron-sulfur protein interface; other site 225849007665 proximal quinone binding site [chemical binding]; other site 225849007666 SdhD (CybS) interface [polypeptide binding]; other site 225849007667 proximal heme binding site [chemical binding]; other site 225849007668 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 225849007669 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 225849007670 dimer interface [polypeptide binding]; other site 225849007671 active site 225849007672 citrylCoA binding site [chemical binding]; other site 225849007673 NADH binding [chemical binding]; other site 225849007674 cationic pore residues; other site 225849007675 oxalacetate/citrate binding site [chemical binding]; other site 225849007676 coenzyme A binding site [chemical binding]; other site 225849007677 catalytic triad [active] 225849007678 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 225849007679 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 225849007680 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 225849007681 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225849007682 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225849007683 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225849007684 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 225849007685 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 225849007686 B12 binding domain; Region: B12-binding; pfam02310 225849007687 B12 binding site [chemical binding]; other site 225849007688 Radical SAM superfamily; Region: Radical_SAM; pfam04055 225849007689 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849007690 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849007691 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849007692 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 225849007693 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225849007694 Protein export membrane protein; Region: SecD_SecF; cl14618 225849007695 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 225849007696 2',3'-cyclic-nucleotide 2'-phosphodiesterase; Region: CycNucDiestase; TIGR01390 225849007697 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 225849007698 active site 225849007699 metal binding site [ion binding]; metal-binding site 225849007700 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 225849007701 Protein of unknown function (DUF938); Region: DUF938; pfam06080 225849007702 dUMP phosphatase; Provisional; Region: PRK09449 225849007703 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 225849007704 motif II; other site 225849007705 Cache domain; Region: Cache_1; pfam02743 225849007706 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 225849007707 dimerization interface [polypeptide binding]; other site 225849007708 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225849007709 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849007710 dimer interface [polypeptide binding]; other site 225849007711 putative CheW interface [polypeptide binding]; other site 225849007712 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 225849007713 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 225849007714 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225849007715 active site 225849007716 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 225849007717 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 225849007718 active site 225849007719 phosphate binding residues; other site 225849007720 catalytic residues [active] 225849007721 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 225849007722 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 225849007723 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 225849007724 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 225849007725 Ion channel; Region: Ion_trans_2; pfam07885 225849007726 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 225849007727 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl17457 225849007728 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 225849007729 DNA-binding transcriptional activator CadC; Provisional; Region: PRK10153 225849007730 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 225849007731 DNA binding site [nucleotide binding] 225849007732 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849007733 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849007734 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849007735 multidrug efflux protein; Reviewed; Region: PRK09579 225849007736 EamA-like transporter family; Region: EamA; pfam00892 225849007737 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 225849007738 EamA-like transporter family; Region: EamA; pfam00892 225849007739 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 225849007740 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 225849007741 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 225849007742 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 225849007743 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 225849007744 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 225849007745 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 225849007746 histidinol dehydrogenase; Region: hisD; TIGR00069 225849007747 NAD binding site [chemical binding]; other site 225849007748 dimerization interface [polypeptide binding]; other site 225849007749 product binding site; other site 225849007750 substrate binding site [chemical binding]; other site 225849007751 zinc binding site [ion binding]; other site 225849007752 catalytic residues [active] 225849007753 histidinol-phosphate aminotransferase; Provisional; Region: PRK04635 225849007754 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 225849007755 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849007756 homodimer interface [polypeptide binding]; other site 225849007757 catalytic residue [active] 225849007758 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 225849007759 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 225849007760 active site 225849007761 motif I; other site 225849007762 motif II; other site 225849007763 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 225849007764 putative active site pocket [active] 225849007765 4-fold oligomerization interface [polypeptide binding]; other site 225849007766 metal binding residues [ion binding]; metal-binding site 225849007767 3-fold/trimer interface [polypeptide binding]; other site 225849007768 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 225849007769 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 225849007770 putative active site [active] 225849007771 oxyanion strand; other site 225849007772 catalytic triad [active] 225849007773 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 225849007774 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 225849007775 catalytic residues [active] 225849007776 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 225849007777 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 225849007778 substrate binding site [chemical binding]; other site 225849007779 glutamase interaction surface [polypeptide binding]; other site 225849007780 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 225849007781 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 225849007782 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 225849007783 metal binding site [ion binding]; metal-binding site 225849007784 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 225849007785 membrane-bound complex binding site; other site 225849007786 hinge residues; other site 225849007787 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 225849007788 ATP binding site [chemical binding]; other site 225849007789 active site 225849007790 substrate binding site [chemical binding]; other site 225849007791 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 225849007792 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 225849007793 putative acyl-acceptor binding pocket; other site 225849007794 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 225849007795 IHF dimer interface [polypeptide binding]; other site 225849007796 IHF - DNA interface [nucleotide binding]; other site 225849007797 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 225849007798 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 225849007799 putative tRNA-binding site [nucleotide binding]; other site 225849007800 B3/4 domain; Region: B3_4; pfam03483 225849007801 tRNA synthetase B5 domain; Region: B5; smart00874 225849007802 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 225849007803 dimer interface [polypeptide binding]; other site 225849007804 motif 1; other site 225849007805 motif 3; other site 225849007806 motif 2; other site 225849007807 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 225849007808 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 225849007809 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 225849007810 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 225849007811 dimer interface [polypeptide binding]; other site 225849007812 motif 1; other site 225849007813 active site 225849007814 motif 2; other site 225849007815 motif 3; other site 225849007816 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225849007817 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849007818 dimer interface [polypeptide binding]; other site 225849007819 putative CheW interface [polypeptide binding]; other site 225849007820 Cache domain; Region: Cache_1; pfam02743 225849007821 PAS fold; Region: PAS_4; pfam08448 225849007822 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225849007823 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 225849007824 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 225849007825 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 225849007826 Protein of unknown function (DUF3802); Region: DUF3802; pfam12290 225849007827 YceI-like domain; Region: YceI; pfam04264 225849007828 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 225849007829 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 225849007830 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 225849007831 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 225849007832 agmatinase; Region: agmatinase; TIGR01230 225849007833 oligomer interface [polypeptide binding]; other site 225849007834 putative active site [active] 225849007835 Mn binding site [ion binding]; other site 225849007836 Adenosylmethionine decarboxylase; Region: SAM_decarbox; cl03253 225849007837 arginine decarboxylase; Provisional; Region: PRK05354 225849007838 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 225849007839 dimer interface [polypeptide binding]; other site 225849007840 active site 225849007841 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 225849007842 catalytic residues [active] 225849007843 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 225849007844 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 225849007845 S1 domain; Region: S1_2; pfam13509 225849007846 S1 domain; Region: S1_2; pfam13509 225849007847 hypothetical protein; Provisional; Region: PRK11239 225849007848 Protein of unknown function, DUF480; Region: DUF480; pfam04337 225849007849 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 225849007850 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 225849007851 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849007852 Walker A/P-loop; other site 225849007853 ATP binding site [chemical binding]; other site 225849007854 Q-loop/lid; other site 225849007855 ABC transporter signature motif; other site 225849007856 Walker B; other site 225849007857 D-loop; other site 225849007858 H-loop/switch region; other site 225849007859 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 225849007860 DNA-binding site [nucleotide binding]; DNA binding site 225849007861 RNA-binding motif; other site 225849007862 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 225849007863 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 225849007864 S-adenosylmethionine binding site [chemical binding]; other site 225849007865 exonuclease I; Provisional; Region: sbcB; PRK11779 225849007866 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 225849007867 active site 225849007868 catalytic site [active] 225849007869 substrate binding site [chemical binding]; other site 225849007870 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 225849007871 cytidine deaminase; Provisional; Region: PRK09027 225849007872 Cytidine deaminase zinc-binding domain. These enzymes are Zn dependent. The zinc ion in the active site plays a central role in the proposed catalytic mechanism, activating a water molecule to form a hydroxide ion that performs a nucleophilic attack on...; Region: cytidine_deaminase; cd01283 225849007873 active site 225849007874 catalytic motif [active] 225849007875 Zn binding site [ion binding]; other site 225849007876 Cytidine and deoxycytidylate deaminase zinc-binding region; Region: dCMP_cyt_deam_2; pfam08211 225849007877 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 225849007878 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 225849007879 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 225849007880 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK07314 225849007881 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 225849007882 dimer interface [polypeptide binding]; other site 225849007883 active site 225849007884 acyl carrier protein; Provisional; Region: acpP; PRK00982 225849007885 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 225849007886 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 225849007887 NAD(P) binding site [chemical binding]; other site 225849007888 homotetramer interface [polypeptide binding]; other site 225849007889 homodimer interface [polypeptide binding]; other site 225849007890 active site 225849007891 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 225849007892 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 225849007893 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 225849007894 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 225849007895 dimer interface [polypeptide binding]; other site 225849007896 active site 225849007897 CoA binding pocket [chemical binding]; other site 225849007898 putative phosphate acyltransferase; Provisional; Region: PRK05331 225849007899 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 225849007900 hypothetical protein; Provisional; Region: PRK11193 225849007901 Maf-like protein; Region: Maf; pfam02545 225849007902 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 225849007903 active site 225849007904 dimer interface [polypeptide binding]; other site 225849007905 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 225849007906 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 225849007907 motif II; other site 225849007908 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 225849007909 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 225849007910 RNA binding surface [nucleotide binding]; other site 225849007911 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 225849007912 active site 225849007913 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 225849007914 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 225849007915 homodimer interface [polypeptide binding]; other site 225849007916 oligonucleotide binding site [chemical binding]; other site 225849007917 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 225849007918 Sulfate transporter family; Region: Sulfate_transp; pfam00916 225849007919 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 225849007920 bifunctional methionine sulfoxide reductase B/A protein; Provisional; Region: PRK05550 225849007921 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229; cl15841 225849007922 methionine sulfoxide reductase A; Provisional; Region: PRK14054 225849007923 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 225849007924 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 225849007925 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 225849007926 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 225849007927 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 225849007928 GTP/Mg2+ binding site [chemical binding]; other site 225849007929 G4 box; other site 225849007930 G5 box; other site 225849007931 G1 box; other site 225849007932 Switch I region; other site 225849007933 G2 box; other site 225849007934 G3 box; other site 225849007935 Switch II region; other site 225849007936 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 225849007937 SCP-2 sterol transfer family; Region: SCP2; pfam02036 225849007938 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 225849007939 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849007940 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 225849007941 Predicted periplasmic protein (DUF2271); Region: DUF2271; cl17856 225849007942 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 225849007943 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 225849007944 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 225849007945 N-terminal plug; other site 225849007946 ligand-binding site [chemical binding]; other site 225849007947 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225849007948 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849007949 active site 225849007950 phosphorylation site [posttranslational modification] 225849007951 intermolecular recognition site; other site 225849007952 dimerization interface [polypeptide binding]; other site 225849007953 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 225849007954 DNA binding site [nucleotide binding] 225849007955 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225849007956 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 225849007957 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 225849007958 dimer interface [polypeptide binding]; other site 225849007959 phosphorylation site [posttranslational modification] 225849007960 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 225849007961 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 225849007962 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 225849007963 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 225849007964 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 225849007965 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 225849007966 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849007967 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849007968 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225849007969 Protein export membrane protein; Region: SecD_SecF; cl14618 225849007970 Protein of unknown function (DUF1353); Region: DUF1353; pfam07087 225849007971 DNA ligase; Provisional; Region: PRK09125 225849007972 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 225849007973 DNA binding site [nucleotide binding] 225849007974 active site 225849007975 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 225849007976 DNA binding site [nucleotide binding] 225849007977 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 225849007978 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 225849007979 PA_M28_1_2: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 2. A subgroup of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic...; Region: PA_M28_1_2; cd04821 225849007980 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 225849007981 PA/protease or protease-like domain interface [polypeptide binding]; other site 225849007982 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 225849007983 metal binding site [ion binding]; metal-binding site 225849007984 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849007985 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849007986 metal binding site [ion binding]; metal-binding site 225849007987 active site 225849007988 I-site; other site 225849007989 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_4; cd05828 225849007990 active site 225849007991 catalytic site [active] 225849007992 marine proteobacterial sortase target protein; Region: marine_srt_targ; TIGR03788 225849007993 Vault protein inter-alpha-trypsin domain; Region: VIT; cl02699 225849007994 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 225849007995 metal ion-dependent adhesion site (MIDAS); other site 225849007996 proteobacterial sortase system OmpA family protein; Region: pdsO; TIGR03789 225849007997 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225849007998 ligand binding site [chemical binding]; other site 225849007999 proteobacterial dedicated sortase system response regulator; Region: marine_sort_RR; TIGR03787 225849008000 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849008001 active site 225849008002 phosphorylation site [posttranslational modification] 225849008003 intermolecular recognition site; other site 225849008004 dimerization interface [polypeptide binding]; other site 225849008005 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 225849008006 DNA binding site [nucleotide binding] 225849008007 proteobacterial dedicated sortase system histidine kinase; Region: marine_sort_HK; TIGR03785 225849008008 DOMON-like type 9 carbohydrate binding module at the N-terminus of bacterial sensor histidine kinases; Region: CBM9_like_HisKa; cd09622 225849008009 putative ligand binding site [chemical binding]; other site 225849008010 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 225849008011 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 225849008012 dimer interface [polypeptide binding]; other site 225849008013 phosphorylation site [posttranslational modification] 225849008014 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 225849008015 ATP binding site [chemical binding]; other site 225849008016 Mg2+ binding site [ion binding]; other site 225849008017 G-X-G motif; other site 225849008018 cystathionine beta-lyase; Provisional; Region: PRK09028 225849008019 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 225849008020 homodimer interface [polypeptide binding]; other site 225849008021 substrate-cofactor binding pocket; other site 225849008022 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849008023 catalytic residue [active] 225849008024 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 225849008025 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 225849008026 Pentapeptide repeats (9 copies); Region: Pentapeptide_4; pfam13599 225849008027 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 225849008028 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 225849008029 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 225849008030 SnoaL-like domain; Region: SnoaL_3; pfam13474 225849008031 Transposase; Region: DEDD_Tnp_IS110; pfam01548 225849008032 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 225849008033 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 225849008034 DNA binding site [nucleotide binding] 225849008035 active site 225849008036 Int/Topo IB signature motif; other site 225849008037 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 225849008038 Domain of unknown function (DUF4250); Region: DUF4250; pfam14056 225849008039 Uncharacterized conserved protein [Function unknown]; Region: COG3791 225849008040 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 225849008041 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 225849008042 carboxyltransferase (CT) interaction site; other site 225849008043 biotinylation site [posttranslational modification]; other site 225849008044 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849008045 Outer membrane efflux protein; Region: OEP; pfam02321 225849008046 Outer membrane efflux protein; Region: OEP; pfam02321 225849008047 DNA topoisomerase III; Provisional; Region: PRK07726 225849008048 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 225849008049 active site 225849008050 putative interdomain interaction site [polypeptide binding]; other site 225849008051 putative metal-binding site [ion binding]; other site 225849008052 putative nucleotide binding site [chemical binding]; other site 225849008053 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 225849008054 domain I; other site 225849008055 DNA binding groove [nucleotide binding] 225849008056 phosphate binding site [ion binding]; other site 225849008057 domain II; other site 225849008058 domain III; other site 225849008059 nucleotide binding site [chemical binding]; other site 225849008060 catalytic site [active] 225849008061 domain IV; other site 225849008062 amidophosphoribosyltransferase; Provisional; Region: PRK09246 225849008063 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 225849008064 active site 225849008065 tetramer interface [polypeptide binding]; other site 225849008066 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 225849008067 active site 225849008068 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 225849008069 Colicin V production protein; Region: Colicin_V; cl00567 225849008070 cell division protein DedD; Provisional; Region: PRK11633 225849008071 Sporulation related domain; Region: SPOR; pfam05036 225849008072 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 225849008073 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 225849008074 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 225849008075 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 225849008076 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 225849008077 dimerization interface 3.5A [polypeptide binding]; other site 225849008078 active site 225849008079 FimV N-terminal domain; Region: FimV_core; TIGR03505 225849008080 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 225849008081 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 225849008082 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 225849008083 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 225849008084 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 225849008085 ligand binding site [chemical binding]; other site 225849008086 NAD binding site [chemical binding]; other site 225849008087 catalytic site [active] 225849008088 homodimer interface [polypeptide binding]; other site 225849008089 Predicted integral membrane protein [Function unknown]; Region: COG5652 225849008090 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 225849008091 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 225849008092 dimer interface [polypeptide binding]; other site 225849008093 active site 225849008094 tRNA U-34 5-methylaminomethyl-2-thiouridine biosynthesis protein MnmC, C-terminal domain; Region: MnmC_Cterm; TIGR03197 225849008095 Protein of unknown function (DUF3313); Region: DUF3313; pfam11769 225849008096 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 225849008097 YfcL protein; Region: YfcL; pfam08891 225849008098 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 225849008099 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 225849008100 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 225849008101 putative substrate translocation pore; other site 225849008102 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 225849008103 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 225849008104 Tetramer interface [polypeptide binding]; other site 225849008105 active site 225849008106 FMN-binding site [chemical binding]; other site 225849008107 HemK family putative methylases; Region: hemK_fam; TIGR00536 225849008108 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 225849008109 S-adenosylmethionine binding site [chemical binding]; other site 225849008110 hypothetical protein; Provisional; Region: PRK04946 225849008111 Smr domain; Region: Smr; pfam01713 225849008112 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 225849008113 catalytic core [active] 225849008114 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 225849008115 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 225849008116 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 225849008117 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 225849008118 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 225849008119 PAS fold; Region: PAS_3; pfam08447 225849008120 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 225849008121 PAS domain; Region: PAS_9; pfam13426 225849008122 putative active site [active] 225849008123 heme pocket [chemical binding]; other site 225849008124 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849008125 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849008126 metal binding site [ion binding]; metal-binding site 225849008127 active site 225849008128 I-site; other site 225849008129 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 225849008130 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 225849008131 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 225849008132 substrate binding site [chemical binding]; other site 225849008133 oxyanion hole (OAH) forming residues; other site 225849008134 trimer interface [polypeptide binding]; other site 225849008135 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 225849008136 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 225849008137 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 225849008138 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 225849008139 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 225849008140 dimer interface [polypeptide binding]; other site 225849008141 active site 225849008142 MoxR-like ATPases [General function prediction only]; Region: COG0714 225849008143 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 225849008144 Walker A motif; other site 225849008145 ATP binding site [chemical binding]; other site 225849008146 Walker B motif; other site 225849008147 arginine finger; other site 225849008148 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 225849008149 Protein of unknown function DUF58; Region: DUF58; pfam01882 225849008150 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 225849008151 VWA BatA type: Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b...; Region: vWA_BatA_type; cd01467 225849008152 metal ion-dependent adhesion site (MIDAS); other site 225849008153 von Willebrand factor type A domain; Region: VWA_2; pfam13519 225849008154 metal ion-dependent adhesion site (MIDAS); other site 225849008155 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 225849008156 TPR motif; other site 225849008157 TPR repeat; Region: TPR_11; pfam13414 225849008158 Oxygen tolerance; Region: BatD; pfam13584 225849008159 RNA polymerase sigma factor; Provisional; Region: PRK12517 225849008160 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225849008161 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 225849008162 DNA binding residues [nucleotide binding] 225849008163 Protein of unknown function (DUF3379); Region: DUF3379; pfam11859 225849008164 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 225849008165 Na binding site [ion binding]; other site 225849008166 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; pfam03349 225849008167 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 225849008168 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849008169 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 225849008170 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849008171 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225849008172 Protein export membrane protein; Region: SecD_SecF; cl14618 225849008173 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 225849008174 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 225849008175 active site residue [active] 225849008176 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 225849008177 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 225849008178 active site 225849008179 catalytic residues [active] 225849008180 PA_VapT_like: Protease-associated domain containing proteins like VapT from Vibrio metschnikovii strain RH530. This group contains various PA domain-containing proteins similar to V. metschnikovii VapT, including the serine alkaline protease SapSh from...; Region: PA_VapT_like; cd04817 225849008181 PA/subtilisin-like domain interface [polypeptide binding]; other site 225849008182 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 225849008183 catalytic residues [active] 225849008184 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 225849008185 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 225849008186 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 225849008187 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 225849008188 dimerization interface [polypeptide binding]; other site 225849008189 active site 225849008190 hypothetical protein; Provisional; Region: PRK11020 225849008191 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 225849008192 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 225849008193 FeS/SAM binding site; other site 225849008194 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK09263 225849008195 ATP cone domain; Region: ATP-cone; pfam03477 225849008196 Class III ribonucleotide reductase; Region: RNR_III; cd01675 225849008197 effector binding site; other site 225849008198 active site 225849008199 Zn binding site [ion binding]; other site 225849008200 glycine loop; other site 225849008201 MarR family; Region: MarR_2; cl17246 225849008202 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 225849008203 Prostaglandin dehydrogenases; Region: PGDH; cd05288 225849008204 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 225849008205 NAD(P) binding site [chemical binding]; other site 225849008206 substrate binding site [chemical binding]; other site 225849008207 dimer interface [polypeptide binding]; other site 225849008208 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 225849008209 active site 225849008210 nucleophile elbow; other site 225849008211 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 225849008212 DEAD-like helicases superfamily; Region: DEXDc; smart00487 225849008213 ATP binding site [chemical binding]; other site 225849008214 Mg++ binding site [ion binding]; other site 225849008215 motif III; other site 225849008216 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 225849008217 nucleotide binding region [chemical binding]; other site 225849008218 ATP-binding site [chemical binding]; other site 225849008219 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 225849008220 Protein of unknown function (DUF3010); Region: DUF3010; pfam11215 225849008221 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 225849008222 putative peptidase; Provisional; Region: PRK11649 225849008223 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 225849008224 Peptidase family M23; Region: Peptidase_M23; pfam01551 225849008225 exonuclease SbcC; Region: sbcc; TIGR00618 225849008226 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 225849008227 Walker A/P-loop; other site 225849008228 ATP binding site [chemical binding]; other site 225849008229 Q-loop/lid; other site 225849008230 ATP-binding cassette domain of sbcCD; Region: ABC_sbcCD; cd03279 225849008231 ABC transporter signature motif; other site 225849008232 Walker B; other site 225849008233 D-loop; other site 225849008234 H-loop/switch region; other site 225849008235 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 225849008236 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 225849008237 active site 225849008238 metal binding site [ion binding]; metal-binding site 225849008239 DNA binding site [nucleotide binding] 225849008240 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 225849008241 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 225849008242 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225849008243 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849008244 active site 225849008245 phosphorylation site [posttranslational modification] 225849008246 intermolecular recognition site; other site 225849008247 dimerization interface [polypeptide binding]; other site 225849008248 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 225849008249 DNA binding site [nucleotide binding] 225849008250 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225849008251 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 225849008252 His Kinase A (phosphoacceptor) domain; Region: HisKA; smart00388 225849008253 dimer interface [polypeptide binding]; other site 225849008254 phosphorylation site [posttranslational modification] 225849008255 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 225849008256 ATP binding site [chemical binding]; other site 225849008257 Mg2+ binding site [ion binding]; other site 225849008258 G-X-G motif; other site 225849008259 valine--pyruvate transaminase; Provisional; Region: avtA; PRK09440 225849008260 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 225849008261 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849008262 homodimer interface [polypeptide binding]; other site 225849008263 catalytic residue [active] 225849008264 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 225849008265 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 225849008266 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 225849008267 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 225849008268 Lhr-like helicases [General function prediction only]; Region: Lhr; COG1201 225849008269 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 225849008270 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 225849008271 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849008272 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 225849008273 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 225849008274 Antirepressor regulating drug resistance, predicted signal transduction N-terminal membrane component [Transcription / Signal transduction mechanisms]; Region: MecR1; COG4219 225849008275 Penicillinase repressor; Region: Pencillinase_R; cl17580 225849008276 hypothetical protein; Provisional; Region: PRK10621 225849008277 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 225849008278 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 225849008279 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849008280 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 225849008281 dimerization interface [polypeptide binding]; other site 225849008282 Nuclease-related domain; Region: NERD; pfam08378 225849008283 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 225849008284 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 225849008285 ATP binding site [chemical binding]; other site 225849008286 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 225849008287 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 225849008288 RNA binding surface [nucleotide binding]; other site 225849008289 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 225849008290 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 225849008291 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 225849008292 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 225849008293 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849008294 metal binding site [ion binding]; metal-binding site 225849008295 active site 225849008296 I-site; other site 225849008297 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 225849008298 TPR motif; other site 225849008299 binding surface 225849008300 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 225849008301 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 225849008302 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 225849008303 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 225849008304 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 225849008305 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 225849008306 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 225849008307 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 225849008308 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 225849008309 trimer interface [polypeptide binding]; other site 225849008310 eyelet of channel; other site 225849008311 DNA polymerase II; Reviewed; Region: PRK05762 225849008312 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases; Region: DNA_polB_II_exo; cd05784 225849008313 active site 225849008314 catalytic site [active] 225849008315 substrate binding site [chemical binding]; other site 225849008316 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 225849008317 active site 225849008318 metal-binding site 225849008319 ATP-dependent DNA helicase DinG; Provisional; Region: dinG; PRK11747 225849008320 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 225849008321 hypothetical protein; Provisional; Region: PRK10621 225849008322 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 225849008323 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 225849008324 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 225849008325 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 225849008326 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 225849008327 putative active site [active] 225849008328 Zn binding site [ion binding]; other site 225849008329 Late competence development protein ComFB; Region: ComFB; pfam10719 225849008330 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 225849008331 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 225849008332 Serine recombinase (SR) family, Partitioning (par)-Resolvase subfamily, catalytic domain; Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining mechanism which involves a transient...; Region: SR_Res_par; cd03767 225849008333 catalytic residues [active] 225849008334 catalytic nucleophile [active] 225849008335 Trp repressor protein; Region: Trp_repressor; cl17266 225849008336 TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG...; Region: TOPRIM_primases; cd01029 225849008337 active site 225849008338 metal binding site [ion binding]; metal-binding site 225849008339 interdomain interaction site; other site 225849008340 Helix-turn-helix domain; Region: HTH_28; pfam13518 225849008341 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 225849008342 carbamoyl-phosphate synthase, large subunit; Region: CPSaseII_lrg; TIGR01369 225849008343 Catalytic domain of type II restriction endonucleases BfiI and NgoFVII, and uncharacterized proteins with a DEAD domain; Region: PLDc_Bfil_DEXD_like; cd09117 225849008344 PLD-like domain; Region: PLDc_2; pfam13091 225849008345 homodimer interface [polypeptide binding]; other site 225849008346 putative active site [active] 225849008347 catalytic site [active] 225849008348 Predicted ATPase [General function prediction only]; Region: COG5293 225849008349 Uncharacterized protein conserved in bacteria (DUF2326); Region: DUF2326; pfam10088 225849008350 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 225849008351 INT_SG2, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 2, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinases and phage-related integrases. Some have N-terminal domains, which show little sequence...; Region: INT_SG2_C; cd01184 225849008352 Int/Topo IB signature motif; other site 225849008353 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 225849008354 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 225849008355 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 225849008356 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 225849008357 transmembrane helices; other site 225849008358 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 225849008359 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 225849008360 homodimer interface [polypeptide binding]; other site 225849008361 substrate-cofactor binding pocket; other site 225849008362 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849008363 catalytic residue [active] 225849008364 hypothetical protein; Provisional; Region: PRK05415 225849008365 Domain of unknown function (DUF697); Region: DUF697; pfam05128 225849008366 YcjX-like family, DUF463; Region: DUF463; pfam04317 225849008367 PspC domain; Region: PspC; cl00864 225849008368 phage shock protein C; Region: phageshock_pspC; TIGR02978 225849008369 phage shock protein B; Provisional; Region: pspB; PRK09458 225849008370 phage shock protein A; Region: phageshock_pspA; TIGR02977 225849008371 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 225849008372 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 225849008373 Walker A motif; other site 225849008374 ATP binding site [chemical binding]; other site 225849008375 Walker B motif; other site 225849008376 arginine finger; other site 225849008377 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225849008378 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 225849008379 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 225849008380 peptide binding site [polypeptide binding]; other site 225849008381 antimicrobial peptide ABC transporter permease SapB; Provisional; Region: PRK15110 225849008382 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 225849008383 dimer interface [polypeptide binding]; other site 225849008384 conserved gate region; other site 225849008385 putative PBP binding loops; other site 225849008386 ABC-ATPase subunit interface; other site 225849008387 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SapC; COG4171 225849008388 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 225849008389 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 225849008390 dimer interface [polypeptide binding]; other site 225849008391 conserved gate region; other site 225849008392 putative PBP binding loops; other site 225849008393 ABC-ATPase subunit interface; other site 225849008394 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 225849008395 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 225849008396 Walker A/P-loop; other site 225849008397 ATP binding site [chemical binding]; other site 225849008398 Q-loop/lid; other site 225849008399 ABC transporter signature motif; other site 225849008400 Walker B; other site 225849008401 D-loop; other site 225849008402 H-loop/switch region; other site 225849008403 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 225849008404 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 225849008405 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 225849008406 Walker A/P-loop; other site 225849008407 ATP binding site [chemical binding]; other site 225849008408 Q-loop/lid; other site 225849008409 ABC transporter signature motif; other site 225849008410 Walker B; other site 225849008411 D-loop; other site 225849008412 H-loop/switch region; other site 225849008413 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 225849008414 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 225849008415 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 225849008416 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 225849008417 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 225849008418 periplasmic folding chaperone; Provisional; Region: PRK10788 225849008419 SurA N-terminal domain; Region: SurA_N_3; cl07813 225849008420 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 225849008421 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 225849008422 IHF dimer interface [polypeptide binding]; other site 225849008423 IHF - DNA interface [nucleotide binding]; other site 225849008424 DNA-binding ATP-dependent protease La; Provisional; Region: PRK10787 225849008425 Found in ATP-dependent protease La (LON); Region: LON; smart00464 225849008426 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 225849008427 Walker A motif; other site 225849008428 ATP binding site [chemical binding]; other site 225849008429 Walker B motif; other site 225849008430 arginine finger; other site 225849008431 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 225849008432 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 225849008433 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 225849008434 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 225849008435 Walker A motif; other site 225849008436 ATP binding site [chemical binding]; other site 225849008437 Walker B motif; other site 225849008438 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 225849008439 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 225849008440 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 225849008441 oligomer interface [polypeptide binding]; other site 225849008442 active site residues [active] 225849008443 trigger factor; Provisional; Region: tig; PRK01490 225849008444 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 225849008445 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 225849008446 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 225849008447 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 225849008448 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 225849008449 homodimer interface [polypeptide binding]; other site 225849008450 NADP binding site [chemical binding]; other site 225849008451 substrate binding site [chemical binding]; other site 225849008452 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 225849008453 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 225849008454 active site 225849008455 HIGH motif; other site 225849008456 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 225849008457 KMSKS motif; other site 225849008458 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 225849008459 tRNA binding surface [nucleotide binding]; other site 225849008460 anticodon binding site; other site 225849008461 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 225849008462 substrate binding site [chemical binding]; other site 225849008463 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 225849008464 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 225849008465 putative active site [active] 225849008466 putative metal binding site [ion binding]; other site 225849008467 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 225849008468 active site 225849008469 dinuclear metal binding site [ion binding]; other site 225849008470 dimerization interface [polypeptide binding]; other site 225849008471 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 225849008472 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 225849008473 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 225849008474 active site 225849008475 HIGH motif; other site 225849008476 nucleotide binding site [chemical binding]; other site 225849008477 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 225849008478 KMSKS motif; other site 225849008479 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 225849008480 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 225849008481 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 225849008482 G1 box; other site 225849008483 GTP/Mg2+ binding site [chemical binding]; other site 225849008484 Switch I region; other site 225849008485 G2 box; other site 225849008486 G3 box; other site 225849008487 Switch II region; other site 225849008488 G4 box; other site 225849008489 G5 box; other site 225849008490 Nucleoside recognition; Region: Gate; pfam07670 225849008491 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 225849008492 Nucleoside recognition; Region: Gate; pfam07670 225849008493 FeoA domain; Region: FeoA; pfam04023 225849008494 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 225849008495 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 225849008496 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 225849008497 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 225849008498 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 225849008499 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 225849008500 heme-binding residues [chemical binding]; other site 225849008501 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 225849008502 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 225849008503 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 225849008504 heme-binding residues [chemical binding]; other site 225849008505 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 225849008506 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 225849008507 heme-binding residues [chemical binding]; other site 225849008508 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 225849008509 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 225849008510 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 225849008511 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 225849008512 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 225849008513 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 225849008514 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 225849008515 N-terminal plug; other site 225849008516 ligand-binding site [chemical binding]; other site 225849008517 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 225849008518 putative uracil binding site [chemical binding]; other site 225849008519 putative active site [active] 225849008520 M6 family metalloprotease domain; Region: M6dom_TIGR03296 225849008521 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 225849008522 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 225849008523 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 225849008524 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 225849008525 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225849008526 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 225849008527 DNA binding site [nucleotide binding] 225849008528 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 225849008529 carbohydrate diacid transcriptional activator CdaR; Provisional; Region: PRK11477 225849008530 Putative sugar diacid recognition; Region: Diacid_rec; pfam05651 225849008531 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 225849008532 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 225849008533 fructuronate transporter; Provisional; Region: PRK10034; cl15264 225849008534 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 225849008535 putative pyridoxal-dependent aspartate 1-decarboxylase; Region: NOD_PanD_pyr; TIGR03799 225849008536 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 225849008537 catalytic residue [active] 225849008538 Methyltransferase domain; Region: Methyltransf_23; pfam13489 225849008539 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 225849008540 S-adenosylmethionine binding site [chemical binding]; other site 225849008541 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 225849008542 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 225849008543 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 225849008544 putative active site [active] 225849008545 putative NTP binding site [chemical binding]; other site 225849008546 putative nucleic acid binding site [nucleotide binding]; other site 225849008547 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 225849008548 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 225849008549 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 225849008550 active site 225849008551 substrate binding site [chemical binding]; other site 225849008552 metal binding site [ion binding]; metal-binding site 225849008553 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 225849008554 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 225849008555 active site 225849008556 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 225849008557 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 225849008558 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 225849008559 N-terminal plug; other site 225849008560 ligand-binding site [chemical binding]; other site 225849008561 putative NAD(P)-binding oxidoreductase; Provisional; Region: PRK09730 225849008562 classical (c) SDRs; Region: SDR_c; cd05233 225849008563 NAD(P) binding site [chemical binding]; other site 225849008564 active site 225849008565 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 225849008566 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849008567 Coenzyme A binding pocket [chemical binding]; other site 225849008568 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 225849008569 Uncharacterized conserved protein [Function unknown]; Region: COG3791 225849008570 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 225849008571 trimer interface [polypeptide binding]; other site 225849008572 active site 225849008573 substrate binding site [chemical binding]; other site 225849008574 CoA binding site [chemical binding]; other site 225849008575 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 225849008576 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 225849008577 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 225849008578 putative N-terminal domain interface [polypeptide binding]; other site 225849008579 putative dimer interface [polypeptide binding]; other site 225849008580 putative substrate binding pocket (H-site) [chemical binding]; other site 225849008581 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 225849008582 Peptidase family U32; Region: Peptidase_U32; pfam01136 225849008583 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 225849008584 active site 225849008585 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 225849008586 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 225849008587 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 225849008588 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 225849008589 Mechanosensitive ion channel; Region: MS_channel; pfam00924 225849008590 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 225849008591 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 225849008592 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 225849008593 ligand binding site [chemical binding]; other site 225849008594 flexible hinge region; other site 225849008595 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 225849008596 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 225849008597 metal binding triad; other site 225849008598 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 225849008599 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 225849008600 active site 225849008601 catalytic site [active] 225849008602 substrate binding site [chemical binding]; other site 225849008603 BCCT family transporter; Region: BCCT; pfam02028 225849008604 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 225849008605 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849008606 Coenzyme A binding pocket [chemical binding]; other site 225849008607 Pirin-related protein [General function prediction only]; Region: COG1741 225849008608 Pirin; Region: Pirin; pfam02678 225849008609 LysR family transcriptional regulator; Provisional; Region: PRK14997 225849008610 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849008611 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 225849008612 putative effector binding pocket; other site 225849008613 dimerization interface [polypeptide binding]; other site 225849008614 Isochorismatase family; Region: Isochorismatase; pfam00857 225849008615 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 225849008616 catalytic triad [active] 225849008617 dimer interface [polypeptide binding]; other site 225849008618 conserved cis-peptide bond; other site 225849008619 amphi-Trp domain; Region: amphi-Trp; TIGR04354 225849008620 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 225849008621 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 225849008622 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 225849008623 dimer interface [polypeptide binding]; other site 225849008624 phosphorylation site [posttranslational modification] 225849008625 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 225849008626 ATP binding site [chemical binding]; other site 225849008627 Mg2+ binding site [ion binding]; other site 225849008628 G-X-G motif; other site 225849008629 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 225849008630 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849008631 active site 225849008632 phosphorylation site [posttranslational modification] 225849008633 intermolecular recognition site; other site 225849008634 dimerization interface [polypeptide binding]; other site 225849008635 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 225849008636 Walker A motif; other site 225849008637 ATP binding site [chemical binding]; other site 225849008638 Walker B motif; other site 225849008639 arginine finger; other site 225849008640 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 225849008641 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 225849008642 FtsX-like permease family; Region: FtsX; pfam02687 225849008643 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 225849008644 FtsX-like permease family; Region: FtsX; pfam02687 225849008645 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 225849008646 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 225849008647 Walker A/P-loop; other site 225849008648 ATP binding site [chemical binding]; other site 225849008649 Q-loop/lid; other site 225849008650 ABC transporter signature motif; other site 225849008651 Walker B; other site 225849008652 D-loop; other site 225849008653 H-loop/switch region; other site 225849008654 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849008655 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849008656 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849008657 Uncharacterized conserved protein [Function unknown]; Region: COG3791 225849008658 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225849008659 3-beta hydroxysteroid dehydrogenase/isomerase family; Region: 3Beta_HSD; pfam01073 225849008660 NAD(P) binding site [chemical binding]; other site 225849008661 active site 225849008662 peptide synthase; Provisional; Region: PRK09274 225849008663 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_1; cd05910 225849008664 acyl-activating enzyme (AAE) consensus motif; other site 225849008665 putative AMP binding site [chemical binding]; other site 225849008666 putative active site [active] 225849008667 putative CoA binding site [chemical binding]; other site 225849008668 haloalkane dehalogenase; Provisional; Region: PRK03592 225849008669 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 225849008670 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 225849008671 dimer interface [polypeptide binding]; other site 225849008672 active site 225849008673 CoA binding pocket [chemical binding]; other site 225849008674 Methyltransferase domain; Region: Methyltransf_32; pfam13679 225849008675 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 225849008676 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 225849008677 active site 225849008678 BCCT family transporter; Region: BCCT; pfam02028 225849008679 transcriptional regulator PhoU; Provisional; Region: PRK11115 225849008680 PhoU domain; Region: PhoU; pfam01895 225849008681 PhoU domain; Region: PhoU; pfam01895 225849008682 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 225849008683 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 225849008684 Walker A/P-loop; other site 225849008685 ATP binding site [chemical binding]; other site 225849008686 Q-loop/lid; other site 225849008687 ABC transporter signature motif; other site 225849008688 Walker B; other site 225849008689 D-loop; other site 225849008690 H-loop/switch region; other site 225849008691 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 225849008692 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 225849008693 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 225849008694 dimer interface [polypeptide binding]; other site 225849008695 conserved gate region; other site 225849008696 putative PBP binding loops; other site 225849008697 ABC-ATPase subunit interface; other site 225849008698 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 225849008699 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 225849008700 conserved gate region; other site 225849008701 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 225849008702 dimer interface [polypeptide binding]; other site 225849008703 conserved gate region; other site 225849008704 putative PBP binding loops; other site 225849008705 ABC-ATPase subunit interface; other site 225849008706 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 225849008707 ACT domain; Region: ACT_6; pfam13740 225849008708 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 225849008709 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 225849008710 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 225849008711 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 225849008712 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 225849008713 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 225849008714 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 225849008715 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 225849008716 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 225849008717 Caulimovirus viroplasmin; Region: Cauli_VI; pfam01693 225849008718 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 225849008719 active site 225849008720 RNA/DNA hybrid binding site [nucleotide binding]; other site 225849008721 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 225849008722 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 225849008723 interface (dimer of trimers) [polypeptide binding]; other site 225849008724 Substrate-binding/catalytic site; other site 225849008725 Zn-binding sites [ion binding]; other site 225849008726 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 225849008727 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 225849008728 active site 225849008729 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 225849008730 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 225849008731 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 225849008732 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 225849008733 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 225849008734 Transposase; Region: DEDD_Tnp_IS110; pfam01548 225849008735 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 225849008736 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 225849008737 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 225849008738 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 225849008739 Transposase; Region: DEDD_Tnp_IS110; pfam01548 225849008740 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 225849008741 Domain of unknown function (DUF4365); Region: DUF4365; pfam14280 225849008742 Domain of unknown function (DUF4265); Region: DUF4265; pfam14085 225849008743 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 225849008744 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849008745 Walker A/P-loop; other site 225849008746 ATP binding site [chemical binding]; other site 225849008747 Q-loop/lid; other site 225849008748 ABC transporter signature motif; other site 225849008749 Walker B; other site 225849008750 D-loop; other site 225849008751 H-loop/switch region; other site 225849008752 ABC transporter; Region: ABC_tran_2; pfam12848 225849008753 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 225849008754 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 225849008755 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 225849008756 metal-binding site [ion binding] 225849008757 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 225849008758 Soluble P-type ATPase [General function prediction only]; Region: COG4087 225849008759 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 225849008760 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 225849008761 DNA binding residues [nucleotide binding] 225849008762 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 225849008763 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225849008764 Protein of unknown function (DUF3180); Region: DUF3180; pfam11377 225849008765 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 225849008766 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225849008767 NAD(P) binding site [chemical binding]; other site 225849008768 active site 225849008769 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 225849008770 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 225849008771 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 225849008772 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 225849008773 substrate binding site [chemical binding]; other site 225849008774 oxyanion hole (OAH) forming residues; other site 225849008775 trimer interface [polypeptide binding]; other site 225849008776 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 225849008777 enoyl-CoA hydratase; Provisional; Region: PRK09076 225849008778 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 225849008779 substrate binding site [chemical binding]; other site 225849008780 oxyanion hole (OAH) forming residues; other site 225849008781 trimer interface [polypeptide binding]; other site 225849008782 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 225849008783 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 225849008784 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225849008785 active site 225849008786 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 225849008787 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 225849008788 tetrameric interface [polypeptide binding]; other site 225849008789 NAD binding site [chemical binding]; other site 225849008790 catalytic residues [active] 225849008791 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 225849008792 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 225849008793 dimer interface [polypeptide binding]; other site 225849008794 active site 225849008795 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 225849008796 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 225849008797 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 225849008798 homoserine O-succinyltransferase; Provisional; Region: PRK05368 225849008799 Type 1 glutamine amidotransferase (GATase1)-like domain found in homoserine trans-succinylase (HTS); Region: GATase1_HTS; cd03131 225849008800 proposed active site lysine [active] 225849008801 conserved cys residue [active] 225849008802 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 225849008803 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 225849008804 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225849008805 NAD(P) binding site [chemical binding]; other site 225849008806 active site 225849008807 outer membrane protein W; Provisional; Region: PRK10959 225849008808 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 225849008809 Bacterial protein of unknown function (DUF925); Region: DUF925; cl01435 225849008810 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 225849008811 acyl-CoA thioesterase II; Provisional; Region: PRK10526 225849008812 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 225849008813 active site 225849008814 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 225849008815 catalytic triad [active] 225849008816 dimer interface [polypeptide binding]; other site 225849008817 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 225849008818 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225849008819 NAD(P) binding site [chemical binding]; other site 225849008820 active site 225849008821 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 225849008822 UbiA prenyltransferase family; Region: UbiA; pfam01040 225849008823 Cytochrome c552; Region: Cytochrom_C552; pfam02335 225849008824 NnrS protein; Region: NnrS; pfam05940 225849008825 Global regulator protein family; Region: CsrA; cl00670 225849008826 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 225849008827 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 225849008828 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 225849008829 TrkA-N domain; Region: TrkA_N; pfam02254 225849008830 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 225849008831 30S subunit binding site; other site 225849008832 Family 41 Carbohydrate-Binding Module from pullulanase-like enzymes; Region: CBM41_pullulanase; cd10315 225849008833 carbohydrate binding site [chemical binding]; other site 225849008834 alpha-1,6-glucosidases, pullulanase-type; Region: pullul_strch; TIGR02103 225849008835 Early set domain associated with the catalytic domain of pullulanase (also called dextrinase and alpha-dextrin endo-1,6-alpha glucosidase); Region: E_set_Pullulanase; cd02860 225849008836 Alpha amylase catalytic domain found in Pullulanase (also called dextrinase; alpha-dextrin endo-1,6-alpha glucosidase), limit dextrinase, and related proteins; Region: AmyAc_Pullulanase_LD-like; cd11341 225849008837 Ca binding site [ion binding]; other site 225849008838 active site 225849008839 catalytic site [active] 225849008840 Domain of unknown function (DUF3372); Region: DUF3372; pfam11852 225849008841 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 225849008842 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 225849008843 Early set domain associated with the catalytic domain of pullulanase-like proteins; Region: E_set_pullulanase_like; cd02861 225849008844 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 225849008845 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 225849008846 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 225849008847 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 225849008848 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 225849008849 Protein of unknown function (DUF3325); Region: DUF3325; pfam11804 225849008850 Cupin; Region: Cupin_6; pfam12852 225849008851 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225849008852 OsmC-like protein; Region: OsmC; pfam02566 225849008853 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 225849008854 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 225849008855 active site 225849008856 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 225849008857 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 225849008858 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 225849008859 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 225849008860 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 225849008861 Microcystin-dependent protein [Function unknown]; Region: MdpB; COG4675 225849008862 Phage Tail Collar Domain; Region: Collar; pfam07484 225849008863 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 225849008864 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 225849008865 Coenzyme A binding pocket [chemical binding]; other site 225849008866 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 225849008867 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 225849008868 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 225849008869 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 225849008870 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 225849008871 Transposase; Region: DEDD_Tnp_IS110; pfam01548 225849008872 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 225849008873 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 225849008874 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 225849008875 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 225849008876 putative active site [active] 225849008877 putative NTP binding site [chemical binding]; other site 225849008878 putative nucleic acid binding site [nucleotide binding]; other site 225849008879 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 225849008880 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 225849008881 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 225849008882 acyl-activating enzyme (AAE) consensus motif; other site 225849008883 AMP binding site [chemical binding]; other site 225849008884 active site 225849008885 CoA binding site [chemical binding]; other site 225849008886 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 225849008887 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 225849008888 DNA binding residues [nucleotide binding] 225849008889 putative dimer interface [polypeptide binding]; other site 225849008890 isovaleryl-CoA dehydrogenase; Region: PLN02519 225849008891 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 225849008892 substrate binding site [chemical binding]; other site 225849008893 FAD binding site [chemical binding]; other site 225849008894 catalytic base [active] 225849008895 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 225849008896 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 225849008897 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 225849008898 gamma-carboxygeranoyl-CoA hydratase; Validated; Region: PRK05674 225849008899 substrate binding site [chemical binding]; other site 225849008900 oxyanion hole (OAH) forming residues; other site 225849008901 trimer interface [polypeptide binding]; other site 225849008902 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 225849008903 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 225849008904 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 225849008905 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 225849008906 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 225849008907 carboxyltransferase (CT) interaction site; other site 225849008908 biotinylation site [posttranslational modification]; other site 225849008909 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 225849008910 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 225849008911 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 225849008912 active site 225849008913 catalytic residues [active] 225849008914 metal binding site [ion binding]; metal-binding site 225849008915 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 225849008916 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 225849008917 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225849008918 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 225849008919 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 225849008920 catalytic residues [active] 225849008921 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 225849008922 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 225849008923 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 225849008924 anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family; Region: dmsA_ynfE; TIGR02166 225849008925 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 225849008926 molybdopterin cofactor binding site; other site 225849008927 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 225849008928 molybdopterin cofactor binding site; other site 225849008929 Protein of unknown function (DUF3374); Region: DUF3374; pfam11854 225849008930 decaheme c-type cytochrome, DmsE family; Region: decahem_SO; TIGR03508 225849008931 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 225849008932 Doubled CXXCH motif (Paired_CXXCH_1); Region: Paired_CXXCH_1; pfam09699 225849008933 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225849008934 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849008935 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849008936 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849008937 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 225849008938 thymidine kinase; Provisional; Region: PRK04296 225849008939 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 225849008940 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 225849008941 active site 225849008942 Zn binding site [ion binding]; other site 225849008943 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 225849008944 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 225849008945 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 225849008946 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 225849008947 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 225849008948 Ligand binding site [chemical binding]; other site 225849008949 Electron transfer flavoprotein domain; Region: ETF; pfam01012 225849008950 H-NS histone family; Region: Histone_HNS; pfam00816 225849008951 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 225849008952 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 225849008953 active site 225849008954 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 225849008955 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the...; Region: Met_dep_hydrolase_C; cd01309 225849008956 active site 225849008957 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 225849008958 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 225849008959 active site 225849008960 outer membrane lipoprotein; Reviewed; Region: rcsF; PRK10781 225849008961 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 225849008962 homodimer interaction site [polypeptide binding]; other site 225849008963 cofactor binding site; other site 225849008964 putative acyl transferase; Provisional; Region: PRK10191 225849008965 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 225849008966 trimer interface [polypeptide binding]; other site 225849008967 active site 225849008968 substrate binding site [chemical binding]; other site 225849008969 CoA binding site [chemical binding]; other site 225849008970 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 225849008971 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849008972 Coenzyme A binding pocket [chemical binding]; other site 225849008973 Cupin domain; Region: Cupin_2; cl17218 225849008974 Protein of unknown function (DUF805); Region: DUF805; pfam05656 225849008975 prolyl-tRNA synthetase; Provisional; Region: PRK09194 225849008976 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 225849008977 dimer interface [polypeptide binding]; other site 225849008978 motif 1; other site 225849008979 active site 225849008980 motif 2; other site 225849008981 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 225849008982 putative deacylase active site [active] 225849008983 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 225849008984 active site 225849008985 motif 3; other site 225849008986 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 225849008987 anticodon binding site; other site 225849008988 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 225849008989 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 225849008990 acyl-activating enzyme (AAE) consensus motif; other site 225849008991 active site 225849008992 AMP binding site [chemical binding]; other site 225849008993 CoA binding site [chemical binding]; other site 225849008994 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 225849008995 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 225849008996 Walker A/P-loop; other site 225849008997 ATP binding site [chemical binding]; other site 225849008998 Q-loop/lid; other site 225849008999 ABC transporter signature motif; other site 225849009000 Walker B; other site 225849009001 D-loop; other site 225849009002 H-loop/switch region; other site 225849009003 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 225849009004 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 225849009005 putative ligand binding site [chemical binding]; other site 225849009006 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 225849009007 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 225849009008 TM-ABC transporter signature motif; other site 225849009009 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 225849009010 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 225849009011 TM-ABC transporter signature motif; other site 225849009012 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 225849009013 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 225849009014 acyl-activating enzyme (AAE) consensus motif; other site 225849009015 putative AMP binding site [chemical binding]; other site 225849009016 putative active site [active] 225849009017 putative CoA binding site [chemical binding]; other site 225849009018 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 225849009019 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 225849009020 Walker A/P-loop; other site 225849009021 ATP binding site [chemical binding]; other site 225849009022 Q-loop/lid; other site 225849009023 ABC transporter signature motif; other site 225849009024 Walker B; other site 225849009025 D-loop; other site 225849009026 H-loop/switch region; other site 225849009027 Porin subfamily; Region: Porin_2; pfam02530 225849009028 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 225849009029 Na binding site [ion binding]; other site 225849009030 PAS fold; Region: PAS_7; pfam12860 225849009031 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225849009032 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 225849009033 ATP binding site [chemical binding]; other site 225849009034 Mg2+ binding site [ion binding]; other site 225849009035 G-X-G motif; other site 225849009036 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 225849009037 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849009038 active site 225849009039 phosphorylation site [posttranslational modification] 225849009040 intermolecular recognition site; other site 225849009041 dimerization interface [polypeptide binding]; other site 225849009042 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 225849009043 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849009044 active site 225849009045 phosphorylation site [posttranslational modification] 225849009046 intermolecular recognition site; other site 225849009047 dimerization interface [polypeptide binding]; other site 225849009048 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 225849009049 DNA binding residues [nucleotide binding] 225849009050 dimerization interface [polypeptide binding]; other site 225849009051 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 225849009052 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 225849009053 active site 225849009054 nucleophile elbow; other site 225849009055 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 225849009056 active site 225849009057 catalytic triad [active] 225849009058 oxyanion hole [active] 225849009059 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 225849009060 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 225849009061 NAD(P) binding site [chemical binding]; other site 225849009062 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849009063 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849009064 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 225849009065 putative effector binding pocket; other site 225849009066 dimerization interface [polypeptide binding]; other site 225849009067 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 225849009068 SnoaL-like domain; Region: SnoaL_3; pfam13474 225849009069 Predicted membrane protein [Function unknown]; Region: COG2259 225849009070 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 225849009071 SnoaL-like domain; Region: SnoaL_3; pfam13474 225849009072 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 225849009073 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 225849009074 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 225849009075 TrkA-N domain; Region: TrkA_N; pfam02254 225849009076 TrkA-C domain; Region: TrkA_C; pfam02080 225849009077 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849009078 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849009079 metal binding site [ion binding]; metal-binding site 225849009080 active site 225849009081 I-site; other site 225849009082 tRNA(Ile)-lysidine synthetase; Provisional; Region: tilS; PRK10660 225849009083 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 225849009084 Ligand Binding Site [chemical binding]; other site 225849009085 TilS substrate binding domain; Region: TilS; pfam09179 225849009086 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 225849009087 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 225849009088 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 225849009089 putative active site [active] 225849009090 putative PHP Thumb interface [polypeptide binding]; other site 225849009091 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 225849009092 generic binding surface II; other site 225849009093 generic binding surface I; other site 225849009094 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 225849009095 RNA/DNA hybrid binding site [nucleotide binding]; other site 225849009096 active site 225849009097 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 225849009098 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 225849009099 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 225849009100 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 225849009101 active site 225849009102 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 225849009103 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 225849009104 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 225849009105 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 225849009106 trimer interface [polypeptide binding]; other site 225849009107 active site 225849009108 UDP-GlcNAc binding site [chemical binding]; other site 225849009109 lipid binding site [chemical binding]; lipid-binding site 225849009110 periplasmic chaperone; Provisional; Region: PRK10780 225849009111 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 225849009112 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 225849009113 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 225849009114 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 225849009115 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 225849009116 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 225849009117 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 225849009118 Surface antigen; Region: Bac_surface_Ag; pfam01103 225849009119 zinc metallopeptidase RseP; Provisional; Region: PRK10779 225849009120 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 225849009121 active site 225849009122 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 225849009123 protein binding site [polypeptide binding]; other site 225849009124 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 225849009125 protein binding site [polypeptide binding]; other site 225849009126 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 225849009127 putative substrate binding region [chemical binding]; other site 225849009128 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 225849009129 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 225849009130 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 225849009131 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 225849009132 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 225849009133 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 225849009134 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 225849009135 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 225849009136 catalytic residue [active] 225849009137 putative FPP diphosphate binding site; other site 225849009138 putative FPP binding hydrophobic cleft; other site 225849009139 dimer interface [polypeptide binding]; other site 225849009140 putative IPP diphosphate binding site; other site 225849009141 ribosome recycling factor; Reviewed; Region: frr; PRK00083 225849009142 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 225849009143 hinge region; other site 225849009144 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 225849009145 putative nucleotide binding site [chemical binding]; other site 225849009146 uridine monophosphate binding site [chemical binding]; other site 225849009147 homohexameric interface [polypeptide binding]; other site 225849009148 elongation factor Ts; Provisional; Region: tsf; PRK09377 225849009149 UBA/TS-N domain; Region: UBA; pfam00627 225849009150 Elongation factor TS; Region: EF_TS; pfam00889 225849009151 Elongation factor TS; Region: EF_TS; pfam00889 225849009152 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 225849009153 rRNA interaction site [nucleotide binding]; other site 225849009154 S8 interaction site; other site 225849009155 putative laminin-1 binding site; other site 225849009156 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 225849009157 active site 225849009158 PII uridylyl-transferase; Provisional; Region: PRK05007 225849009159 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 225849009160 metal binding triad; other site 225849009161 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 225849009162 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225849009163 Zn2+ binding site [ion binding]; other site 225849009164 Mg2+ binding site [ion binding]; other site 225849009165 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 225849009166 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 225849009167 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 225849009168 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 225849009169 trimer interface [polypeptide binding]; other site 225849009170 active site 225849009171 substrate binding site [chemical binding]; other site 225849009172 CoA binding site [chemical binding]; other site 225849009173 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 225849009174 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 225849009175 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 225849009176 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 225849009177 putative active site [active] 225849009178 putative substrate binding site [chemical binding]; other site 225849009179 putative cosubstrate binding site; other site 225849009180 catalytic site [active] 225849009181 flavodoxin; Provisional; Region: PRK08105 225849009182 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 225849009183 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 225849009184 probable active site [active] 225849009185 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 225849009186 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 225849009187 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 225849009188 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 225849009189 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849009190 Coenzyme A binding pocket [chemical binding]; other site 225849009191 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 225849009192 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 225849009193 Zn-ribbon-containing, possibly nucleic-acid-binding protein (DUF2310); Region: DUF2310; pfam10071 225849009194 SecY interacting protein Syd; Provisional; Region: PRK04968 225849009195 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 225849009196 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 225849009197 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 225849009198 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849009199 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849009200 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 225849009201 putative substrate binding pocket [chemical binding]; other site 225849009202 putative dimerization interface [polypeptide binding]; other site 225849009203 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 225849009204 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 225849009205 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 225849009206 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 225849009207 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 225849009208 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 225849009209 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 225849009210 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 225849009211 Homeodomain-like domain; Region: HTH_23; pfam13384 225849009212 Winged helix-turn helix; Region: HTH_29; pfam13551 225849009213 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 225849009214 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 225849009215 active site 225849009216 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 225849009217 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 225849009218 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 225849009219 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 225849009220 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 225849009221 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 225849009222 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 225849009223 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 225849009224 ketoreductase (KR), subgroup 2, complex (x) SDRs; Region: KR_2_SDR_x; cd08953 225849009225 This enzymatic domain is part of bacterial polyketide synthases; Region: PKS_KR; smart00822 225849009226 putative NADP binding site [chemical binding]; other site 225849009227 active site 225849009228 Acyl transferase domain; Region: Acyl_transf_1; cl08282 225849009229 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 225849009230 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 225849009231 active site 225849009232 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 225849009233 active site 225849009234 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 225849009235 active site 2 [active] 225849009236 dimer interface [polypeptide binding]; other site 225849009237 active site 1 [active] 225849009238 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 225849009239 active site 1 [active] 225849009240 dimer interface [polypeptide binding]; other site 225849009241 active site 2 [active] 225849009242 2-Nitropropane dioxygenase (NPD)-like domain, associated with the (acyl-carrier-protein) S-malonyltransferase FabD. NPD is part of the nitroalkaneoxidizing enzyme family, that catalyzes oxidative denitrification of nitroalkanes to their corresponding...; Region: NPD_FabD; cd04742 225849009243 FMN binding site [chemical binding]; other site 225849009244 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 225849009245 substrate binding site [chemical binding]; other site 225849009246 putative catalytic residue [active] 225849009247 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 225849009248 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 225849009249 dUTPase; Provisional; Region: PHA03127 225849009250 CHASE4 domain; Region: CHASE4; pfam05228 225849009251 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849009252 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849009253 metal binding site [ion binding]; metal-binding site 225849009254 active site 225849009255 I-site; other site 225849009256 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225849009257 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225849009258 Uncharacterized protein conserved in bacteria (DUF2219); Region: DUF2219; pfam09982 225849009259 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 225849009260 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 225849009261 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 225849009262 active site 225849009263 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 225849009264 Transposase; Region: DEDD_Tnp_IS110; pfam01548 225849009265 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 225849009266 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 225849009267 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 225849009268 ATP binding site [chemical binding]; other site 225849009269 Mg++ binding site [ion binding]; other site 225849009270 motif III; other site 225849009271 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 225849009272 nucleotide binding region [chemical binding]; other site 225849009273 ATP-binding site [chemical binding]; other site 225849009274 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 225849009275 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 225849009276 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 225849009277 metal binding site [ion binding]; metal-binding site 225849009278 putative dimer interface [polypeptide binding]; other site 225849009279 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 225849009280 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 225849009281 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 225849009282 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 225849009283 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225849009284 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849009285 active site 225849009286 phosphorylation site [posttranslational modification] 225849009287 intermolecular recognition site; other site 225849009288 dimerization interface [polypeptide binding]; other site 225849009289 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 225849009290 DNA binding site [nucleotide binding] 225849009291 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 225849009292 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 225849009293 ATP binding site [chemical binding]; other site 225849009294 Mg2+ binding site [ion binding]; other site 225849009295 G-X-G motif; other site 225849009296 Protein of unknown function (DUF3300); Region: DUF3300; pfam11737 225849009297 Leucine rich repeat; Region: LRR_8; pfam13855 225849009298 Leucine rich repeat; Region: LRR_8; pfam13855 225849009299 Protein kinase domain; Region: Pkinase; pfam00069 225849009300 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 225849009301 active site 225849009302 ATP binding site [chemical binding]; other site 225849009303 substrate binding site [chemical binding]; other site 225849009304 activation loop (A-loop); other site 225849009305 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 225849009306 ABC1 family; Region: ABC1; cl17513 225849009307 Protein of unknown function, DUF599; Region: DUF599; pfam04654 225849009308 hypothetical protein; Provisional; Region: PRK11038 225849009309 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 225849009310 GAF domain; Region: GAF; pfam01590 225849009311 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 225849009312 PAS domain; Region: PAS_9; pfam13426 225849009313 putative active site [active] 225849009314 heme pocket [chemical binding]; other site 225849009315 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849009316 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849009317 metal binding site [ion binding]; metal-binding site 225849009318 active site 225849009319 I-site; other site 225849009320 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 225849009321 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 225849009322 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG0390 225849009323 peptidase T; Region: peptidase-T; TIGR01882 225849009324 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 225849009325 metal binding site [ion binding]; metal-binding site 225849009326 dimer interface [polypeptide binding]; other site 225849009327 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225849009328 NAD(P) binding site [chemical binding]; other site 225849009329 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 225849009330 active site 225849009331 Family of unknown function (DUF633); Region: DUF633; pfam04816 225849009332 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_27; cd04686 225849009333 nudix motif; other site 225849009334 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 225849009335 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 225849009336 DNA binding residues [nucleotide binding] 225849009337 sodium--glutamate symport carrier (gltS); Region: gltS; TIGR00210 225849009338 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 225849009339 translation initiation factor Sui1; Validated; Region: PRK06824 225849009340 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 225849009341 putative rRNA binding site [nucleotide binding]; other site 225849009342 hypothetical protein; Validated; Region: PRK00228 225849009343 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 225849009344 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 225849009345 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225849009346 tartrate dehydrogenase; Provisional; Region: PRK08194 225849009347 isocitrate dehydrogenase; Provisional; Region: PRK08997 225849009348 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 225849009349 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 225849009350 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 225849009351 Protein of unknown function (DUF423); Region: DUF423; pfam04241 225849009352 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG3571 225849009353 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 225849009354 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849009355 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 225849009356 dimerization interface [polypeptide binding]; other site 225849009357 substrate binding pocket [chemical binding]; other site 225849009358 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 225849009359 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 225849009360 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 225849009361 Ligand Binding Site [chemical binding]; other site 225849009362 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 225849009363 active site residue [active] 225849009364 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 225849009365 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 225849009366 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225849009367 ligand binding site [chemical binding]; other site 225849009368 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 225849009369 flagellar motor protein PomA; Reviewed; Region: PRK08990 225849009370 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 225849009371 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 225849009372 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 225849009373 substrate binding pocket [chemical binding]; other site 225849009374 chain length determination region; other site 225849009375 substrate-Mg2+ binding site; other site 225849009376 catalytic residues [active] 225849009377 aspartate-rich region 1; other site 225849009378 active site lid residues [active] 225849009379 aspartate-rich region 2; other site 225849009380 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 225849009381 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 225849009382 TPP-binding site; other site 225849009383 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 225849009384 PYR/PP interface [polypeptide binding]; other site 225849009385 dimer interface [polypeptide binding]; other site 225849009386 TPP binding site [chemical binding]; other site 225849009387 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 225849009388 Domain of unknown function (DUF4189); Region: DUF4189; pfam13827 225849009389 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 225849009390 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 225849009391 dimer interface [polypeptide binding]; other site 225849009392 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 225849009393 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK03378 225849009394 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 225849009395 L-lactate permease; Region: Lactate_perm; cl00701 225849009396 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 225849009397 L-lactate permease [Energy production and conversion]; Region: LldP; COG1620 225849009398 L-lactate permease; Region: Lactate_perm; cl00701 225849009399 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 225849009400 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 225849009401 FAD binding domain; Region: FAD_binding_4; pfam01565 225849009402 4Fe-4S binding domain; Region: Fer4; pfam00037 225849009403 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 225849009404 Heterodisulfide reductase, subunit B [Energy production and conversion]; Region: HdrB; COG2048 225849009405 Cysteine-rich domain; Region: CCG; pfam02754 225849009406 Cysteine-rich domain; Region: CCG; pfam02754 225849009407 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 225849009408 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 225849009409 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 225849009410 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 225849009411 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 225849009412 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 225849009413 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 225849009414 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 225849009415 AAA domain; Region: AAA_22; pfam13401 225849009416 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 225849009417 Mechanosensitive ion channel; Region: MS_channel; pfam00924 225849009418 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 225849009419 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 225849009420 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 225849009421 DNA binding residues [nucleotide binding] 225849009422 Eukaryotic Glutathione Synthetase (eu-GS); catalyses the production of glutathione from gamma-glutamylcysteine and glycine in an ATP-dependent manner. Belongs to the ATP-grasp superfamily; Region: eu-GS; cl00170 225849009423 dimerization unit; other site 225849009424 glutathione (GSH) binding pocket [chemical binding]; other site 225849009425 active site residues [active] 225849009426 ATP binding pocket [chemical binding]; other site 225849009427 magnesium binding site [ion binding]; other site 225849009428 glycine rich loop; other site 225849009429 alanine rich loop; other site 225849009430 Bifunctional PLP-dependent enzyme with beta-cystathionase and maltose regulon repressor activities [Amino acid transport and metabolism]; Region: MalY; COG1168 225849009431 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 225849009432 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849009433 homodimer interface [polypeptide binding]; other site 225849009434 catalytic residue [active] 225849009435 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 225849009436 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 225849009437 ATP binding site [chemical binding]; other site 225849009438 Mg++ binding site [ion binding]; other site 225849009439 motif III; other site 225849009440 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 225849009441 nucleotide binding region [chemical binding]; other site 225849009442 ATP-binding site [chemical binding]; other site 225849009443 Predicted transporter component [General function prediction only]; Region: COG2391 225849009444 5TMR of 5TMR-LYT; Region: 5TM-5TMR_LYT; pfam07694 225849009445 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 225849009446 putative active site [active] 225849009447 heme pocket [chemical binding]; other site 225849009448 PAS fold; Region: PAS_3; pfam08447 225849009449 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 225849009450 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 225849009451 PAS domain; Region: PAS_9; pfam13426 225849009452 putative active site [active] 225849009453 heme pocket [chemical binding]; other site 225849009454 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849009455 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849009456 metal binding site [ion binding]; metal-binding site 225849009457 active site 225849009458 I-site; other site 225849009459 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 225849009460 OsmC-like protein; Region: OsmC; pfam02566 225849009461 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 225849009462 active site 225849009463 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849009464 metal binding site [ion binding]; metal-binding site 225849009465 active site 225849009466 I-site; other site 225849009467 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 225849009468 HDOD domain; Region: HDOD; pfam08668 225849009469 putative protease; Provisional; Region: PRK15452 225849009470 Peptidase family U32; Region: Peptidase_U32; pfam01136 225849009471 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 225849009472 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 225849009473 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 225849009474 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 225849009475 active site 225849009476 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 225849009477 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 225849009478 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 225849009479 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cl00117 225849009480 protein binding site [polypeptide binding]; other site 225849009481 Tetratricopeptide repeat; Region: TPR_12; pfam13424 225849009482 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 225849009483 binding surface 225849009484 TPR motif; other site 225849009485 Tetratricopeptide repeat; Region: TPR_12; pfam13424 225849009486 Tetratricopeptide repeat; Region: TPR_12; pfam13424 225849009487 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 225849009488 binding surface 225849009489 TPR motif; other site 225849009490 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849009491 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849009492 metal binding site [ion binding]; metal-binding site 225849009493 active site 225849009494 I-site; other site 225849009495 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 225849009496 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 225849009497 flap endonuclease-like protein; Provisional; Region: PRK09482 225849009498 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 225849009499 active site 225849009500 metal binding site 1 [ion binding]; metal-binding site 225849009501 putative 5' ssDNA interaction site; other site 225849009502 metal binding site 3; metal-binding site 225849009503 metal binding site 2 [ion binding]; metal-binding site 225849009504 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 225849009505 putative DNA binding site [nucleotide binding]; other site 225849009506 putative metal binding site [ion binding]; other site 225849009507 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 225849009508 ferrochelatase; Reviewed; Region: hemH; PRK00035 225849009509 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 225849009510 C-terminal domain interface [polypeptide binding]; other site 225849009511 active site 225849009512 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 225849009513 active site 225849009514 N-terminal domain interface [polypeptide binding]; other site 225849009515 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 225849009516 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 225849009517 Walker A motif; other site 225849009518 ATP binding site [chemical binding]; other site 225849009519 Walker B motif; other site 225849009520 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 225849009521 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 225849009522 Walker A motif; other site 225849009523 ATP binding site [chemical binding]; other site 225849009524 Walker B motif; other site 225849009525 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 225849009526 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 225849009527 catalytic residue [active] 225849009528 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 225849009529 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 225849009530 YGGT family; Region: YGGT; pfam02325 225849009531 YGGT family; Region: YGGT; pfam02325 225849009532 hypothetical protein; Validated; Region: PRK05090 225849009533 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 225849009534 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 225849009535 active site 225849009536 dimerization interface [polypeptide binding]; other site 225849009537 HemN family oxidoreductase; Provisional; Region: PRK05660 225849009538 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 225849009539 FeS/SAM binding site; other site 225849009540 HemN C-terminal domain; Region: HemN_C; pfam06969 225849009541 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 225849009542 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849009543 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849009544 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 225849009545 putative effector binding pocket; other site 225849009546 dimerization interface [polypeptide binding]; other site 225849009547 Protein of unknown function (DUF2884); Region: DUF2884; pfam11101 225849009548 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 225849009549 glutaminase; Provisional; Region: PRK00971 225849009550 hypothetical protein; Provisional; Region: PRK11702 225849009551 Methyltransferase domain; Region: Methyltransf_31; pfam13847 225849009552 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 225849009553 S-adenosylmethionine binding site [chemical binding]; other site 225849009554 adenine DNA glycosylase; Provisional; Region: PRK10880 225849009555 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 225849009556 minor groove reading motif; other site 225849009557 helix-hairpin-helix signature motif; other site 225849009558 substrate binding pocket [chemical binding]; other site 225849009559 active site 225849009560 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 225849009561 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 225849009562 DNA binding and oxoG recognition site [nucleotide binding] 225849009563 oxidative damage protection protein; Provisional; Region: PRK05408 225849009564 hypothetical protein; Provisional; Region: PRK03757 225849009565 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 225849009566 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; cl17861 225849009567 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 225849009568 Beta-lactamase; Region: Beta-lactamase; pfam00144 225849009569 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 225849009570 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 225849009571 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 225849009572 putative active site [active] 225849009573 putative NTP binding site [chemical binding]; other site 225849009574 putative nucleic acid binding site [nucleotide binding]; other site 225849009575 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 225849009576 L-fucose transporter; Provisional; Region: PRK10133; cl17665 225849009577 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4299 225849009578 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 225849009579 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 225849009580 active site 225849009581 dimer interface [polypeptide binding]; other site 225849009582 Predicted N-acetylglucosamine kinase [Carbohydrate transport and metabolism]; Region: COG2971 225849009583 Putative carbohydrate binding domain; Region: CHB_HEX; smart01081 225849009584 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 225849009585 The chitobiase of Serratia marcescens is a beta-N-1,4-acetylhexosaminidase with a glycosyl hydrolase family 20 (GH20) domain that hydrolyzes the beta-1,4-glycosidic linkages in oligomers derived from chitin. Chitin is degraded by a two step process: i) a...; Region: GH20_Sm-chitobiase-like; cd06569 225849009586 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 225849009587 active site 225849009588 C-terminal Early set domain associated with the catalytic domain of chitobiase (also called N-acetylglucosaminidase); Region: E_set_Chitobiase_C; cd02847 225849009589 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 225849009590 dimerization interface [polypeptide binding]; other site 225849009591 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225849009592 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849009593 dimer interface [polypeptide binding]; other site 225849009594 putative CheW interface [polypeptide binding]; other site 225849009595 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225849009596 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 225849009597 SapC; Region: SapC; pfam07277 225849009598 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 225849009599 Tryptophan halogenase; Region: Trp_halogenase; pfam04820 225849009600 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 225849009601 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 225849009602 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 225849009603 Transcriptional regulators [Transcription]; Region: PurR; COG1609 225849009604 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 225849009605 DNA binding site [nucleotide binding] 225849009606 domain linker motif; other site 225849009607 Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_SalR; cd01545 225849009608 putative dimerization interface [polypeptide binding]; other site 225849009609 putative ligand binding site [chemical binding]; other site 225849009610 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 225849009611 Nitrogen regulatory protein P-II; Region: P-II; smart00938 225849009612 Type II transport protein GspH; Region: GspH; pfam12019 225849009613 Type II transport protein GspH; Region: GspH; pfam12019 225849009614 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 225849009615 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 225849009616 von Willebrand factor type A domain; Region: VWA_2; pfam13519 225849009617 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 225849009618 Tfp pilus assembly protein PilW [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilW; COG4966 225849009619 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 225849009620 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 225849009621 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 225849009622 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 225849009623 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 225849009624 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 225849009625 lipoprotein signal peptidase; Provisional; Region: PRK14787 225849009626 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 225849009627 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 225849009628 active site 225849009629 HIGH motif; other site 225849009630 nucleotide binding site [chemical binding]; other site 225849009631 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 225849009632 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 225849009633 active site 225849009634 KMSKS motif; other site 225849009635 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 225849009636 tRNA binding surface [nucleotide binding]; other site 225849009637 anticodon binding site; other site 225849009638 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 225849009639 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 225849009640 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 225849009641 active site 225849009642 Riboflavin kinase; Region: Flavokinase; smart00904 225849009643 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 225849009644 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 225849009645 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 225849009646 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 225849009647 dimerization interface [polypeptide binding]; other site 225849009648 putative DNA binding site [nucleotide binding]; other site 225849009649 putative Zn2+ binding site [ion binding]; other site 225849009650 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 225849009651 PA_M28_2: Protease-associated (PA) domain, peptidase family M28, subfamily-2. A subfamily of PA-domain containing proteins belonging to the peptidase family M28. Family M28 contains aminopeptidases and carboxypeptidases, and has co-catalytic zinc ions; Region: PA_M28_2; cd04815 225849009652 PA/protease or protease-like domain interface [polypeptide binding]; other site 225849009653 M28 Zn-Peptidase Plasma glutamate carboxypeptidase; Region: M28_Pgcp_like; cd03883 225849009654 Peptidase family M28; Region: Peptidase_M28; pfam04389 225849009655 metal binding site [ion binding]; metal-binding site 225849009656 hypothetical protein; Validated; Region: PRK02101 225849009657 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 225849009658 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 225849009659 putative phosphoketolase; Provisional; Region: PRK05261 225849009660 Thiamine pyrophosphate (TPP) family, Phosphoketolase (PK) subfamily, TPP-binding module; PK catalyzes the conversion of D-xylulose 5-phosphate and phosphate to acetyl phosphate, D-glyceraldehyde-3-phosphate and H2O. This enzyme requires divalent...; Region: TPP_PK; cd02011 225849009661 TPP-binding site; other site 225849009662 XFP C-terminal domain; Region: XFP_C; pfam09363 225849009663 outer membrane protein A; Reviewed; Region: PRK10808 225849009664 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 225849009665 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225849009666 ligand binding site [chemical binding]; other site 225849009667 transaldolase-like protein; Provisional; Region: PTZ00411 225849009668 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 225849009669 active site 225849009670 dimer interface [polypeptide binding]; other site 225849009671 catalytic residue [active] 225849009672 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 225849009673 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 225849009674 active site 225849009675 dimer interface [polypeptide binding]; other site 225849009676 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 225849009677 dimer interface [polypeptide binding]; other site 225849009678 active site 225849009679 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 225849009680 Hemerythrin family; Region: Hemerythrin-like; cl15774 225849009681 endonuclease IV; Provisional; Region: PRK01060 225849009682 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cd00019 225849009683 AP (apurinic/apyrimidinic) site pocket; other site 225849009684 DNA interaction; other site 225849009685 Metal-binding active site; metal-binding site 225849009686 threonine synthase; Validated; Region: PRK09225 225849009687 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 225849009688 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 225849009689 catalytic residue [active] 225849009690 homoserine kinase; Provisional; Region: PRK01212 225849009691 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 225849009692 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 225849009693 bifunctional aspartokinase I/homoserine dehydrogenase I; Provisional; Region: thrA; PRK09436 225849009694 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 225849009695 putative catalytic residues [active] 225849009696 putative nucleotide binding site [chemical binding]; other site 225849009697 putative aspartate binding site [chemical binding]; other site 225849009698 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA-like_1; cd04921 225849009699 dimer interface [polypeptide binding]; other site 225849009700 putative threonine allosteric regulatory site; other site 225849009701 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH); Region: ACT_AKi-HSDH-ThrA_2; cd04922 225849009702 putative threonine allosteric regulatory site; other site 225849009703 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 225849009704 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 225849009705 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 225849009706 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 225849009707 Trp repressor protein; Region: Trp_repressor; cl17266 225849009708 Cytochrome C' Region: Cytochrom_C_2; pfam01322 225849009709 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 225849009710 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 225849009711 30S subunit binding site; other site 225849009712 bifunctional chorismate mutase/prephenate dehydratase; Provisional; Region: pheA; PRK10622 225849009713 chorismate mutase domain of proteobacterial P-protein, clade 1; Region: CM_P_1; TIGR01797 225849009714 Prephenate dehydratase; Region: PDT; pfam00800 225849009715 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 225849009716 putative L-Phe binding site [chemical binding]; other site 225849009717 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 225849009718 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 225849009719 Predicted membrane protein [Function unknown]; Region: COG3671 225849009720 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 225849009721 HCP oxidoreductase, NADH-dependent; Provisional; Region: PRK10684 225849009722 FAD binding pocket [chemical binding]; other site 225849009723 FAD binding motif [chemical binding]; other site 225849009724 phosphate binding motif [ion binding]; other site 225849009725 beta-alpha-beta structure motif; other site 225849009726 NAD binding pocket [chemical binding]; other site 225849009727 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 225849009728 catalytic loop [active] 225849009729 iron binding site [ion binding]; other site 225849009730 hybrid cluster protein; Provisional; Region: PRK05290 225849009731 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 225849009732 ACS interaction site; other site 225849009733 CODH interaction site; other site 225849009734 Hybrid cluster protein (HCP), formerly known as prismane, is thought to play a role in nitrogen metabolism but its specific function is unknown. HCP has three structural domains, an N-terminal alpha-helical domain, and two similar domains comprising a...; Region: HCP; cd01914 225849009735 hybrid metal cluster; other site 225849009736 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 225849009737 Chorismate mutase type II; Region: CM_2; cl00693 225849009738 prephenate dehydrogenase; Validated; Region: PRK08507 225849009739 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 225849009740 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 225849009741 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 225849009742 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 225849009743 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 225849009744 RimM N-terminal domain; Region: RimM; pfam01782 225849009745 PRC-barrel domain; Region: PRC; pfam05239 225849009746 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 225849009747 signal recognition particle protein; Provisional; Region: PRK10867 225849009748 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 225849009749 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 225849009750 P loop; other site 225849009751 GTP binding site [chemical binding]; other site 225849009752 Signal peptide binding domain; Region: SRP_SPB; pfam02978 225849009753 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 225849009754 hypothetical protein; Provisional; Region: PRK11573 225849009755 Domain of unknown function DUF21; Region: DUF21; pfam01595 225849009756 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 225849009757 Transporter associated domain; Region: CorC_HlyC; smart01091 225849009758 Protein of unknown function (DUF962); Region: DUF962; cl01879 225849009759 Uncharacterized conserved protein [Function unknown]; Region: COG1359 225849009760 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 225849009761 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 225849009762 active site 225849009763 hydrophilic channel; other site 225849009764 dimerization interface [polypeptide binding]; other site 225849009765 catalytic residues [active] 225849009766 active site lid [active] 225849009767 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 225849009768 Recombination protein O N terminal; Region: RecO_N; pfam11967 225849009769 Recombination protein O C terminal; Region: RecO_C; pfam02565 225849009770 GTPase Era; Reviewed; Region: era; PRK00089 225849009771 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 225849009772 G1 box; other site 225849009773 GTP/Mg2+ binding site [chemical binding]; other site 225849009774 Switch I region; other site 225849009775 G2 box; other site 225849009776 Switch II region; other site 225849009777 G3 box; other site 225849009778 G4 box; other site 225849009779 G5 box; other site 225849009780 KH domain; Region: KH_2; pfam07650 225849009781 ribonuclease III; Reviewed; Region: rnc; PRK00102 225849009782 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 225849009783 dimerization interface [polypeptide binding]; other site 225849009784 active site 225849009785 metal binding site [ion binding]; metal-binding site 225849009786 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 225849009787 dsRNA binding site [nucleotide binding]; other site 225849009788 signal peptidase I; Provisional; Region: PRK10861 225849009789 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 225849009790 Catalytic site [active] 225849009791 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 225849009792 Catalytic site [active] 225849009793 GTP-binding protein LepA; Provisional; Region: PRK05433 225849009794 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 225849009795 G1 box; other site 225849009796 putative GEF interaction site [polypeptide binding]; other site 225849009797 GTP/Mg2+ binding site [chemical binding]; other site 225849009798 Switch I region; other site 225849009799 G2 box; other site 225849009800 G3 box; other site 225849009801 Switch II region; other site 225849009802 G4 box; other site 225849009803 G5 box; other site 225849009804 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 225849009805 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 225849009806 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 225849009807 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 225849009808 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 225849009809 anti-sigma E factor; Provisional; Region: rseB; PRK09455 225849009810 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 225849009811 Anti sigma-E protein RseA, C-terminal domain; Region: RseA_C; pfam03873 225849009812 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 225849009813 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225849009814 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 225849009815 DNA binding residues [nucleotide binding] 225849009816 L-aspartate oxidase; Provisional; Region: PRK09077 225849009817 L-aspartate oxidase; Provisional; Region: PRK06175 225849009818 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 225849009819 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 225849009820 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849009821 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 225849009822 dimerization interface [polypeptide binding]; other site 225849009823 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09561 225849009824 thymidylate synthase; Reviewed; Region: thyA; PRK01827 225849009825 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 225849009826 dimerization interface [polypeptide binding]; other site 225849009827 active site 225849009828 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 225849009829 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 225849009830 GAF domain; Region: GAF; pfam01590 225849009831 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 225849009832 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 225849009833 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 225849009834 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 225849009835 putative active site [active] 225849009836 Ap4A binding site [chemical binding]; other site 225849009837 nudix motif; other site 225849009838 putative metal binding site [ion binding]; other site 225849009839 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 225849009840 putative DNA-binding cleft [nucleotide binding]; other site 225849009841 putative DNA clevage site; other site 225849009842 molecular lever; other site 225849009843 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 225849009844 cyclase homology domain; Region: CHD; cd07302 225849009845 nucleotidyl binding site; other site 225849009846 metal binding site [ion binding]; metal-binding site 225849009847 dimer interface [polypeptide binding]; other site 225849009848 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 225849009849 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849009850 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 225849009851 dimerization interface [polypeptide binding]; other site 225849009852 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 225849009853 putative binding surface; other site 225849009854 active site 225849009855 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 225849009856 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 225849009857 FeS/SAM binding site; other site 225849009858 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 225849009859 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 225849009860 active site 225849009861 dimer interface [polypeptide binding]; other site 225849009862 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 225849009863 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 225849009864 active site 225849009865 FMN binding site [chemical binding]; other site 225849009866 substrate binding site [chemical binding]; other site 225849009867 3Fe-4S cluster binding site [ion binding]; other site 225849009868 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 225849009869 domain interface; other site 225849009870 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 225849009871 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 225849009872 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 225849009873 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225849009874 Methyltransferase domain; Region: Methyltransf_26; pfam13659 225849009875 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 225849009876 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 225849009877 ligand binding site [chemical binding]; other site 225849009878 flexible hinge region; other site 225849009879 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 225849009880 putative switch regulator; other site 225849009881 non-specific DNA interactions [nucleotide binding]; other site 225849009882 DNA binding site [nucleotide binding] 225849009883 sequence specific DNA binding site [nucleotide binding]; other site 225849009884 putative cAMP binding site [chemical binding]; other site 225849009885 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 225849009886 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 225849009887 substrate binding site [chemical binding]; other site 225849009888 dimer interface [polypeptide binding]; other site 225849009889 ATP binding site [chemical binding]; other site 225849009890 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These...; Region: nuc_hydro_CaPnhB; cd02650 225849009891 active site 225849009892 transcriptional regulator BetI; Validated; Region: PRK00767 225849009893 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225849009894 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 225849009895 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 225849009896 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 225849009897 tetrameric interface [polypeptide binding]; other site 225849009898 NAD binding site [chemical binding]; other site 225849009899 catalytic residues [active] 225849009900 choline dehydrogenase; Validated; Region: PRK02106 225849009901 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 225849009902 BCCT family transporter; Region: BCCT; cl00569 225849009903 conserved hypothetical protein, proteobacterial; Region: gcw_chp; TIGR02001 225849009904 Transcriptional regulators [Transcription]; Region: MarR; COG1846 225849009905 MarR family; Region: MarR; pfam01047 225849009906 MarR family; Region: MarR_2; cl17246 225849009907 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 225849009908 Catalytic site [active] 225849009909 Nickel-containing superoxide dismutase; Region: Sod_Ni; pfam09055 225849009910 Protein of unknown function (DUF2753); Region: DUF2753; pfam10952 225849009911 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849009912 Coenzyme A binding pocket [chemical binding]; other site 225849009913 Inhibitor of apoptosis-promoting Bax1; Region: Bax1-I; pfam01027 225849009914 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 225849009915 Transposase; Region: DEDD_Tnp_IS110; pfam01548 225849009916 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 225849009917 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 225849009918 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 225849009919 non-specific DNA binding site [nucleotide binding]; other site 225849009920 salt bridge; other site 225849009921 sequence-specific DNA binding site [nucleotide binding]; other site 225849009922 SEFIR domain; Region: SEFIR; pfam08357 225849009923 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 225849009924 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 225849009925 Cobalamin biosynthesis protein CobD/CbiB [Coenzyme metabolism]; Region: CbiB; COG1270 225849009926 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 225849009927 hypothetical protein; Provisional; Region: PRK10578 225849009928 UPF0126 domain; Region: UPF0126; pfam03458 225849009929 UPF0126 domain; Region: UPF0126; pfam03458 225849009930 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 225849009931 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 225849009932 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 225849009933 active site 225849009934 HIGH motif; other site 225849009935 dimer interface [polypeptide binding]; other site 225849009936 KMSKS motif; other site 225849009937 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 225849009938 RNA binding surface [nucleotide binding]; other site 225849009939 putative peptidase; Provisional; Region: PRK11649 225849009940 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 225849009941 Peptidase family M23; Region: Peptidase_M23; pfam01551 225849009942 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 225849009943 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 225849009944 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225849009945 DNA binding site [nucleotide binding] 225849009946 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 225849009947 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 225849009948 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 225849009949 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 225849009950 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 225849009951 Alkaline phosphatase homologues; Region: alkPPc; smart00098 225849009952 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 225849009953 dimer interface [polypeptide binding]; other site 225849009954 active site 225849009955 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 225849009956 amphipathic channel; other site 225849009957 Asn-Pro-Ala signature motifs; other site 225849009958 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 225849009959 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 225849009960 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 225849009961 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 225849009962 Cl- selectivity filter; other site 225849009963 Cl- binding residues [ion binding]; other site 225849009964 pore gating glutamate residue; other site 225849009965 dimer interface [polypeptide binding]; other site 225849009966 Cytochrome c; Region: Cytochrom_C; cl11414 225849009967 sulfite oxidase; Provisional; Region: PLN00177 225849009968 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 225849009969 Moco binding site; other site 225849009970 metal coordination site [ion binding]; other site 225849009971 dimerization interface [polypeptide binding]; other site 225849009972 Cytochrome c553 [Energy production and conversion]; Region: COG2863 225849009973 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 225849009974 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 225849009975 dimerization interface [polypeptide binding]; other site 225849009976 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225849009977 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849009978 dimer interface [polypeptide binding]; other site 225849009979 putative CheW interface [polypeptide binding]; other site 225849009980 ornithine cyclodeaminase; Validated; Region: PRK06141 225849009981 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 225849009982 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 225849009983 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225849009984 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 225849009985 DNA binding residues [nucleotide binding] 225849009986 Uncharacterized conserved protein [Function unknown]; Region: COG3595 225849009987 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 225849009988 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849009989 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849009990 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 225849009991 dimerization interface [polypeptide binding]; other site 225849009992 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 225849009993 Peptidase S8 family domain, uncharacterized subfamily 3; Region: Peptidases_S8_3; cd04852 225849009994 active site 225849009995 catalytic triad [active] 225849009996 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 225849009997 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease from...; Region: PA_subtilisin_like; cd02120 225849009998 PA/protease or protease-like domain interface [polypeptide binding]; other site 225849009999 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 225849010000 catalytic residues [active] 225849010001 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 225849010002 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 225849010003 RNA binding surface [nucleotide binding]; other site 225849010004 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 225849010005 active site 225849010006 uracil binding [chemical binding]; other site 225849010007 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 225849010008 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 225849010009 active site 225849010010 Zn binding site [ion binding]; other site 225849010011 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 225849010012 synthetase active site [active] 225849010013 NTP binding site [chemical binding]; other site 225849010014 metal binding site [ion binding]; metal-binding site 225849010015 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 225849010016 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 225849010017 putative C-terminal domain interface [polypeptide binding]; other site 225849010018 putative GSH binding site (G-site) [chemical binding]; other site 225849010019 putative dimer interface [polypeptide binding]; other site 225849010020 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 225849010021 dimer interface [polypeptide binding]; other site 225849010022 N-terminal domain interface [polypeptide binding]; other site 225849010023 substrate binding pocket (H-site) [chemical binding]; other site 225849010024 Bacterial PH domain; Region: DUF304; pfam03703 225849010025 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 225849010026 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 225849010027 Beta-lactamase; Region: Beta-lactamase; pfam00144 225849010028 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4807 225849010029 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 225849010030 Protein of unknown function (DUF1456); Region: DUF1456; pfam07308 225849010031 malate dehydrogenase; Provisional; Region: PRK13529 225849010032 Malic enzyme, N-terminal domain; Region: malic; pfam00390 225849010033 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 225849010034 NAD(P) binding site [chemical binding]; other site 225849010035 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl17442 225849010036 thioester formation/cholesterol transfer; other site 225849010037 Protein of unknown function (DUF3069); Region: DUF3069; pfam11269 225849010038 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849010039 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849010040 metal binding site [ion binding]; metal-binding site 225849010041 active site 225849010042 I-site; other site 225849010043 epoxyqueuosine reductase; Region: TIGR00276 225849010044 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 225849010045 Dodecin; Region: Dodecin; pfam07311 225849010046 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 225849010047 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 225849010048 catalytic residues [active] 225849010049 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 225849010050 DsbA family, Com1-like subfamily; composed of proteins similar to Com1, a 27-kDa outer membrane-associated immunoreactive protein originally found in both acute and chronic disease strains of the pathogenic bacteria Coxiella burnetti. It contains a CXXC...; Region: DsbA_Com1_like; cd03023 225849010051 catalytic residues [active] 225849010052 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 225849010053 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 225849010054 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 225849010055 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 225849010056 DsbD alpha interface [polypeptide binding]; other site 225849010057 catalytic residues [active] 225849010058 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 225849010059 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 225849010060 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 225849010061 S-adenosylmethionine binding site [chemical binding]; other site 225849010062 peptide chain release factor 1; Validated; Region: prfA; PRK00591 225849010063 This domain is found in peptide chain release factors; Region: PCRF; smart00937 225849010064 RF-1 domain; Region: RF-1; pfam00472 225849010065 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 225849010066 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 225849010067 tRNA; other site 225849010068 putative tRNA binding site [nucleotide binding]; other site 225849010069 putative NADP binding site [chemical binding]; other site 225849010070 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 225849010071 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 225849010072 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 225849010073 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 225849010074 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 225849010075 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 225849010076 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 225849010077 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 225849010078 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 225849010079 active site 225849010080 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 225849010081 DNA binding site [nucleotide binding] 225849010082 decaheme c-type cytochrome, OmcA/MtrC family; Region: decahem_SO1788; TIGR03507 225849010083 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 225849010084 heme-binding residues [chemical binding]; other site 225849010085 GTP-binding protein YchF; Reviewed; Region: PRK09601 225849010086 YchF GTPase; Region: YchF; cd01900 225849010087 G1 box; other site 225849010088 GTP/Mg2+ binding site [chemical binding]; other site 225849010089 Switch I region; other site 225849010090 G2 box; other site 225849010091 Switch II region; other site 225849010092 G3 box; other site 225849010093 G4 box; other site 225849010094 G5 box; other site 225849010095 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 225849010096 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 225849010097 putative active site [active] 225849010098 catalytic residue [active] 225849010099 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Provisional; Region: PRK08849 225849010100 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 225849010101 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 225849010102 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 225849010103 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 225849010104 FeS/SAM binding site; other site 225849010105 TRAM domain; Region: TRAM; pfam01938 225849010106 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 225849010107 PhoH-like protein; Region: PhoH; pfam02562 225849010108 metal-binding heat shock protein; Provisional; Region: PRK00016 225849010109 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 225849010110 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 225849010111 Transporter associated domain; Region: CorC_HlyC; smart01091 225849010112 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 225849010113 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 225849010114 putative active site [active] 225849010115 catalytic triad [active] 225849010116 putative dimer interface [polypeptide binding]; other site 225849010117 Vibrio chemotaxis protein N terminus; Region: MCP_N; pfam05581 225849010118 Cache domain; Region: Cache_1; pfam02743 225849010119 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 225849010120 dimerization interface [polypeptide binding]; other site 225849010121 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225849010122 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849010123 Protein of unknown function (DUF1451); Region: DUF1451; pfam07295 225849010124 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 225849010125 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 225849010126 HIGH motif; other site 225849010127 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 225849010128 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 225849010129 active site 225849010130 KMSKS motif; other site 225849010131 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 225849010132 tRNA binding surface [nucleotide binding]; other site 225849010133 Lipopolysaccharide-assembly; Region: LptE; cl01125 225849010134 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 225849010135 DNA polymerase III, delta subunit; Region: holA; TIGR01128 225849010136 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 225849010137 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 225849010138 active site 225849010139 (T/H)XGH motif; other site 225849010140 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 225849010141 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 225849010142 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 225849010143 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 225849010144 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 225849010145 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 225849010146 Transglycosylase SLT domain; Region: SLT_2; pfam13406 225849010147 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 225849010148 N-acetyl-D-glucosamine binding site [chemical binding]; other site 225849010149 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 225849010150 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 225849010151 Sporulation related domain; Region: SPOR; pfam05036 225849010152 D-alanyl-D-alanine carboxypeptidase fraction A; Provisional; Region: PRK10793 225849010153 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 225849010154 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; pfam07943 225849010155 hypothetical protein; Provisional; Region: PRK04998 225849010156 lipoate-protein ligase B; Provisional; Region: PRK14342 225849010157 lipoyl synthase; Provisional; Region: PRK05481 225849010158 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 225849010159 FeS/SAM binding site; other site 225849010160 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 225849010161 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849010162 Coenzyme A binding pocket [chemical binding]; other site 225849010163 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 225849010164 DNA polymerase III psi subunit; Region: DNA_III_psi; cl11436 225849010165 glycosyl hydrolase family 16; Region: Glyco_hydrolase_16; cd00413 225849010166 active site 225849010167 catalytic residues [active] 225849010168 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 225849010169 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 225849010170 Clp amino terminal domain; Region: Clp_N; pfam02861 225849010171 Clp amino terminal domain; Region: Clp_N; pfam02861 225849010172 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 225849010173 Walker A motif; other site 225849010174 ATP binding site [chemical binding]; other site 225849010175 Walker B motif; other site 225849010176 arginine finger; other site 225849010177 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 225849010178 Walker A motif; other site 225849010179 ATP binding site [chemical binding]; other site 225849010180 Walker B motif; other site 225849010181 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 225849010182 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 225849010183 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 225849010184 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 225849010185 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 225849010186 RNA binding surface [nucleotide binding]; other site 225849010187 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 225849010188 active site 225849010189 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 225849010190 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 225849010191 active site 225849010192 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 225849010193 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 225849010194 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 225849010195 N-terminal plug; other site 225849010196 ligand-binding site [chemical binding]; other site 225849010197 Penicillinase repressor; Region: Pencillinase_R; pfam03965 225849010198 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 225849010199 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 225849010200 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 225849010201 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 225849010202 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 225849010203 Tetratricopeptide repeat; Region: TPR_12; pfam13424 225849010204 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 225849010205 binding surface 225849010206 TPR motif; other site 225849010207 TPR repeat; Region: TPR_11; pfam13414 225849010208 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 225849010209 binding surface 225849010210 TPR motif; other site 225849010211 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 225849010212 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 225849010213 Nitrogen regulatory protein P-II; Region: P-II; smart00938 225849010214 Isochorismatase family; Region: Isochorismatase; pfam00857 225849010215 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 225849010216 catalytic triad [active] 225849010217 dimer interface [polypeptide binding]; other site 225849010218 conserved cis-peptide bond; other site 225849010219 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 225849010220 nitrate/nitrite sensor protein NarQ; Provisional; Region: PRK10935 225849010221 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 225849010222 HAMP domain; Region: HAMP; pfam00672 225849010223 dimerization interface [polypeptide binding]; other site 225849010224 Histidine kinase; Region: HisKA_3; pfam07730 225849010225 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 225849010226 transcriptional regulator NarL; Provisional; Region: PRK10651 225849010227 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849010228 active site 225849010229 phosphorylation site [posttranslational modification] 225849010230 intermolecular recognition site; other site 225849010231 dimerization interface [polypeptide binding]; other site 225849010232 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 225849010233 DNA binding residues [nucleotide binding] 225849010234 dimerization interface [polypeptide binding]; other site 225849010235 Uncharacterized protein family (UPF0231); Region: UPF0231; pfam06062 225849010236 PAS domain S-box; Region: sensory_box; TIGR00229 225849010237 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 225849010238 putative active site [active] 225849010239 heme pocket [chemical binding]; other site 225849010240 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 225849010241 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 225849010242 Walker A motif; other site 225849010243 ATP binding site [chemical binding]; other site 225849010244 Walker B motif; other site 225849010245 arginine finger; other site 225849010246 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225849010247 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 225849010248 4Fe-4S binding domain; Region: Fer4_5; pfam12801 225849010249 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 225849010250 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05677 225849010251 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 225849010252 acyl-activating enzyme (AAE) consensus motif; other site 225849010253 putative AMP binding site [chemical binding]; other site 225849010254 putative active site [active] 225849010255 putative CoA binding site [chemical binding]; other site 225849010256 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 225849010257 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 225849010258 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 225849010259 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 225849010260 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849010261 Walker A/P-loop; other site 225849010262 ATP binding site [chemical binding]; other site 225849010263 Q-loop/lid; other site 225849010264 ABC transporter signature motif; other site 225849010265 Walker B; other site 225849010266 D-loop; other site 225849010267 H-loop/switch region; other site 225849010268 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 225849010269 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 225849010270 putative heme utilization carrier protein HutX; Region: HutX; TIGR04108 225849010271 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 225849010272 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 225849010273 N-terminal plug; other site 225849010274 ligand-binding site [chemical binding]; other site 225849010275 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 225849010276 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 225849010277 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 225849010278 Hemin binding protein HutB. These proteins have been shown to function as initial receptors in ABC transport of hemin and hemoproteins in many eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that share a...; Region: HutB; cd01149 225849010279 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 225849010280 putative hemin binding site; other site 225849010281 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 225849010282 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 225849010283 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 225849010284 ABC-ATPase subunit interface; other site 225849010285 dimer interface [polypeptide binding]; other site 225849010286 putative PBP binding regions; other site 225849010287 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 225849010288 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 225849010289 Walker A/P-loop; other site 225849010290 ATP binding site [chemical binding]; other site 225849010291 Q-loop/lid; other site 225849010292 ABC transporter signature motif; other site 225849010293 Walker B; other site 225849010294 D-loop; other site 225849010295 H-loop/switch region; other site 225849010296 coproporphyrinogen III oxidase; Provisional; Region: PRK09058 225849010297 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 225849010298 FeS/SAM binding site; other site 225849010299 Protein of unknown function (DUF2956); Region: DUF2956; pfam11169 225849010300 Periplasmic nitrate reductase protein NapE; Region: NapE; pfam06796 225849010301 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 225849010302 trimethylamine-N-oxide reductase c-type cytochrome TorC; Region: torC; TIGR02162 225849010303 trimethylamine N-oxide reductase I catalytic subunit; Provisional; Region: PRK15102 225849010304 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 225849010305 molybdopterin cofactor binding site [chemical binding]; other site 225849010306 substrate binding site [chemical binding]; other site 225849010307 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 225849010308 molybdopterin cofactor binding site; other site 225849010309 chaperone protein TorD; Validated; Region: torD; PRK04976 225849010310 hypothetical protein; Provisional; Region: PRK06771 225849010311 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 225849010312 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 225849010313 trimer interface [polypeptide binding]; other site 225849010314 active site 225849010315 substrate binding site [chemical binding]; other site 225849010316 CoA binding site [chemical binding]; other site 225849010317 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 225849010318 Protein of unknown function (DUF465); Region: DUF465; pfam04325 225849010319 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 225849010320 TM2 domain; Region: TM2; pfam05154 225849010321 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225849010322 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849010323 active site 225849010324 phosphorylation site [posttranslational modification] 225849010325 intermolecular recognition site; other site 225849010326 dimerization interface [polypeptide binding]; other site 225849010327 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 225849010328 DNA binding site [nucleotide binding] 225849010329 HAMP domain; Region: HAMP; pfam00672 225849010330 dimerization interface [polypeptide binding]; other site 225849010331 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 225849010332 dimer interface [polypeptide binding]; other site 225849010333 phosphorylation site [posttranslational modification] 225849010334 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 225849010335 ATP binding site [chemical binding]; other site 225849010336 Mg2+ binding site [ion binding]; other site 225849010337 G-X-G motif; other site 225849010338 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 225849010339 putative deacylase active site [active] 225849010340 Predicted transcriptional regulator [Transcription]; Region: COG3655 225849010341 sequence-specific DNA binding site [nucleotide binding]; other site 225849010342 salt bridge; other site 225849010343 Protein of unknown function (DUF2975); Region: DUF2975; pfam11188 225849010344 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 225849010345 Antidote-toxin recognition MazE; Region: Antitoxin-MazE; cl00877 225849010346 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 225849010347 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 225849010348 DNA binding site [nucleotide binding] 225849010349 hypothetical protein; Validated; Region: PRK00029 225849010350 Uncharacterized conserved protein [Function unknown]; Region: COG0397 225849010351 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 225849010352 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225849010353 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 225849010354 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 225849010355 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225849010356 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 225849010357 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 225849010358 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 225849010359 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 225849010360 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 225849010361 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 225849010362 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 225849010363 Predicted permeases [General function prediction only]; Region: COG0701 225849010364 Domain of unknown function; Region: DUF331; pfam03889 225849010365 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 225849010366 EamA-like transporter family; Region: EamA; pfam00892 225849010367 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 225849010368 DNA-binding site [nucleotide binding]; DNA binding site 225849010369 RNA-binding motif; other site 225849010370 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 225849010371 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 225849010372 catalytic site [active] 225849010373 putative active site [active] 225849010374 putative substrate binding site [chemical binding]; other site 225849010375 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 225849010376 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 225849010377 active site 225849010378 Pirin-related protein [General function prediction only]; Region: COG1741 225849010379 Pirin; Region: Pirin; pfam02678 225849010380 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 225849010381 Surface antigen; Region: Bac_surface_Ag; pfam01103 225849010382 Polysaccharide biosynthesis protein; Region: Polysacc_synt_3; pfam13440 225849010383 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 225849010384 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849010385 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849010386 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 225849010387 dimerization interface [polypeptide binding]; other site 225849010388 CHASE domain; Region: CHASE; pfam03924 225849010389 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849010390 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849010391 metal binding site [ion binding]; metal-binding site 225849010392 active site 225849010393 I-site; other site 225849010394 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 225849010395 catalytic residues [active] 225849010396 hinge region; other site 225849010397 alpha helical domain; other site 225849010398 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 225849010399 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 225849010400 Flavodoxin domain; Region: Flavodoxin_5; cl17428 225849010401 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 225849010402 Protein of unknown function (DUF1111); Region: DUF1111; pfam06537 225849010403 Imelysin; Region: Peptidase_M75; pfam09375 225849010404 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 225849010405 Major Facilitator Superfamily; Region: MFS_1; pfam07690 225849010406 putative substrate translocation pore; other site 225849010407 TIGR03899 family protein; Region: TIGR03899 225849010408 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 225849010409 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 225849010410 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 225849010411 AAA domain; Region: AAA_18; pfam13238 225849010412 ligand-binding site [chemical binding]; other site 225849010413 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 225849010414 TrkA-C domain; Region: TrkA_C; pfam02080 225849010415 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 225849010416 TrkA-C domain; Region: TrkA_C; pfam02080 225849010417 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 225849010418 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 225849010419 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 225849010420 CysD dimerization site [polypeptide binding]; other site 225849010421 G1 box; other site 225849010422 putative GEF interaction site [polypeptide binding]; other site 225849010423 GTP/Mg2+ binding site [chemical binding]; other site 225849010424 Switch I region; other site 225849010425 G2 box; other site 225849010426 G3 box; other site 225849010427 Switch II region; other site 225849010428 G4 box; other site 225849010429 G5 box; other site 225849010430 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 225849010431 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 225849010432 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 225849010433 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 225849010434 Active Sites [active] 225849010435 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 225849010436 active site 225849010437 SAM binding site [chemical binding]; other site 225849010438 homodimer interface [polypeptide binding]; other site 225849010439 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 225849010440 dimerization interface [polypeptide binding]; other site 225849010441 substrate binding site [chemical binding]; other site 225849010442 active site 225849010443 calcium binding site [ion binding]; other site 225849010444 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 225849010445 Serine/threonine protein kinase involved in cell cycle control [Signal transduction mechanisms / Cell division and chromosome partitioning]; Region: RIO1; COG1718 225849010446 RIO kinase family; RIO1, RIO3 and similar proteins, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein...; Region: RIO1_like; cd05145 225849010447 ATP binding site [chemical binding]; other site 225849010448 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 225849010449 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 225849010450 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 225849010451 ligand binding site [chemical binding]; other site 225849010452 active site 225849010453 UGI interface [polypeptide binding]; other site 225849010454 catalytic site [active] 225849010455 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 225849010456 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 225849010457 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 225849010458 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 225849010459 Ycf46; Provisional; Region: ycf46; CHL00195 225849010460 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 225849010461 Walker A motif; other site 225849010462 ATP binding site [chemical binding]; other site 225849010463 Walker B motif; other site 225849010464 arginine finger; other site 225849010465 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 225849010466 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849010467 Protein of unknown function (DUF3302); Region: DUF3302; pfam11742 225849010468 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 225849010469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225849010470 ATP-grasp domain; Region: ATP-grasp; pfam02222 225849010471 glycerate dehydrogenase; Provisional; Region: PRK06487 225849010472 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 225849010473 putative ligand binding site [chemical binding]; other site 225849010474 putative NAD binding site [chemical binding]; other site 225849010475 catalytic site [active] 225849010476 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 225849010477 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 225849010478 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 225849010479 putative metal binding site [ion binding]; other site 225849010480 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 225849010481 HSP70 interaction site [polypeptide binding]; other site 225849010482 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 225849010483 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 225849010484 Substrate binding site; other site 225849010485 metal-binding site 225849010486 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 225849010487 Phosphotransferase enzyme family; Region: APH; pfam01636 225849010488 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 225849010489 OstA-like protein; Region: OstA; cl00844 225849010490 Organic solvent tolerance protein; Region: OstA_C; pfam04453 225849010491 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 225849010492 SurA N-terminal domain; Region: SurA_N; pfam09312 225849010493 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 225849010494 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 225849010495 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 225849010496 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 225849010497 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 225849010498 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 225849010499 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 225849010500 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 225849010501 active site 225849010502 metal binding site [ion binding]; metal-binding site 225849010503 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 225849010504 dimerization interface [polypeptide binding]; other site 225849010505 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225849010506 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849010507 dimer interface [polypeptide binding]; other site 225849010508 putative CheW interface [polypeptide binding]; other site 225849010509 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 225849010510 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 225849010511 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 225849010512 NADP+ binding site [chemical binding]; other site 225849010513 folate binding site [chemical binding]; other site 225849010514 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 225849010515 Uncharacterized conserved protein [Function unknown]; Region: COG2966 225849010516 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 225849010517 GTPase CgtA; Reviewed; Region: obgE; PRK12298 225849010518 GTP1/OBG; Region: GTP1_OBG; pfam01018 225849010519 Obg GTPase; Region: Obg; cd01898 225849010520 G1 box; other site 225849010521 GTP/Mg2+ binding site [chemical binding]; other site 225849010522 Switch I region; other site 225849010523 G2 box; other site 225849010524 G3 box; other site 225849010525 Switch II region; other site 225849010526 G4 box; other site 225849010527 G5 box; other site 225849010528 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 225849010529 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 225849010530 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 225849010531 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 225849010532 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 225849010533 substrate binding pocket [chemical binding]; other site 225849010534 chain length determination region; other site 225849010535 substrate-Mg2+ binding site; other site 225849010536 catalytic residues [active] 225849010537 aspartate-rich region 1; other site 225849010538 active site lid residues [active] 225849010539 aspartate-rich region 2; other site 225849010540 malate dehydrogenase; Provisional; Region: PRK05086 225849010541 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 225849010542 NAD binding site [chemical binding]; other site 225849010543 dimerization interface [polypeptide binding]; other site 225849010544 Substrate binding site [chemical binding]; other site 225849010545 arginine repressor; Provisional; Region: PRK05066 225849010546 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 225849010547 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 225849010548 Cupin domain; Region: Cupin_2; cl17218 225849010549 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 225849010550 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 225849010551 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 225849010552 Walker A/P-loop; other site 225849010553 ATP binding site [chemical binding]; other site 225849010554 Q-loop/lid; other site 225849010555 ABC transporter signature motif; other site 225849010556 Walker B; other site 225849010557 D-loop; other site 225849010558 H-loop/switch region; other site 225849010559 TOBE domain; Region: TOBE_2; pfam08402 225849010560 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 225849010561 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 225849010562 dimer interface [polypeptide binding]; other site 225849010563 conserved gate region; other site 225849010564 putative PBP binding loops; other site 225849010565 ABC-ATPase subunit interface; other site 225849010566 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 225849010567 dimer interface [polypeptide binding]; other site 225849010568 conserved gate region; other site 225849010569 putative PBP binding loops; other site 225849010570 ABC-ATPase subunit interface; other site 225849010571 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 225849010572 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 225849010573 putative glutathione S-transferase; Provisional; Region: PRK10357 225849010574 GST_N family, unknown subfamily 3; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_3; cd03049 225849010575 putative C-terminal domain interface [polypeptide binding]; other site 225849010576 putative GSH binding site (G-site) [chemical binding]; other site 225849010577 putative dimer interface [polypeptide binding]; other site 225849010578 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 225849010579 substrate binding pocket (H-site) [chemical binding]; other site 225849010580 N-terminal domain interface [polypeptide binding]; other site 225849010581 ferredoxin-NADP reductase; Provisional; Region: PRK10926 225849010582 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 225849010583 FAD binding pocket [chemical binding]; other site 225849010584 FAD binding motif [chemical binding]; other site 225849010585 phosphate binding motif [ion binding]; other site 225849010586 beta-alpha-beta structure motif; other site 225849010587 NAD binding pocket [chemical binding]; other site 225849010588 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 225849010589 catalytic core [active] 225849010590 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 225849010591 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 225849010592 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849010593 Walker A/P-loop; other site 225849010594 ATP binding site [chemical binding]; other site 225849010595 Q-loop/lid; other site 225849010596 ABC transporter signature motif; other site 225849010597 Walker B; other site 225849010598 D-loop; other site 225849010599 H-loop/switch region; other site 225849010600 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 225849010601 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 225849010602 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 225849010603 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 225849010604 cytochrome c nitrite reductase, pentaheme subunit; Region: cyt_nit_nrfB; TIGR03146 225849010605 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849010606 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849010607 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849010608 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849010609 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 225849010610 Predicted flavoprotein [General function prediction only]; Region: COG0431 225849010611 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 225849010612 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849010613 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849010614 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 225849010615 putative effector binding pocket; other site 225849010616 dimerization interface [polypeptide binding]; other site 225849010617 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 225849010618 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 225849010619 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225849010620 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 225849010621 substrate binding pocket [chemical binding]; other site 225849010622 membrane-bound complex binding site; other site 225849010623 hinge residues; other site 225849010624 16S rRNA pseudouridylate synthase A; Provisional; Region: PRK10839 225849010625 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 225849010626 RNA binding surface [nucleotide binding]; other site 225849010627 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 225849010628 active site 225849010629 uracil binding [chemical binding]; other site 225849010630 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 225849010631 active site 225849010632 substrate binding pocket [chemical binding]; other site 225849010633 dimer interface [polypeptide binding]; other site 225849010634 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 225849010635 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 225849010636 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 225849010637 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 225849010638 Domain of unknown function (DUF1704); Region: DUF1704; pfam08014 225849010639 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 225849010640 glutathione synthetase; Provisional; Region: PRK12458 225849010641 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 225849010642 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 225849010643 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 225849010644 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 225849010645 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 225849010646 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 225849010647 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 225849010648 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 225849010649 Cytochrome c; Region: Cytochrom_C; pfam00034 225849010650 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 225849010651 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 225849010652 Cytochrome c; Region: Cytochrom_C; pfam00034 225849010653 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 225849010654 cbb3-type cytochrome c oxidase subunit I; Provisional; Region: PRK14488 225849010655 Low-spin heme binding site [chemical binding]; other site 225849010656 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 225849010657 D-pathway; other site 225849010658 Putative water exit pathway; other site 225849010659 Binuclear center (active site) [active] 225849010660 K-pathway; other site 225849010661 Putative proton exit pathway; other site 225849010662 Cytochrome c553 [Energy production and conversion]; Region: COG2863 225849010663 Arylsulfotransferase (ASST); Region: Arylsulfotrans; pfam05935 225849010664 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 225849010665 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 225849010666 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 225849010667 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225849010668 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225849010669 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 225849010670 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 225849010671 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 225849010672 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 225849010673 dimer interface [polypeptide binding]; other site 225849010674 conserved gate region; other site 225849010675 putative PBP binding loops; other site 225849010676 ABC-ATPase subunit interface; other site 225849010677 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 225849010678 dimer interface [polypeptide binding]; other site 225849010679 conserved gate region; other site 225849010680 putative PBP binding loops; other site 225849010681 ABC-ATPase subunit interface; other site 225849010682 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 225849010683 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849010684 Walker A/P-loop; other site 225849010685 ATP binding site [chemical binding]; other site 225849010686 Q-loop/lid; other site 225849010687 ABC transporter signature motif; other site 225849010688 Walker B; other site 225849010689 D-loop; other site 225849010690 H-loop/switch region; other site 225849010691 TOBE domain; Region: TOBE_2; pfam08402 225849010692 putrescine transporter subunit: periplasmic-binding component of ABC superfamily; Provisional; Region: PRK10682 225849010693 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 225849010694 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 225849010695 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 225849010696 Peptidase C26; Region: Peptidase_C26; pfam07722 225849010697 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 225849010698 catalytic triad [active] 225849010699 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 225849010700 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 225849010701 non-specific DNA binding site [nucleotide binding]; other site 225849010702 salt bridge; other site 225849010703 sequence-specific DNA binding site [nucleotide binding]; other site 225849010704 Cupin domain; Region: Cupin_2; pfam07883 225849010705 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 225849010706 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 225849010707 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 225849010708 putative acetyltransferase; Provisional; Region: PRK03624 225849010709 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849010710 Coenzyme A binding pocket [chemical binding]; other site 225849010711 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 225849010712 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225849010713 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849010714 Coenzyme A binding pocket [chemical binding]; other site 225849010715 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 225849010716 Helix-turn-helix domain; Region: HTH_18; pfam12833 225849010717 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 225849010718 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 225849010719 Integrase core domain; Region: rve; pfam00665 225849010720 Integrase core domain; Region: rve_3; pfam13683 225849010721 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 225849010722 Transposase; Region: HTH_Tnp_1; pfam01527 225849010723 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 225849010724 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 225849010725 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 225849010726 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 225849010727 gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK09847 225849010728 Escherichia coli NADP+-dependent gamma-glutamyl-gamma-aminobutyraldehyde dehydrogenase PuuC-like; Region: ALDH_GABALDH-PuuC; cd07112 225849010729 NAD(P) binding site [chemical binding]; other site 225849010730 catalytic residues [active] 225849010731 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 225849010732 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 225849010733 inhibitor-cofactor binding pocket; inhibition site 225849010734 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849010735 catalytic residue [active] 225849010736 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 225849010737 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 225849010738 tetrameric interface [polypeptide binding]; other site 225849010739 NAD binding site [chemical binding]; other site 225849010740 catalytic residues [active] 225849010741 Predicted enzyme of the cupin superfamily [General function prediction only]; Region: COG3450 225849010742 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 225849010743 Protein of unknown function (DUF3634); Region: DUF3634; pfam12321 225849010744 Domain of unknown function (DUF368); Region: DUF368; pfam04018 225849010745 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 225849010746 CoenzymeA binding site [chemical binding]; other site 225849010747 subunit interaction site [polypeptide binding]; other site 225849010748 PHB binding site; other site 225849010749 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 225849010750 dimerization interface [polypeptide binding]; other site 225849010751 putative DNA binding site [nucleotide binding]; other site 225849010752 putative Zn2+ binding site [ion binding]; other site 225849010753 Transcriptional activator [Transcription]; Region: ChrR; COG3806 225849010754 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 225849010755 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 225849010756 Protein of unknown function (DUF1294); Region: DUF1294; cl01311 225849010757 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 225849010758 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 225849010759 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 225849010760 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 225849010761 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 225849010762 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cl00279 225849010763 active site 225849010764 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 225849010765 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 225849010766 Major Facilitator Superfamily; Region: MFS_1; pfam07690 225849010767 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 225849010768 putative substrate translocation pore; other site 225849010769 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 225849010770 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 225849010771 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 225849010772 active site 225849010773 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 225849010774 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 225849010775 ATP binding site [chemical binding]; other site 225849010776 Mg++ binding site [ion binding]; other site 225849010777 motif III; other site 225849010778 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 225849010779 nucleotide binding region [chemical binding]; other site 225849010780 ATP-binding site [chemical binding]; other site 225849010781 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 225849010782 putative catalytic residues [active] 225849010783 Protein of unknown function (DUF2913); Region: DUF2913; pfam11140 225849010784 Peptidase S8 family domain in Subtilisin proteins; Region: Peptidases_S8_Subtilisin_subset; cd07477 225849010785 active site 225849010786 catalytic residues [active] 225849010787 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 225849010788 PA/protease or protease-like domain interface [polypeptide binding]; other site 225849010789 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 225849010790 catalytic residues [active] 225849010791 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 225849010792 Band_7_flotillin: a subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 225849010793 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 225849010794 DsrE/DsrF-like family; Region: DrsE; pfam02635 225849010795 Zn-dependent carboxypeptidase [Amino acid transport and metabolism]; Region: COG2317 225849010796 Peptidase family M32 includes thermostable carboxypeptidases TaqCP and PfuCP; Region: M32_Taq; cd06460 225849010797 active site 225849010798 Zn binding site [ion binding]; other site 225849010799 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 225849010800 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849010801 Coenzyme A binding pocket [chemical binding]; other site 225849010802 Protein of unknown function (DUF2960); Region: DUF2960; pfam11173 225849010803 RDD family; Region: RDD; pfam06271 225849010804 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 225849010805 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 225849010806 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 225849010807 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 225849010808 multifunctional aminopeptidase A; Provisional; Region: PRK00913 225849010809 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 225849010810 interface (dimer of trimers) [polypeptide binding]; other site 225849010811 Substrate-binding/catalytic site; other site 225849010812 Zn-binding sites [ion binding]; other site 225849010813 Transposase; Region: DEDD_Tnp_IS110; pfam01548 225849010814 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 225849010815 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 225849010816 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 225849010817 DHH family; Region: DHH; pfam01368 225849010818 DHHA1 domain; Region: DHHA1; pfam02272 225849010819 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 225849010820 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 225849010821 dimerization domain [polypeptide binding]; other site 225849010822 dimer interface [polypeptide binding]; other site 225849010823 catalytic residues [active] 225849010824 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 225849010825 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 225849010826 active site 225849010827 Int/Topo IB signature motif; other site 225849010828 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 225849010829 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 225849010830 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 225849010831 S-adenosylmethionine binding site [chemical binding]; other site 225849010832 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 225849010833 DEAD-like helicases superfamily; Region: DEXDc; smart00487 225849010834 ATP binding site [chemical binding]; other site 225849010835 Mg++ binding site [ion binding]; other site 225849010836 motif III; other site 225849010837 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 225849010838 nucleotide binding region [chemical binding]; other site 225849010839 ATP-binding site [chemical binding]; other site 225849010840 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849010841 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849010842 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225849010843 Protein export membrane protein; Region: SecD_SecF; cl14618 225849010844 radical SAM protein, TatD family-associated; Region: tatD_link_rSAM; TIGR04038 225849010845 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 225849010846 FeS/SAM binding site; other site 225849010847 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 225849010848 PAS domain; Region: PAS_9; pfam13426 225849010849 putative active site [active] 225849010850 heme pocket [chemical binding]; other site 225849010851 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849010852 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849010853 Protein of unknown function, DUF481; Region: DUF481; pfam04338 225849010854 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 225849010855 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 225849010856 intersubunit interface [polypeptide binding]; other site 225849010857 active site 225849010858 zinc binding site [ion binding]; other site 225849010859 Na+ binding site [ion binding]; other site 225849010860 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 225849010861 Phosphoglycerate kinase; Region: PGK; pfam00162 225849010862 substrate binding site [chemical binding]; other site 225849010863 hinge regions; other site 225849010864 ADP binding site [chemical binding]; other site 225849010865 catalytic site [active] 225849010866 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 225849010867 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 225849010868 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 225849010869 transketolase; Reviewed; Region: PRK12753 225849010870 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 225849010871 TPP-binding site [chemical binding]; other site 225849010872 dimer interface [polypeptide binding]; other site 225849010873 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 225849010874 PYR/PP interface [polypeptide binding]; other site 225849010875 dimer interface [polypeptide binding]; other site 225849010876 TPP binding site [chemical binding]; other site 225849010877 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 225849010878 S-adenosylmethionine synthetase; Validated; Region: PRK05250 225849010879 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 225849010880 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 225849010881 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 225849010882 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849010883 Coenzyme A binding pocket [chemical binding]; other site 225849010884 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 225849010885 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 225849010886 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849010887 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849010888 metal binding site [ion binding]; metal-binding site 225849010889 active site 225849010890 I-site; other site 225849010891 META domain; Region: META; pfam03724 225849010892 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 225849010893 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 225849010894 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 225849010895 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849010896 Coenzyme A binding pocket [chemical binding]; other site 225849010897 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 225849010898 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 225849010899 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 225849010900 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 225849010901 serine transporter; Region: stp; TIGR00814 225849010902 inosine/xanthosine triphosphatase; Reviewed; Region: PRK05074 225849010903 MarR family; Region: MarR_2; pfam12802 225849010904 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 225849010905 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849010906 Coenzyme A binding pocket [chemical binding]; other site 225849010907 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 225849010908 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 225849010909 active site 225849010910 catalytic tetrad [active] 225849010911 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 225849010912 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 225849010913 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 225849010914 catalytic residue [active] 225849010915 Fe-S metabolism associated domain; Region: SufE; cl00951 225849010916 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 225849010917 DctM-like transporters; Region: DctM; pfam06808 225849010918 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 225849010919 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 225849010920 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 225849010921 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 225849010922 active site 225849010923 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 225849010924 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 225849010925 Predicted ATPase [General function prediction only]; Region: COG4637 225849010926 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849010927 Walker A/P-loop; other site 225849010928 Pleckstrin homology (PH)-like domains in bacteria (PHb); Region: PH-like_bacteria; cd13225 225849010929 pentamer interface [polypeptide binding]; other site 225849010930 dodecaamer interface [polypeptide binding]; other site 225849010931 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 225849010932 Peptidase family U32; Region: Peptidase_U32; pfam01136 225849010933 Collagenase; Region: DUF3656; pfam12392 225849010934 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; pfam09855 225849010935 Cupin domain; Region: Cupin_2; cl17218 225849010936 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 225849010937 GAF domain; Region: GAF; pfam01590 225849010938 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 225849010939 Walker A motif; other site 225849010940 ATP binding site [chemical binding]; other site 225849010941 Walker B motif; other site 225849010942 arginine finger; other site 225849010943 NnrS protein; Region: NnrS; pfam05940 225849010944 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 225849010945 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 225849010946 heme-binding site [chemical binding]; other site 225849010947 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 225849010948 FAD binding pocket [chemical binding]; other site 225849010949 FAD binding motif [chemical binding]; other site 225849010950 phosphate binding motif [ion binding]; other site 225849010951 beta-alpha-beta structure motif; other site 225849010952 NAD binding pocket [chemical binding]; other site 225849010953 Heme binding pocket [chemical binding]; other site 225849010954 Iodotyrosine dehalogenase catalyzes the removal of iodine from the 3, 5 positions of L-tyosine in thyroid, liver and kidney, using NADPH as electron donor. This enzyme is a homolog of the nitroreductase family. These enzymes are usually homodimers; Region: iodotyrosine_dehalogenase; cd02144 225849010955 putative FMN binding site [chemical binding]; other site 225849010956 putative dimer interface [polypeptide binding]; other site 225849010957 MAPEG family; Region: MAPEG; cl09190 225849010958 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 225849010959 putative hydrophobic ligand binding site [chemical binding]; other site 225849010960 6-phosphogluconolactonase/Glucosamine-6-phosphate isomerase/deaminase [Carbohydrate transport and metabolism]; Region: NagB; COG0363 225849010961 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 225849010962 active site 225849010963 trimer interface [polypeptide binding]; other site 225849010964 allosteric site; other site 225849010965 active site lid [active] 225849010966 hexamer (dimer of trimers) interface [polypeptide binding]; other site 225849010967 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 225849010968 pseudouridine synthase; Region: TIGR00093 225849010969 active site 225849010970 PAS domain; Region: PAS_9; pfam13426 225849010971 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 225849010972 PAS domain; Region: PAS_9; pfam13426 225849010973 putative active site [active] 225849010974 heme pocket [chemical binding]; other site 225849010975 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849010976 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849010977 metal binding site [ion binding]; metal-binding site 225849010978 active site 225849010979 I-site; other site 225849010980 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 225849010981 putative membrane-bound dehydrogenase domain; Region: Piru_Ver_Nterm; TIGR02604 225849010982 Domon-like ligand-binding domains; Region: DOMON_like; cd00241 225849010983 putative ligand binding site [chemical binding]; other site 225849010984 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 225849010985 AAA domain; Region: AAA_33; pfam13671 225849010986 ATP-binding site [chemical binding]; other site 225849010987 Gluconate-6-phosphate binding site [chemical binding]; other site 225849010988 Glycoside hydrolase family 94 N-terminal-like domain of NdvB-like proteins; Region: GH94N_NdvB_like; cd11748 225849010989 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 225849010990 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 225849010991 MFS/sugar transport protein; Region: MFS_2; pfam13347 225849010992 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 225849010993 putative substrate translocation pore; other site 225849010994 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849010995 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849010996 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 225849010997 putative effector binding pocket; other site 225849010998 dimerization interface [polypeptide binding]; other site 225849010999 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 225849011000 putative NAD(P) binding site [chemical binding]; other site 225849011001 homodimer interface [polypeptide binding]; other site 225849011002 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 225849011003 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 225849011004 dimer interface [polypeptide binding]; other site 225849011005 putative anticodon binding site; other site 225849011006 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 225849011007 motif 1; other site 225849011008 active site 225849011009 motif 2; other site 225849011010 motif 3; other site 225849011011 This domain is found in peptide chain release factors; Region: PCRF; smart00937 225849011012 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 225849011013 RF-1 domain; Region: RF-1; pfam00472 225849011014 Pentapeptide repeats containing protein [Function unknown]; Region: COG1357 225849011015 Pentapeptide repeats (8 copies); Region: Pentapeptide; pfam00805 225849011016 Ion channel; Region: Ion_trans_2; pfam07885 225849011017 HTH-like domain; Region: HTH_21; pfam13276 225849011018 Integrase core domain; Region: rve; pfam00665 225849011019 Integrase core domain; Region: rve_2; pfam13333 225849011020 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 225849011021 Transposase; Region: HTH_Tnp_1; pfam01527 225849011022 RDD family; Region: RDD; pfam06271 225849011023 Uncharacterized conserved protein [Function unknown]; Region: COG1359 225849011024 putative NADPH-dependent glutamate synthase small subunit; Provisional; Region: PRK12814 225849011025 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 225849011026 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 225849011027 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225849011028 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 225849011029 4Fe-4S binding domain; Region: Fer4; pfam00037 225849011030 formate dehydrogenase, alpha subunit, archaeal-type; Region: Fdh-alpha; TIGR01591 225849011031 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 225849011032 [4Fe-4S] binding site [ion binding]; other site 225849011033 molybdopterin cofactor binding site; other site 225849011034 Molybdopterin-Binding, C-terminal (MopB_CT) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum-...; Region: MopB_CT; cl09929 225849011035 molybdopterin cofactor binding site; other site 225849011036 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 225849011037 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 225849011038 Chromate transporter; Region: Chromate_transp; pfam02417 225849011039 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 225849011040 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 225849011041 MarR family; Region: MarR; pfam01047 225849011042 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 225849011043 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 225849011044 catalytic residues [active] 225849011045 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849011046 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849011047 metal binding site [ion binding]; metal-binding site 225849011048 active site 225849011049 I-site; other site 225849011050 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 225849011051 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 225849011052 catalytic residue [active] 225849011053 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 225849011054 catalytic residues [active] 225849011055 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 225849011056 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225849011057 peroxiredoxin; Region: AhpC; TIGR03137 225849011058 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 225849011059 dimer interface [polypeptide binding]; other site 225849011060 decamer (pentamer of dimers) interface [polypeptide binding]; other site 225849011061 catalytic triad [active] 225849011062 peroxidatic and resolving cysteines [active] 225849011063 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 225849011064 Domain of unknown function (DUF3332); Region: DUF3332; pfam11810 225849011065 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 225849011066 D-Lactate and related Dehydrogenases, NAD-binding and catalytic domains; Region: LDH_like_2; cd12183 225849011067 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 225849011068 putative ligand binding site [chemical binding]; other site 225849011069 putative NAD binding site [chemical binding]; other site 225849011070 catalytic site [active] 225849011071 Methyltransferase domain; Region: Methyltransf_23; pfam13489 225849011072 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 225849011073 S-adenosylmethionine binding site [chemical binding]; other site 225849011074 Protein of unknown function (DUF1326); Region: DUF1326; pfam07040 225849011075 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 225849011076 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 225849011077 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 225849011078 active site 225849011079 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 225849011080 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 225849011081 putative DNA binding site [nucleotide binding]; other site 225849011082 putative Zn2+ binding site [ion binding]; other site 225849011083 AsnC family; Region: AsnC_trans_reg; pfam01037 225849011084 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 225849011085 PA_subtilisin_1: Protease-associated domain containing subtilisin-like proteases, subgroup 1. A subgroup of PA domain-containing subtilisin-like proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined; Region: PA_subtilisin_1; cd04818 225849011086 PA/protease or protease-like domain interface [polypeptide binding]; other site 225849011087 Peptidase M36 family also known as fungalysin family; Region: M36; cd09596 225849011088 Zn binding site [ion binding]; other site 225849011089 GlyGly-CTERM domain; Region: GlyGly_CTERM; TIGR03501 225849011090 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like subfamily; subgroup includes Pseudomonas aeruginosa AotO; Region: M14_PaAOTO_like; cd06250 225849011091 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 225849011092 active site 225849011093 Zn binding site [ion binding]; other site 225849011094 aspartate kinase III; Validated; Region: PRK09084 225849011095 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 225849011096 nucleotide binding site [chemical binding]; other site 225849011097 substrate binding site [chemical binding]; other site 225849011098 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 225849011099 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 225849011100 dimer interface [polypeptide binding]; other site 225849011101 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 225849011102 two-component response regulator; Provisional; Region: PRK11173 225849011103 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849011104 active site 225849011105 phosphorylation site [posttranslational modification] 225849011106 intermolecular recognition site; other site 225849011107 dimerization interface [polypeptide binding]; other site 225849011108 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 225849011109 DNA binding site [nucleotide binding] 225849011110 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 225849011111 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225849011112 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 225849011113 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 225849011114 AMP binding site [chemical binding]; other site 225849011115 metal binding site [ion binding]; metal-binding site 225849011116 active site 225849011117 DoxX-like family; Region: DoxX_2; pfam13564 225849011118 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849011119 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849011120 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 225849011121 putative effector binding pocket; other site 225849011122 dimerization interface [polypeptide binding]; other site 225849011123 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 225849011124 heme-binding residues [chemical binding]; other site 225849011125 L-aspartate oxidase; Provisional; Region: PRK06175 225849011126 flavocytochrome c; Region: flavo_cyto_c; TIGR01813 225849011127 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225849011128 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 225849011129 substrate binding pocket [chemical binding]; other site 225849011130 membrane-bound complex binding site; other site 225849011131 hinge residues; other site 225849011132 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 225849011133 ATP binding site [chemical binding]; other site 225849011134 G-X-G motif; other site 225849011135 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 225849011136 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849011137 active site 225849011138 phosphorylation site [posttranslational modification] 225849011139 intermolecular recognition site; other site 225849011140 dimerization interface [polypeptide binding]; other site 225849011141 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 225849011142 Walker A motif; other site 225849011143 ATP binding site [chemical binding]; other site 225849011144 Walker B motif; other site 225849011145 arginine finger; other site 225849011146 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225849011147 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 225849011148 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 225849011149 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 225849011150 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 225849011151 amino acid carrier protein; Region: agcS; TIGR00835 225849011152 Protein of unknown function (DUF3581); Region: DUF3581; pfam12119 225849011153 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 225849011154 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849011155 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849011156 LysR substrate binding domain; Region: LysR_substrate; pfam03466 225849011157 dimerization interface [polypeptide binding]; other site 225849011158 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 225849011159 classical (c) SDRs; Region: SDR_c; cd05233 225849011160 NAD(P) binding site [chemical binding]; other site 225849011161 active site 225849011162 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_1; cd02199 225849011163 homotrimer interaction site [polypeptide binding]; other site 225849011164 putative active site [active] 225849011165 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 225849011166 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 225849011167 FMN-binding domain; Region: FMN_bind; pfam04205 225849011168 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 225849011169 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 225849011170 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849011171 dimerization interface [polypeptide binding]; other site 225849011172 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849011173 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849011174 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 225849011175 Lin1944 and related proteins, classical (c) SDRs; Region: Lin1944_like_SDR_c; cd11731 225849011176 short chain dehydrogenase; Provisional; Region: PRK07041 225849011177 putative NAD(P) binding site [chemical binding]; other site 225849011178 homodimer interface [polypeptide binding]; other site 225849011179 Methyltransferase domain; Region: Methyltransf_23; pfam13489 225849011180 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 225849011181 S-adenosylmethionine binding site [chemical binding]; other site 225849011182 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 225849011183 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 225849011184 C-terminal domain interface [polypeptide binding]; other site 225849011185 GSH binding site (G-site) [chemical binding]; other site 225849011186 dimer interface [polypeptide binding]; other site 225849011187 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 225849011188 N-terminal domain interface [polypeptide binding]; other site 225849011189 dimer interface [polypeptide binding]; other site 225849011190 substrate binding pocket (H-site) [chemical binding]; other site 225849011191 Alkyl sulfatase and related hydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2015 225849011192 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 225849011193 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 225849011194 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849011195 The C-terminal substrate binding domain of LysR-type transcriptional regulator LeuO, an activator of leucine synthesis operon, contains the type 2 periplasmic binding fold; Region: PBP2_LeuO; cd08466 225849011196 putative substrate binding pocket [chemical binding]; other site 225849011197 putative dimerization interface [polypeptide binding]; other site 225849011198 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 225849011199 Transglycosylase; Region: Transgly; pfam00912 225849011200 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 225849011201 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 225849011202 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 225849011203 ATP binding site [chemical binding]; other site 225849011204 putative Mg++ binding site [ion binding]; other site 225849011205 helicase superfamily c-terminal domain; Region: HELICc; smart00490 225849011206 Helicase associated domain (HA2) Add an annotation; Region: HA2; smart00847 225849011207 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 225849011208 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 225849011209 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 225849011210 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 225849011211 DNA binding site [nucleotide binding] 225849011212 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849011213 active site 225849011214 phosphorylation site [posttranslational modification] 225849011215 intermolecular recognition site; other site 225849011216 aminopeptidase B; Provisional; Region: PRK05015 225849011217 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 225849011218 interface (dimer of trimers) [polypeptide binding]; other site 225849011219 Substrate-binding/catalytic site; other site 225849011220 Zn-binding sites [ion binding]; other site 225849011221 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 225849011222 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 225849011223 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 225849011224 tRNA synthetases class I (E and Q), catalytic domain; Region: tRNA-synt_1c; pfam00749 225849011225 active site 225849011226 HIGH motif; other site 225849011227 nucleotide binding site [chemical binding]; other site 225849011228 active site 225849011229 KMSKS motif; other site 225849011230 poly(A) polymerase; Region: pcnB; TIGR01942 225849011231 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 225849011232 active site 225849011233 NTP binding site [chemical binding]; other site 225849011234 metal binding triad [ion binding]; metal-binding site 225849011235 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 225849011236 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 225849011237 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 225849011238 catalytic center binding site [active] 225849011239 ATP binding site [chemical binding]; other site 225849011240 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 225849011241 oligomerization interface [polypeptide binding]; other site 225849011242 active site 225849011243 metal binding site [ion binding]; metal-binding site 225849011244 pantoate--beta-alanine ligase; Region: panC; TIGR00018 225849011245 Pantoate-beta-alanine ligase; Region: PanC; cd00560 225849011246 active site 225849011247 ATP-binding site [chemical binding]; other site 225849011248 pantoate-binding site; other site 225849011249 HXXH motif; other site 225849011250 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 225849011251 protein structure with unknown function; Region: DUF4144; pfam13642 225849011252 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 225849011253 inner membrane transport permease; Provisional; Region: PRK15066 225849011254 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 225849011255 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849011256 Walker A/P-loop; other site 225849011257 ATP binding site [chemical binding]; other site 225849011258 Q-loop/lid; other site 225849011259 ABC transporter signature motif; other site 225849011260 Walker B; other site 225849011261 D-loop; other site 225849011262 H-loop/switch region; other site 225849011263 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 225849011264 active site 225849011265 aromatic acid decarboxylase; Validated; Region: PRK05920 225849011266 Flavoprotein; Region: Flavoprotein; pfam02441 225849011267 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 225849011268 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 225849011269 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 225849011270 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 225849011271 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 225849011272 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 225849011273 Sulfate transporter family; Region: Sulfate_transp; pfam00916 225849011274 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 225849011275 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 225849011276 Ligand Binding Site [chemical binding]; other site 225849011277 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 225849011278 Ligand Binding Site [chemical binding]; other site 225849011279 anaerobic C4-dicarboxylate transporter; Reviewed; Region: PRK12489 225849011280 Anaerobic C4-dicarboxylate transporter [General function prediction only]; Region: DcuB; COG2704 225849011281 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 225849011282 putative FMN binding site [chemical binding]; other site 225849011283 Uncharacterized conserved protein [Function unknown]; Region: COG2968 225849011284 oxidative stress defense protein; Provisional; Region: PRK11087 225849011285 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 225849011286 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 225849011287 eyelet of channel; other site 225849011288 trimer interface [polypeptide binding]; other site 225849011289 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849011290 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849011291 metal binding site [ion binding]; metal-binding site 225849011292 active site 225849011293 I-site; other site 225849011294 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 225849011295 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 225849011296 homodimer interface [polypeptide binding]; other site 225849011297 substrate-cofactor binding pocket; other site 225849011298 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849011299 catalytic residue [active] 225849011300 Protein of unknown function (DUF3087); Region: DUF3087; pfam11286 225849011301 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 225849011302 Tetratricopeptide repeat; Region: TPR_12; pfam13424 225849011303 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 225849011304 TPR motif; other site 225849011305 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849011306 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849011307 metal binding site [ion binding]; metal-binding site 225849011308 active site 225849011309 I-site; other site 225849011310 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 225849011311 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 225849011312 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225849011313 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 225849011314 Protein of unknown function (DUF998); Region: DUF998; pfam06197 225849011315 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 225849011316 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 225849011317 RNA binding surface [nucleotide binding]; other site 225849011318 Pseudouridine synthase, Escherichia coli RluF like; Region: PseudoU_synth_RluF; cd02554 225849011319 probable active site [active] 225849011320 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 225849011321 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 225849011322 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cl17320 225849011323 Peptidase S46; Region: Peptidase_S46; pfam10459 225849011324 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 225849011325 aromatic amino acid transport protein; Region: araaP; TIGR00837 225849011326 Predicted membrane protein [Function unknown]; Region: COG2119 225849011327 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 225849011328 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 225849011329 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 225849011330 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 225849011331 tetramer interface [polypeptide binding]; other site 225849011332 heme binding pocket [chemical binding]; other site 225849011333 NADPH binding site [chemical binding]; other site 225849011334 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 225849011335 CoenzymeA binding site [chemical binding]; other site 225849011336 subunit interaction site [polypeptide binding]; other site 225849011337 PHB binding site; other site 225849011338 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 225849011339 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 225849011340 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 225849011341 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 225849011342 Nucleoside recognition; Region: Gate; pfam07670 225849011343 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 225849011344 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 225849011345 Escherichia coli UshA and related proteins, N-terminal metallophosphatase domain; Region: MPP_UshA_N; cd07405 225849011346 active site 225849011347 metal binding site [ion binding]; metal-binding site 225849011348 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 225849011349 Lamin Tail Domain; Region: LTD; pfam00932 225849011350 Endonuclease I; Region: Endonuclease_1; pfam04231 225849011351 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 225849011352 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 225849011353 generic binding surface I; other site 225849011354 generic binding surface II; other site 225849011355 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 225849011356 putative catalytic site [active] 225849011357 putative metal binding site [ion binding]; other site 225849011358 putative phosphate binding site [ion binding]; other site 225849011359 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 225849011360 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 225849011361 DNA binding residues [nucleotide binding] 225849011362 dimerization interface [polypeptide binding]; other site 225849011363 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 225849011364 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 225849011365 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 225849011366 ligand binding site [chemical binding]; other site 225849011367 NAD binding site [chemical binding]; other site 225849011368 tetramer interface [polypeptide binding]; other site 225849011369 catalytic site [active] 225849011370 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 225849011371 L-serine binding site [chemical binding]; other site 225849011372 ACT domain interface; other site 225849011373 putative global regulator; Reviewed; Region: PRK09559 225849011374 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 225849011375 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 225849011376 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849011377 active site 225849011378 phosphorylation site [posttranslational modification] 225849011379 intermolecular recognition site; other site 225849011380 dimerization interface [polypeptide binding]; other site 225849011381 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225849011382 Zn2+ binding site [ion binding]; other site 225849011383 Mg2+ binding site [ion binding]; other site 225849011384 HAMP domain; Region: HAMP; pfam00672 225849011385 PAS domain; Region: PAS_9; pfam13426 225849011386 PAS domain S-box; Region: sensory_box; TIGR00229 225849011387 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 225849011388 putative active site [active] 225849011389 heme pocket [chemical binding]; other site 225849011390 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 225849011391 PAS fold; Region: PAS_3; pfam08447 225849011392 putative active site [active] 225849011393 heme pocket [chemical binding]; other site 225849011394 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 225849011395 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 225849011396 putative active site [active] 225849011397 heme pocket [chemical binding]; other site 225849011398 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 225849011399 putative active site [active] 225849011400 heme pocket [chemical binding]; other site 225849011401 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225849011402 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 225849011403 dimer interface [polypeptide binding]; other site 225849011404 phosphorylation site [posttranslational modification] 225849011405 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 225849011406 ATP binding site [chemical binding]; other site 225849011407 Mg2+ binding site [ion binding]; other site 225849011408 G-X-G motif; other site 225849011409 Response regulator receiver domain; Region: Response_reg; pfam00072 225849011410 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849011411 active site 225849011412 phosphorylation site [posttranslational modification] 225849011413 intermolecular recognition site; other site 225849011414 dimerization interface [polypeptide binding]; other site 225849011415 Response regulator receiver domain; Region: Response_reg; pfam00072 225849011416 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849011417 active site 225849011418 phosphorylation site [posttranslational modification] 225849011419 intermolecular recognition site; other site 225849011420 dimerization interface [polypeptide binding]; other site 225849011421 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 225849011422 putative binding surface; other site 225849011423 active site 225849011424 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 225849011425 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 225849011426 Walker A/P-loop; other site 225849011427 ATP binding site [chemical binding]; other site 225849011428 Q-loop/lid; other site 225849011429 ABC transporter signature motif; other site 225849011430 Walker B; other site 225849011431 D-loop; other site 225849011432 H-loop/switch region; other site 225849011433 FtsX-like permease family; Region: FtsX; pfam02687 225849011434 FtsX-like permease family; Region: FtsX; pfam02687 225849011435 Hydroxyneurosporene synthase (CrtC); Region: CrtC; cl12101 225849011436 NapD protein; Region: NapD; pfam03927 225849011437 nitrate reductase catalytic subunit; Provisional; Region: PRK13532 225849011438 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 225849011439 [4Fe-4S] binding site [ion binding]; other site 225849011440 molybdopterin cofactor binding site; other site 225849011441 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 225849011442 molybdopterin cofactor binding site; other site 225849011443 Nitrate reductase cytochrome c-type subunit (NapB); Region: NapB; pfam03892 225849011444 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 225849011445 Ligand Binding Site [chemical binding]; other site 225849011446 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849011447 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849011448 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 225849011449 dimerization interface [polypeptide binding]; other site 225849011450 LysE type translocator; Region: LysE; cl00565 225849011451 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849011452 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849011453 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 225849011454 putative dimerization interface [polypeptide binding]; other site 225849011455 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 225849011456 putative active site [active] 225849011457 PAS fold; Region: PAS_3; pfam08447 225849011458 heme pocket [chemical binding]; other site 225849011459 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849011460 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849011461 metal binding site [ion binding]; metal-binding site 225849011462 active site 225849011463 I-site; other site 225849011464 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 225849011465 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 225849011466 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 225849011467 ATP-grasp domain; Region: ATP-grasp_4; cl17255 225849011468 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 225849011469 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 225849011470 carboxyltransferase (CT) interaction site; other site 225849011471 biotinylation site [posttranslational modification]; other site 225849011472 LysR family transcriptional regulator; Provisional; Region: PRK14997 225849011473 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849011474 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 225849011475 putative effector binding pocket; other site 225849011476 dimerization interface [polypeptide binding]; other site 225849011477 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 225849011478 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cl00237 225849011479 putative substrate binding pocket [chemical binding]; other site 225849011480 AC domain interface; other site 225849011481 catalytic triad [active] 225849011482 AB domain interface; other site 225849011483 hypothetical protein; Provisional; Region: PRK04860 225849011484 Zn-dependent metalloprotease, SprT family [General function prediction only]; Region: SprT; COG3091 225849011485 DNA-specific endonuclease I; Provisional; Region: PRK15137 225849011486 Endonuclease I [DNA replication, recombination, and repair]; Region: EndA; COG2356 225849011487 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385 225849011488 RNA methyltransferase, RsmE family; Region: TIGR00046 225849011489 glutathione synthetase; Provisional; Region: PRK05246 225849011490 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 225849011491 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 225849011492 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 225849011493 dimer interface [polypeptide binding]; other site 225849011494 Alkaline phosphatase homologues; Region: alkPPc; smart00098 225849011495 active site 225849011496 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 225849011497 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 225849011498 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 225849011499 S-adenosylmethionine binding site [chemical binding]; other site 225849011500 Protein of unknown function (DUF342); Region: DUF342; pfam03961 225849011501 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_2; cd06160 225849011502 Peptidase family M50; Region: Peptidase_M50; pfam02163 225849011503 active site 225849011504 putative substrate binding region [chemical binding]; other site 225849011505 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 225849011506 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225849011507 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 225849011508 active site 225849011509 catalytic residues [active] 225849011510 DNA binding site [nucleotide binding] 225849011511 Int/Topo IB signature motif; other site 225849011512 Domain of unknown function (DUF955); Region: DUF955; pfam06114 225849011513 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 225849011514 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 225849011515 non-specific DNA binding site [nucleotide binding]; other site 225849011516 salt bridge; other site 225849011517 sequence-specific DNA binding site [nucleotide binding]; other site 225849011518 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 225849011519 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 225849011520 Lipase (class 3). Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation," the...; Region: Lipase_3; cd00519 225849011521 active site flap/lid [active] 225849011522 nucleophilic elbow; other site 225849011523 catalytic triad [active] 225849011524 Integrase core domain; Region: rve; pfam00665 225849011525 Integrase core domain; Region: rve_2; pfam13333 225849011526 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 225849011527 Transposase; Region: HTH_Tnp_1; pfam01527 225849011528 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 225849011529 Transposase; Region: HTH_Tnp_1; pfam01527 225849011530 Integrase core domain; Region: rve; pfam00665 225849011531 Integrase core domain; Region: rve_3; pfam13683 225849011532 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 225849011533 Uncharacterized conserved protein [Function unknown]; Region: COG1432 225849011534 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 225849011535 putative metal binding site [ion binding]; other site 225849011536 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 225849011537 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 225849011538 active site 225849011539 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849011540 AAA domain; Region: AAA_23; pfam13476 225849011541 Walker A/P-loop; other site 225849011542 ATP binding site [chemical binding]; other site 225849011543 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849011544 Q-loop/lid; other site 225849011545 ABC transporter signature motif; other site 225849011546 Walker B; other site 225849011547 D-loop; other site 225849011548 H-loop/switch region; other site 225849011549 Protein of unknown function DUF262; Region: DUF262; pfam03235 225849011550 Protein of unknown function DUF262; Region: DUF262; pfam03235 225849011551 Protein of unknown function (DUF1524); Region: DUF1524; pfam07510 225849011552 Integrase core domain; Region: rve; pfam00665 225849011553 Integrase core domain; Region: rve_3; pfam13683 225849011554 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 225849011555 Transposase; Region: HTH_Tnp_1; pfam01527 225849011556 Protein of unknown function (DUF2787); Region: DUF2787; pfam10980 225849011557 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 225849011558 cofactor binding site; other site 225849011559 DNA binding site [nucleotide binding] 225849011560 substrate interaction site [chemical binding]; other site 225849011561 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 225849011562 AIPR protein; Region: AIPR; pfam10592 225849011563 Domain of unknown function (DUF4420); Region: DUF4420; pfam14390 225849011564 Z1 domain; Region: Z1; pfam10593 225849011565 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 225849011566 DNA breaking-rejoining enzymes, C-terminal catalytic domain. The DNA breaking-rejoining enzyme superfamily includes type IB topoisomerases and tyrosine recombinases that share the same fold in their catalytic domain containing six conserved active site...; Region: DNA_BRE_C; cl00213 225849011567 Protein of unknown function (DUF3149); Region: DUF3149; pfam11346 225849011568 Superinfection exclusion protein B; Region: SieB; pfam14163 225849011569 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 225849011570 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 225849011571 putative ATP binding site [chemical binding]; other site 225849011572 putative substrate interface [chemical binding]; other site 225849011573 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 225849011574 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 225849011575 eyelet of channel; other site 225849011576 trimer interface [polypeptide binding]; other site 225849011577 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 225849011578 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 225849011579 eyelet of channel; other site 225849011580 trimer interface [polypeptide binding]; other site 225849011581 thiopurine S-methyltransferase; Reviewed; Region: PRK13255 225849011582 Protein kinase domain; Region: Pkinase; pfam00069 225849011583 Catalytic domain of Protein Kinases; Region: PKc; cd00180 225849011584 active site 225849011585 ATP binding site [chemical binding]; other site 225849011586 substrate binding site [chemical binding]; other site 225849011587 activation loop (A-loop); other site 225849011588 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 225849011589 Uncharacterized protein involved in tolerance to divalent cations [Inorganic ion transport and metabolism]; Region: CutA; COG1324 225849011590 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 225849011591 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 225849011592 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 225849011593 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 225849011594 DsbD alpha interface [polypeptide binding]; other site 225849011595 catalytic residues [active] 225849011596 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 225849011597 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 225849011598 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 225849011599 TrkA-N domain; Region: TrkA_N; pfam02254 225849011600 beta-D-galactosidase; Reviewed; Region: lacZ; PRK09525 225849011601 Glycosyl hydrolases family 2, sugar binding domain; Region: Glyco_hydro_2_N; pfam02837 225849011602 Glycosyl hydrolases family 2; Region: Glyco_hydro_2; pfam00703 225849011603 Glycosyl hydrolases family 2, TIM barrel domain; Region: Glyco_hydro_2_C; pfam02836 225849011604 Beta galactosidase small chain; Region: Bgal_small_N; smart01038 225849011605 putative transporter; Provisional; Region: PRK10484 225849011606 uncharacterized SLC5 subfamily, Escherichia coli YidK-like; solute binding domain; Region: SLC5sbd_YidK; cd10328 225849011607 Na binding site [ion binding]; other site 225849011608 galactose-1-phosphate uridylyltransferase; Provisional; Region: PRK11720 225849011609 Galactose-1-phosphate uridyl transferase (GalT): This enzyme plays a key role in galactose metabolism by catalysing the transfer of a uridine 5'-phosphoryl group from UDP-galactose 1-phosphate. The structure of E.coli GalT reveals that the enzyme...; Region: GalT; cd00608 225849011610 dimer interface [polypeptide binding]; other site 225849011611 active site 225849011612 galactokinase; Provisional; Region: PRK05101 225849011613 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 225849011614 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 225849011615 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 225849011616 active site 225849011617 catalytic residues [active] 225849011618 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 225849011619 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 225849011620 substrate binding pocket [chemical binding]; other site 225849011621 membrane-bound complex binding site; other site 225849011622 hinge residues; other site 225849011623 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 225849011624 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 225849011625 dimer interface [polypeptide binding]; other site 225849011626 ssDNA binding site [nucleotide binding]; other site 225849011627 tetramer (dimer of dimers) interface [polypeptide binding]; other site 225849011628 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 225849011629 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 225849011630 active site 225849011631 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849011632 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849011633 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 225849011634 dimerization interface [polypeptide binding]; other site 225849011635 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 225849011636 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 225849011637 active site 225849011638 Domain of unknown function (DUF4156); Region: DUF4156; pfam13698 225849011639 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 225849011640 Major Facilitator Superfamily; Region: MFS_1; pfam07690 225849011641 putative substrate translocation pore; other site 225849011642 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 225849011643 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 225849011644 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 225849011645 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 225849011646 M28 Zn-Peptidases; Region: M28_like_2; cd05662 225849011647 Peptidase family M28; Region: Peptidase_M28; pfam04389 225849011648 metal binding site [ion binding]; metal-binding site 225849011649 helicase 45; Provisional; Region: PTZ00424 225849011650 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 225849011651 ATP binding site [chemical binding]; other site 225849011652 Mg++ binding site [ion binding]; other site 225849011653 motif III; other site 225849011654 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 225849011655 nucleotide binding region [chemical binding]; other site 225849011656 ATP-binding site [chemical binding]; other site 225849011657 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 225849011658 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 225849011659 Uncharacterized conserved protein [Function unknown]; Region: COG3791 225849011660 Cytochrome c [Energy production and conversion]; Region: COG3258 225849011661 Cytochrome c; Region: Cytochrom_C; pfam00034 225849011662 Cytochrome c; Region: Cytochrom_C; cl11414 225849011663 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 225849011664 Cytochrome c; Region: Cytochrom_C; cl11414 225849011665 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 225849011666 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 225849011667 nucleotide binding site [chemical binding]; other site 225849011668 substrate binding site [chemical binding]; other site 225849011669 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 225849011670 O-succinylhomoserine (thiol)-lyase; Region: O_succ_thio_ly; TIGR02080 225849011671 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 225849011672 homodimer interface [polypeptide binding]; other site 225849011673 substrate-cofactor binding pocket; other site 225849011674 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849011675 catalytic residue [active] 225849011676 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 225849011677 dimerization interface [polypeptide binding]; other site 225849011678 DNA binding site [nucleotide binding] 225849011679 corepressor binding sites; other site 225849011680 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 225849011681 F plasmid transfer operon, TraF, protein; Region: TraF_2; pfam13729 225849011682 PAS fold; Region: PAS_4; pfam08448 225849011683 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225849011684 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 225849011685 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225849011686 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 225849011687 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 225849011688 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 225849011689 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 225849011690 AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of...; Region: AP2Ec; cl12060 225849011691 Metal-binding active site; metal-binding site 225849011692 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 225849011693 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 225849011694 Major Facilitator Superfamily; Region: MFS_1; pfam07690 225849011695 putative substrate translocation pore; other site 225849011696 Gluconate 2-dehydrogenase subunit 3; Region: Gluconate_2-dh3; pfam13618 225849011697 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 225849011698 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 225849011699 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 225849011700 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 225849011701 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 225849011702 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849011703 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849011704 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 225849011705 putative effector binding pocket; other site 225849011706 dimerization interface [polypeptide binding]; other site 225849011707 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 225849011708 classical (c) SDRs; Region: SDR_c; cd05233 225849011709 NAD(P) binding site [chemical binding]; other site 225849011710 active site 225849011711 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 225849011712 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 225849011713 octaheme c-type cytochrome, tetrathionate reductase family; Region: octaheme_Shew; TIGR04315 225849011714 Cytochrome c bacterial; Region: Cytochrome_cB; pfam11783 225849011715 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 225849011716 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849011717 ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]; Region: ThiQ; COG3840 225849011718 ATP binding site [chemical binding]; other site 225849011719 Walker A/P-loop; other site 225849011720 Q-loop/lid; other site 225849011721 ABC transporter signature motif; other site 225849011722 Walker B; other site 225849011723 D-loop; other site 225849011724 H-loop/switch region; other site 225849011725 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 225849011726 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 225849011727 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849011728 Walker A/P-loop; other site 225849011729 ATP binding site [chemical binding]; other site 225849011730 Q-loop/lid; other site 225849011731 ABC transporter signature motif; other site 225849011732 Walker B; other site 225849011733 D-loop; other site 225849011734 H-loop/switch region; other site 225849011735 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 225849011736 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849011737 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849011738 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011739 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011740 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011741 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011742 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011743 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011744 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011745 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011746 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011747 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011748 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011749 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011750 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011751 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011752 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011753 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011754 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011755 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011756 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011757 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011758 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011759 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011760 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011761 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 225849011762 Filamin/ABP280 repeat; Region: Filamin; pfam00630 225849011763 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011764 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011765 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011766 VCBS repeat; Region: VCBS_repeat; TIGR01965 225849011767 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 225849011768 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 225849011769 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 225849011770 FMN binding site [chemical binding]; other site 225849011771 active site 225849011772 substrate binding site [chemical binding]; other site 225849011773 catalytic residue [active] 225849011774 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_9; cd07245 225849011775 dimer interface [polypeptide binding]; other site 225849011776 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849011777 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849011778 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 225849011779 putative effector binding pocket; other site 225849011780 dimerization interface [polypeptide binding]; other site 225849011781 Cupin domain; Region: Cupin_2; pfam07883 225849011782 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 225849011783 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 225849011784 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 225849011785 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849011786 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849011787 metal binding site [ion binding]; metal-binding site 225849011788 active site 225849011789 I-site; other site 225849011790 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 225849011791 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849011792 active site 225849011793 phosphorylation site [posttranslational modification] 225849011794 intermolecular recognition site; other site 225849011795 dimerization interface [polypeptide binding]; other site 225849011796 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225849011797 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225849011798 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 225849011799 ATP binding site [chemical binding]; other site 225849011800 Mg2+ binding site [ion binding]; other site 225849011801 G-X-G motif; other site 225849011802 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 225849011803 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 225849011804 NADP binding site [chemical binding]; other site 225849011805 active site 225849011806 putative substrate binding site [chemical binding]; other site 225849011807 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 225849011808 metal binding site [ion binding]; metal-binding site 225849011809 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 225849011810 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 225849011811 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 225849011812 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 225849011813 active site 225849011814 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 225849011815 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 225849011816 Domain of unknown function (DUF386); Region: DUF386; cl01047 225849011817 Putative phosphatase (DUF442); Region: DUF442; cl17385 225849011818 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 225849011819 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 225849011820 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 225849011821 catalytic residue [active] 225849011822 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 225849011823 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 225849011824 active site residue [active] 225849011825 penicillin-insensitive murein endopeptidase; Reviewed; Region: mepA; PRK09429 225849011826 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 225849011827 PAS domain; Region: PAS_9; pfam13426 225849011828 putative active site [active] 225849011829 heme pocket [chemical binding]; other site 225849011830 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225849011831 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 225849011832 dimer interface [polypeptide binding]; other site 225849011833 phosphorylation site [posttranslational modification] 225849011834 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 225849011835 ATP binding site [chemical binding]; other site 225849011836 Mg2+ binding site [ion binding]; other site 225849011837 G-X-G motif; other site 225849011838 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 225849011839 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849011840 active site 225849011841 phosphorylation site [posttranslational modification] 225849011842 intermolecular recognition site; other site 225849011843 dimerization interface [polypeptide binding]; other site 225849011844 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 225849011845 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 225849011846 Predicted thiol oxidoreductase [Energy production and conversion]; Region: COG3488 225849011847 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 225849011848 Putative esterase; Region: Esterase; pfam00756 225849011849 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 225849011850 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 225849011851 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849011852 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849011853 Outer membrane efflux protein; Region: OEP; pfam02321 225849011854 Protein of unknown function (DUF3012); Region: DUF3012; pfam11216 225849011855 Protein of unknown function (DUF3478); Region: DUF3478; pfam11964 225849011856 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 225849011857 hypothetical protein; Provisional; Region: PRK09256 225849011858 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 225849011859 Dehydroquinase class II; Region: DHquinase_II; pfam01220 225849011860 active site 225849011861 trimer interface [polypeptide binding]; other site 225849011862 dimer interface [polypeptide binding]; other site 225849011863 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 225849011864 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 225849011865 carboxyltransferase (CT) interaction site; other site 225849011866 biotinylation site [posttranslational modification]; other site 225849011867 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225849011868 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 225849011869 NAD(P) binding site [chemical binding]; other site 225849011870 active site 225849011871 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 225849011872 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 225849011873 catalytic residues [active] 225849011874 Domain of unknown function (DUF3859); Region: DUF3859; pfam12975 225849011875 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 225849011876 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 225849011877 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 225849011878 Cupin domain; Region: Cupin_2; cl17218 225849011879 Helix-turn-helix domain; Region: HTH_18; pfam12833 225849011880 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 225849011881 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 225849011882 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 225849011883 homodimer interaction site [polypeptide binding]; other site 225849011884 cofactor binding site; other site 225849011885 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 225849011886 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 225849011887 Catalytic site [active] 225849011888 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 225849011889 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 225849011890 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 225849011891 catalytic residues [active] 225849011892 hypothetical protein; Provisional; Region: PRK10557 225849011893 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 225849011894 Type II transport protein GspH; Region: GspH; pfam12019 225849011895 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 225849011896 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 225849011897 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 225849011898 FMN reductase; Validated; Region: fre; PRK08051 225849011899 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 225849011900 FAD binding pocket [chemical binding]; other site 225849011901 FAD binding motif [chemical binding]; other site 225849011902 phosphate binding motif [ion binding]; other site 225849011903 beta-alpha-beta structure motif; other site 225849011904 NAD binding pocket [chemical binding]; other site 225849011905 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cl17355 225849011906 DNA binding site [nucleotide binding] 225849011907 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 225849011908 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 225849011909 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 225849011910 Walker A/P-loop; other site 225849011911 ATP binding site [chemical binding]; other site 225849011912 Q-loop/lid; other site 225849011913 ABC transporter signature motif; other site 225849011914 Walker B; other site 225849011915 D-loop; other site 225849011916 H-loop/switch region; other site 225849011917 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 225849011918 NosL; Region: NosL; pfam05573 225849011919 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 225849011920 cytochrome c nitrite reductase, NrfD subunit; Region: cyt_nit_nrfD; TIGR03148 225849011921 cytochrome c nitrite reductase, Fe-S protein; Region: cyt_nit_nrfC; TIGR03149 225849011922 formate-dependent nitrite reductase complex subunit NrfG; Provisional; Region: PRK10370 225849011923 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 225849011924 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 225849011925 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 225849011926 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 225849011927 active site residue [active] 225849011928 Cytochrome c554 and c-prime; Region: Cytochrome_C554; pfam13435 225849011929 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 225849011930 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 225849011931 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 225849011932 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 225849011933 catalytic residues [active] 225849011934 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225849011935 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 225849011936 DNA binding site [nucleotide binding] 225849011937 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 225849011938 binding surface 225849011939 TPR repeat; Region: TPR_11; pfam13414 225849011940 TPR motif; other site 225849011941 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 225849011942 binding surface 225849011943 TPR motif; other site 225849011944 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 225849011945 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 225849011946 metal binding site [ion binding]; metal-binding site 225849011947 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 225849011948 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 225849011949 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 225849011950 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 225849011951 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 225849011952 putative substrate translocation pore; other site 225849011953 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 225849011954 FAD-NAD(P)-binding; Region: NAD_binding_9; pfam13454 225849011955 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225849011956 Protein export membrane protein; Region: SecD_SecF; cl14618 225849011957 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 225849011958 Protein export membrane protein; Region: SecD_SecF; cl14618 225849011959 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cl10465 225849011960 Catalytic site [active] 225849011961 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 225849011962 Catalytic site [active] 225849011963 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 225849011964 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 225849011965 active site 225849011966 DNA binding site [nucleotide binding] 225849011967 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 225849011968 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; pfam04307 225849011969 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 225849011970 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 225849011971 UbiA prenyltransferase family; Region: UbiA; pfam01040 225849011972 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 225849011973 Part of AAA domain; Region: AAA_19; pfam13245 225849011974 Family description; Region: UvrD_C_2; pfam13538 225849011975 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 225849011976 homotrimer interaction site [polypeptide binding]; other site 225849011977 putative active site [active] 225849011978 PAS domain S-box; Region: sensory_box; TIGR00229 225849011979 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 225849011980 putative active site [active] 225849011981 heme pocket [chemical binding]; other site 225849011982 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849011983 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849011984 metal binding site [ion binding]; metal-binding site 225849011985 active site 225849011986 I-site; other site 225849011987 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 225849011988 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_21; cd04680 225849011989 nudix motif; other site 225849011990 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 225849011991 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 225849011992 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 225849011993 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 225849011994 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 225849011995 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 225849011996 uridine phosphorylase; Provisional; Region: PRK11178 225849011997 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 225849011998 Protein of unknown function (DUF465); Region: DUF465; cl01070 225849011999 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 225849012000 Mechanosensitive ion channel; Region: MS_channel; pfam00924 225849012001 Radical SAM superfamily; Region: Radical_SAM; pfam04055 225849012002 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849012003 Coenzyme A binding pocket [chemical binding]; other site 225849012004 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 225849012005 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 225849012006 putative substrate translocation pore; other site 225849012007 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 225849012008 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 225849012009 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849012010 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849012011 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849012012 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849012013 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 225849012014 putative effector binding pocket; other site 225849012015 dimerization interface [polypeptide binding]; other site 225849012016 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849012017 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 225849012018 putative DNA binding site [nucleotide binding]; other site 225849012019 putative Zn2+ binding site [ion binding]; other site 225849012020 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 225849012021 dimerization interface [polypeptide binding]; other site 225849012022 hypothetical protein; Provisional; Region: PRK12378 225849012023 Predicted thiol-disulfide oxidoreductase [General function prediction only]; Region: COG3011 225849012024 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 225849012025 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 225849012026 catalytic residues [active] 225849012027 hinge region; other site 225849012028 alpha helical domain; other site 225849012029 Predicted permease; Region: DUF318; cl17795 225849012030 Predicted permease; Region: DUF318; cl17795 225849012031 zinc-responsive transcriptional regulator; Provisional; Region: zntR; PRK09514 225849012032 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 225849012033 DNA binding residues [nucleotide binding] 225849012034 dimer interface [polypeptide binding]; other site 225849012035 metal binding site [ion binding]; metal-binding site 225849012036 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 225849012037 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 225849012038 purine monophosphate binding site [chemical binding]; other site 225849012039 dimer interface [polypeptide binding]; other site 225849012040 putative catalytic residues [active] 225849012041 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 225849012042 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 225849012043 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 225849012044 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 225849012045 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 225849012046 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 225849012047 short chain dehydrogenase; Provisional; Region: PRK06181 225849012048 NAD(P) binding site [chemical binding]; other site 225849012049 active site 225849012050 Spondin_N; Region: Spond_N; pfam06468 225849012051 Spondin_N; Region: Spond_N; pfam06468 225849012052 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225849012053 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849012054 active site 225849012055 phosphorylation site [posttranslational modification] 225849012056 intermolecular recognition site; other site 225849012057 dimerization interface [polypeptide binding]; other site 225849012058 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 225849012059 DNA binding site [nucleotide binding] 225849012060 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225849012061 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 225849012062 dimer interface [polypeptide binding]; other site 225849012063 phosphorylation site [posttranslational modification] 225849012064 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 225849012065 ATP binding site [chemical binding]; other site 225849012066 Mg2+ binding site [ion binding]; other site 225849012067 G-X-G motif; other site 225849012068 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 225849012069 substrate binding site [chemical binding]; other site 225849012070 active site 225849012071 anti-RNA polymerase sigma 70 factor; Provisional; Region: PRK11718 225849012072 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 225849012073 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 225849012074 substrate binding site [chemical binding]; other site 225849012075 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 225849012076 substrate binding site [chemical binding]; other site 225849012077 ligand binding site [chemical binding]; other site 225849012078 2-deoxyglucose-6-phosphatase; Provisional; Region: PRK10826 225849012079 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 225849012080 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 225849012081 motif II; other site 225849012082 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 225849012083 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 225849012084 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 225849012085 putative active site [active] 225849012086 putative NTP binding site [chemical binding]; other site 225849012087 putative nucleic acid binding site [nucleotide binding]; other site 225849012088 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 225849012089 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 225849012090 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 225849012091 active site 225849012092 Zn binding site [ion binding]; other site 225849012093 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 225849012094 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 225849012095 active site 225849012096 nucleophile elbow; other site 225849012097 Surface antigen; Region: Bac_surface_Ag; pfam01103 225849012098 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 225849012099 PAS fold; Region: PAS_3; pfam08447 225849012100 Motif C-terminal to PAS motifs (likely to contribute to PAS structural domain); Region: PAC; smart00086 225849012101 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 225849012102 PAS domain; Region: PAS_9; pfam13426 225849012103 putative active site [active] 225849012104 heme pocket [chemical binding]; other site 225849012105 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849012106 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849012107 metal binding site [ion binding]; metal-binding site 225849012108 active site 225849012109 I-site; other site 225849012110 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 225849012111 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 225849012112 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 225849012113 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225849012114 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 225849012115 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 225849012116 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 225849012117 E3 interaction surface; other site 225849012118 lipoyl attachment site [posttranslational modification]; other site 225849012119 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 225849012120 E3 interaction surface; other site 225849012121 lipoyl attachment site [posttranslational modification]; other site 225849012122 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 225849012123 E3 interaction surface; other site 225849012124 lipoyl attachment site [posttranslational modification]; other site 225849012125 e3 binding domain; Region: E3_binding; pfam02817 225849012126 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 225849012127 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 225849012128 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 225849012129 dimer interface [polypeptide binding]; other site 225849012130 TPP-binding site [chemical binding]; other site 225849012131 transcriptional regulator PdhR; Reviewed; Region: pdhR; PRK09464 225849012132 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225849012133 DNA-binding site [nucleotide binding]; DNA binding site 225849012134 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 225849012135 regulatory protein AmpE; Provisional; Region: PRK10987 225849012136 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 225849012137 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 225849012138 amidase catalytic site [active] 225849012139 Zn binding residues [ion binding]; other site 225849012140 substrate binding site [chemical binding]; other site 225849012141 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 225849012142 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 225849012143 dimerization interface [polypeptide binding]; other site 225849012144 active site 225849012145 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 225849012146 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 225849012147 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 225849012148 Walker A motif; other site 225849012149 ATP binding site [chemical binding]; other site 225849012150 Walker B motif; other site 225849012151 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 225849012152 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 225849012153 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 225849012154 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 225849012155 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 225849012156 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 225849012157 dephospho-CoA kinase; Region: TIGR00152 225849012158 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 225849012159 CoA-binding site [chemical binding]; other site 225849012160 ATP-binding [chemical binding]; other site 225849012161 hypothetical protein; Provisional; Region: PRK05287 225849012162 Domain of unknown function (DUF329); Region: DUF329; pfam03884 225849012163 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 225849012164 active site 225849012165 8-oxo-dGMP binding site [chemical binding]; other site 225849012166 nudix motif; other site 225849012167 metal binding site [ion binding]; metal-binding site 225849012168 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 225849012169 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 225849012170 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 225849012171 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 225849012172 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 225849012173 Flagellar protein YcgR; Region: YcgR_2; pfam12945 225849012174 Methyltransferase domain; Region: Methyltransf_23; pfam13489 225849012175 cellulose synthase A [UDP-forming], catalytic subunit; Region: PLN02915 225849012176 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 225849012177 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 225849012178 PAS domain; Region: PAS_9; pfam13426 225849012179 putative active site [active] 225849012180 heme pocket [chemical binding]; other site 225849012181 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849012182 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849012183 metal binding site [ion binding]; metal-binding site 225849012184 active site 225849012185 I-site; other site 225849012186 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 225849012187 DTW domain; Region: DTW; cl01221 225849012188 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 225849012189 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 225849012190 putative substrate translocation pore; other site 225849012191 DNA-binding transcriptional regulator YidZ; Provisional; Region: PRK10216 225849012192 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849012193 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 225849012194 substrate binding pocket [chemical binding]; other site 225849012195 dimerization interface [polypeptide binding]; other site 225849012196 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 225849012197 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 225849012198 Sel1-like repeats; Region: SEL1; smart00671 225849012199 Protein of unknown function VcgC/VcgE (DUF2780); Region: DUF2780; pfam11075 225849012200 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 225849012201 putative metal binding site [ion binding]; other site 225849012202 putative transporter; Provisional; Region: PRK11021 225849012203 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 225849012204 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 225849012205 putative DNA binding site [nucleotide binding]; other site 225849012206 putative Zn2+ binding site [ion binding]; other site 225849012207 AsnC family; Region: AsnC_trans_reg; pfam01037 225849012208 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 225849012209 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 225849012210 dimer interface [polypeptide binding]; other site 225849012211 tetramer interface [polypeptide binding]; other site 225849012212 PYR/PP interface [polypeptide binding]; other site 225849012213 TPP binding site [chemical binding]; other site 225849012214 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 225849012215 TPP-binding site; other site 225849012216 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 225849012217 O-succinylbenzoate synthase; Provisional; Region: PRK05105 225849012218 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 225849012219 active site 225849012220 O-succinylbenzoic acid--CoA ligase; Provisional; Region: PRK09029 225849012221 O-succinylbenzoate-CoA ligase (also known as O-succinylbenzoate-CoA synthase, OSB-CoA synthetase, or MenE); Region: OSB_CoA_lg; cd05912 225849012222 acyl-activating enzyme (AAE) consensus motif; other site 225849012223 putative AMP binding site [chemical binding]; other site 225849012224 putative active site [active] 225849012225 putative CoA binding site [chemical binding]; other site 225849012226 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 225849012227 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225849012228 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 225849012229 DNA binding residues [nucleotide binding] 225849012230 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 225849012231 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 225849012232 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 225849012233 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849012234 Walker A/P-loop; other site 225849012235 ATP binding site [chemical binding]; other site 225849012236 Q-loop/lid; other site 225849012237 ABC transporter signature motif; other site 225849012238 Walker B; other site 225849012239 D-loop; other site 225849012240 H-loop/switch region; other site 225849012241 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 225849012242 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 225849012243 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 225849012244 P loop; other site 225849012245 GTP binding site [chemical binding]; other site 225849012246 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 225849012247 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 225849012248 S-adenosylmethionine binding site [chemical binding]; other site 225849012249 Protein of unknown function (DUF1145); Region: DUF1145; pfam06611 225849012250 NapC/NirT cytochrome c family, N-terminal region; Region: Cytochrom_NNT; pfam03264 225849012251 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 225849012252 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; cl11437 225849012253 DNA-directed RNA polymerase, subunit M/Transcription elongation factor TFIIS [Transcription]; Region: RPB9; COG1594 225849012254 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 225849012255 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849012256 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 225849012257 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 225849012258 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 225849012259 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 225849012260 Caleosin related protein; Region: Caleosin; pfam05042 225849012261 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849012262 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849012263 metal binding site [ion binding]; metal-binding site 225849012264 active site 225849012265 I-site; other site 225849012266 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 225849012267 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849012268 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849012269 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 225849012270 Helix-turn-helix domain; Region: HTH_18; pfam12833 225849012271 Tryptophan/tyrosine permease family; Region: Trp_Tyr_perm; cl17316 225849012272 aromatic amino acid transport protein; Region: araaP; TIGR00837 225849012273 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 225849012274 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 225849012275 putative acyl-acceptor binding pocket; other site 225849012276 LexA repressor; Validated; Region: PRK00215 225849012277 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 225849012278 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 225849012279 Catalytic site [active] 225849012280 Cell division inhibitor SulA; Region: SulA; cl01880 225849012281 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 225849012282 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 225849012283 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 225849012284 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 225849012285 Cytochrome c; Region: Cytochrom_C; pfam00034 225849012286 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 225849012287 Cytochrome c; Region: Cytochrom_C; pfam00034 225849012288 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 225849012289 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 225849012290 Subunit I/III interface [polypeptide binding]; other site 225849012291 D-pathway; other site 225849012292 Subunit I/VIIc interface [polypeptide binding]; other site 225849012293 Subunit I/IV interface [polypeptide binding]; other site 225849012294 Subunit I/II interface [polypeptide binding]; other site 225849012295 Low-spin heme (heme a) binding site [chemical binding]; other site 225849012296 Subunit I/VIIa interface [polypeptide binding]; other site 225849012297 Subunit I/VIa interface [polypeptide binding]; other site 225849012298 Dimer interface; other site 225849012299 Putative water exit pathway; other site 225849012300 Binuclear center (heme a3/CuB) [ion binding]; other site 225849012301 K-pathway; other site 225849012302 Subunit I/Vb interface [polypeptide binding]; other site 225849012303 Putative proton exit pathway; other site 225849012304 Subunit I/VIb interface; other site 225849012305 Subunit I/VIc interface [polypeptide binding]; other site 225849012306 Electron transfer pathway; other site 225849012307 Subunit I/VIIIb interface [polypeptide binding]; other site 225849012308 Subunit I/VIIb interface [polypeptide binding]; other site 225849012309 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 225849012310 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 225849012311 Subunit III/VIIa interface [polypeptide binding]; other site 225849012312 Phospholipid binding site [chemical binding]; other site 225849012313 Subunit I/III interface [polypeptide binding]; other site 225849012314 Subunit III/VIb interface [polypeptide binding]; other site 225849012315 Subunit III/VIa interface; other site 225849012316 Subunit III/Vb interface [polypeptide binding]; other site 225849012317 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 225849012318 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 225849012319 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 225849012320 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 225849012321 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 225849012322 UbiA prenyltransferase family; Region: UbiA; pfam01040 225849012323 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 225849012324 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 225849012325 Cu(I) binding site [ion binding]; other site 225849012326 Putative catalytic NodB homology domain of uncharacterized bacterial polysaccharide deacetylases which consist of a 5-stranded beta/alpha barrel; Region: CE4_DAC_u4_5s; cd10973 225849012327 putative active site [active] 225849012328 putative metal binding site [ion binding]; other site 225849012329 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 225849012330 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 225849012331 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 225849012332 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 225849012333 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 225849012334 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 225849012335 putative active site [active] 225849012336 Zn binding site [ion binding]; other site 225849012337 DNA utilization protein GntX; Provisional; Region: PRK11595 225849012338 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 225849012339 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 225849012340 Sulfatase; Region: Sulfatase; pfam00884 225849012341 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 225849012342 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 225849012343 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 225849012344 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 225849012345 RNA binding site [nucleotide binding]; other site 225849012346 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 225849012347 DNA binding site [nucleotide binding] 225849012348 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 225849012349 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 225849012350 von Hippel-Landau (pVHL) tumor suppressor protein; Region: pVHL; cl03381 225849012351 pVHL-HIF-1alpha interaction [polypeptide binding]; other site 225849012352 Mor transcription activator family; Region: Mor; cl02360 225849012353 Peptidase S8 family domain in Thiazoline oxidase/subtilisin-like proteases; Region: Peptidases_S8_thiazoline_oxidase_subtilisin-like_p; cd07476 225849012354 putative active site [active] 225849012355 putative catalytic triad [active] 225849012356 cyanobactin maturation protease, PatA/PatG family; Region: protease_PatA; TIGR03895 225849012357 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 225849012358 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 225849012359 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 225849012360 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 225849012361 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 225849012362 osmolarity response regulator; Provisional; Region: ompR; PRK09468 225849012363 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849012364 active site 225849012365 phosphorylation site [posttranslational modification] 225849012366 intermolecular recognition site; other site 225849012367 dimerization interface [polypeptide binding]; other site 225849012368 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 225849012369 DNA binding site [nucleotide binding] 225849012370 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 225849012371 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 225849012372 dimerization interface [polypeptide binding]; other site 225849012373 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 225849012374 dimer interface [polypeptide binding]; other site 225849012375 phosphorylation site [posttranslational modification] 225849012376 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 225849012377 ATP binding site [chemical binding]; other site 225849012378 Mg2+ binding site [ion binding]; other site 225849012379 G-X-G motif; other site 225849012380 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 225849012381 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 225849012382 carboxyltransferase (CT) interaction site; other site 225849012383 biotinylation site [posttranslational modification]; other site 225849012384 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849012385 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 225849012386 A sub-family of peptidase family C39. Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various...; Region: Peptidase_C39C; cd02419 225849012387 putative active site [active] 225849012388 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 225849012389 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 225849012390 Walker A/P-loop; other site 225849012391 ATP binding site [chemical binding]; other site 225849012392 Q-loop/lid; other site 225849012393 ABC transporter signature motif; other site 225849012394 Walker B; other site 225849012395 D-loop; other site 225849012396 H-loop/switch region; other site 225849012397 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 225849012398 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 225849012399 dimerization interface [polypeptide binding]; other site 225849012400 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849012401 dimer interface [polypeptide binding]; other site 225849012402 putative CheW interface [polypeptide binding]; other site 225849012403 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 225849012404 catalytic triad [active] 225849012405 dimer interface [polypeptide binding]; other site 225849012406 Transcriptional regulators [Transcription]; Region: MarR; COG1846 225849012407 MarR family; Region: MarR_2; pfam12802 225849012408 Adenylyl cyclase (AC) class IV-like, a subgroup of the CYTH-like superfamily; Region: CYTH-like_AC_IV-like; cd07890 225849012409 putative active site [active] 225849012410 putative metal binding residues [ion binding]; other site 225849012411 signature motif; other site 225849012412 putative triphosphate binding site [ion binding]; other site 225849012413 dimer interface [polypeptide binding]; other site 225849012414 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 225849012415 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 225849012416 DNA-binding site [nucleotide binding]; DNA binding site 225849012417 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 225849012418 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849012419 homodimer interface [polypeptide binding]; other site 225849012420 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 225849012421 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 225849012422 PAP2_like_5 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_5; cd03394 225849012423 active site 225849012424 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 225849012425 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 225849012426 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 225849012427 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 225849012428 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 225849012429 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 225849012430 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 225849012431 active site 225849012432 purine riboside binding site [chemical binding]; other site 225849012433 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 225849012434 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 225849012435 Peptidase family M9 N-terminal; Region: Peptidase_M9_N; pfam08453 225849012436 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 225849012437 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 225849012438 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 225849012439 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 225849012440 Putative SAM-dependent methyltransferase; Region: SAM_MT; pfam04445 225849012441 Metallo-peptidase family M84; Region: Peptidase_M84; pfam13688 225849012442 active site 225849012443 active site 225849012444 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 225849012445 FOG: PKD repeat [General function prediction only]; Region: COG3291 225849012446 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 225849012447 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 225849012448 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 225849012449 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 225849012450 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 225849012451 Peptidase family M28; Region: Peptidase_M28; pfam04389 225849012452 putative metal binding site [ion binding]; other site 225849012453 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 225849012454 Interdomain contacts; other site 225849012455 Cytokine receptor motif; other site 225849012456 Transcriptional regulator [Transcription]; Region: LysR; COG0583 225849012457 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849012458 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 225849012459 dimerization interface [polypeptide binding]; other site 225849012460 multidrug efflux pump VmrA; Reviewed; Region: vmrA; PRK09575 225849012461 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Streptococcus aureus MepA; Region: MATE_MepA_like; cd13143 225849012462 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 225849012463 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 225849012464 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 225849012465 N-acetyl-D-glucosamine binding site [chemical binding]; other site 225849012466 catalytic residue [active] 225849012467 Protein of unknown function (DUF3137); Region: DUF3137; pfam11335 225849012468 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 225849012469 AbgT putative transporter family; Region: ABG_transport; pfam03806 225849012470 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 225849012471 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 225849012472 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 225849012473 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 225849012474 putative active site [active] 225849012475 putative NTP binding site [chemical binding]; other site 225849012476 putative nucleic acid binding site [nucleotide binding]; other site 225849012477 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 225849012478 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 225849012479 Transposase; Region: DEDD_Tnp_IS110; pfam01548 225849012480 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 225849012481 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 225849012482 Transposase; Region: DEDD_Tnp_IS110; pfam01548 225849012483 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 225849012484 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 225849012485 Protein export membrane protein; Region: SecD_SecF; cl14618 225849012486 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 225849012487 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 225849012488 HlyD family secretion protein; Region: HlyD_3; pfam13437 225849012489 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 225849012490 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 225849012491 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 225849012492 C-terminal domain interface [polypeptide binding]; other site 225849012493 GSH binding site (G-site) [chemical binding]; other site 225849012494 dimer interface [polypeptide binding]; other site 225849012495 Glutathione S-transferase, C-terminal domain; Region: GST_C; pfam00043 225849012496 N-terminal domain interface [polypeptide binding]; other site 225849012497 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 225849012498 active site 225849012499 oligopeptidase A; Provisional; Region: PRK10911 225849012500 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 225849012501 active site 225849012502 Zn binding site [ion binding]; other site 225849012503 putative bifunctional flagellar biosynthesis protein FliO/FliP; Provisional; Region: PRK12430 225849012504 glutathione reductase; Validated; Region: PRK06116 225849012505 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 225849012506 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 225849012507 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 225849012508 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 225849012509 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 225849012510 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 225849012511 dimerization interface [polypeptide binding]; other site 225849012512 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 225849012513 carnitine operon protein CaiE; Provisional; Region: PRK13627 225849012514 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 225849012515 putative trimer interface [polypeptide binding]; other site 225849012516 putative metal binding site [ion binding]; other site 225849012517 enoyl-CoA hydratase; Region: PLN02864 225849012518 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 225849012519 active site 2 [active] 225849012520 active site 1 [active] 225849012521 carnitinyl-CoA dehydratase; Provisional; Region: PRK03580 225849012522 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 225849012523 substrate binding site [chemical binding]; other site 225849012524 oxyanion hole (OAH) forming residues; other site 225849012525 trimer interface [polypeptide binding]; other site 225849012526 putative crotonobetaine/carnitine-CoA ligase; Validated; Region: caiC; PRK08008 225849012527 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_DitJ_like; cd05934 225849012528 acyl-activating enzyme (AAE) consensus motif; other site 225849012529 putative AMP binding site [chemical binding]; other site 225849012530 putative active site [active] 225849012531 putative CoA binding site [chemical binding]; other site 225849012532 crotonobetainyl-CoA:carnitine CoA-transferase; Provisional; Region: PRK03525 225849012533 CoA-transferase family III; Region: CoA_transf_3; pfam02515 225849012534 crotonobetainyl-CoA dehydrogenase; Validated; Region: PRK03354 225849012535 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 225849012536 active site 225849012537 L-carnitine/gamma-butyrobetaine antiporter; Provisional; Region: PRK03356 225849012538 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 225849012539 Ligand binding site [chemical binding]; other site 225849012540 Electron transfer flavoprotein domain; Region: ETF; pfam01012 225849012541 putative electron transfer flavoprotein FixB; Provisional; Region: fixB; PRK03363 225849012542 Electron transfer flavoprotein domain; Region: ETF; smart00893 225849012543 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 225849012544 putative oxidoreductase FixC; Provisional; Region: PRK10157 225849012545 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 225849012546 ferredoxin-like protein FixX; Provisional; Region: PRK15449 225849012547 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 225849012548 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 225849012549 putative substrate translocation pore; other site 225849012550 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 225849012551 TPR motif; other site 225849012552 binding surface 225849012553 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 225849012554 TPR motif; other site 225849012555 binding surface 225849012556 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 225849012557 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 225849012558 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 225849012559 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 225849012560 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 225849012561 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 225849012562 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 225849012563 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 225849012564 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 225849012565 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 225849012566 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 225849012567 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 225849012568 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 225849012569 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 225849012570 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 225849012571 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_2; cd03139 225849012572 conserved cys residue [active] 225849012573 Domain of unknown function (DUF3391); Region: DUF3391; pfam11871 225849012574 c-di-GMP phosphodiesterase class II (HD-GYP domain) [Signal transduction mechanisms]; Region: COG2206 225849012575 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 225849012576 Zn2+ binding site [ion binding]; other site 225849012577 Mg2+ binding site [ion binding]; other site 225849012578 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 225849012579 First domain of the ATP-binding cassette component of cobalt transport system; Region: ABC_cobalt_CbiO_domain1; cd03225 225849012580 Walker A/P-loop; other site 225849012581 ATP binding site [chemical binding]; other site 225849012582 Q-loop/lid; other site 225849012583 ABC transporter signature motif; other site 225849012584 Walker B; other site 225849012585 D-loop; other site 225849012586 H-loop/switch region; other site 225849012587 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849012588 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 225849012589 Walker A/P-loop; other site 225849012590 ATP binding site [chemical binding]; other site 225849012591 Q-loop/lid; other site 225849012592 ABC transporter signature motif; other site 225849012593 Walker B; other site 225849012594 D-loop; other site 225849012595 H-loop/switch region; other site 225849012596 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 225849012597 N-terminal plug; other site 225849012598 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 225849012599 ligand-binding site [chemical binding]; other site 225849012600 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 225849012601 chorismate binding enzyme; Region: Chorismate_bind; cl10555 225849012602 hypothetical protein; Provisional; Region: PRK11212 225849012603 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849012604 Coenzyme A binding pocket [chemical binding]; other site 225849012605 HAMP domain; Region: HAMP; pfam00672 225849012606 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 225849012607 dimer interface [polypeptide binding]; other site 225849012608 phosphorylation site [posttranslational modification] 225849012609 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 225849012610 ATP binding site [chemical binding]; other site 225849012611 Mg2+ binding site [ion binding]; other site 225849012612 G-X-G motif; other site 225849012613 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 225849012614 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849012615 active site 225849012616 phosphorylation site [posttranslational modification] 225849012617 intermolecular recognition site; other site 225849012618 dimerization interface [polypeptide binding]; other site 225849012619 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 225849012620 Walker A motif; other site 225849012621 ATP binding site [chemical binding]; other site 225849012622 Walker B motif; other site 225849012623 arginine finger; other site 225849012624 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225849012625 PBP superfamily domain; Region: PBP_like_2; pfam12849 225849012626 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 225849012627 dimer interface [polypeptide binding]; other site 225849012628 conserved gate region; other site 225849012629 putative PBP binding loops; other site 225849012630 ABC-ATPase subunit interface; other site 225849012631 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 225849012632 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 225849012633 Walker A/P-loop; other site 225849012634 ATP binding site [chemical binding]; other site 225849012635 Q-loop/lid; other site 225849012636 ABC transporter signature motif; other site 225849012637 Walker B; other site 225849012638 D-loop; other site 225849012639 H-loop/switch region; other site 225849012640 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 225849012641 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 225849012642 GTP binding site; other site 225849012643 putative bifunctional molybdopterin-guanine dinucleotide biosynthesis protein MobB/MoeA; Provisional; Region: PRK14491 225849012644 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 225849012645 Walker A motif; other site 225849012646 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 225849012647 dimer interface [polypeptide binding]; other site 225849012648 putative functional site; other site 225849012649 putative MPT binding site; other site 225849012650 molybdenum cofactor biosynthesis protein A; Provisional; Region: PRK13361 225849012651 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 225849012652 FeS/SAM binding site; other site 225849012653 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 225849012654 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 225849012655 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 225849012656 Catalytic site [active] 225849012657 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 225849012658 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 225849012659 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 225849012660 Coenzyme A binding pocket [chemical binding]; other site 225849012661 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 225849012662 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 225849012663 DNA binding site [nucleotide binding] 225849012664 catalytic residue [active] 225849012665 H2TH interface [polypeptide binding]; other site 225849012666 putative catalytic residues [active] 225849012667 turnover-facilitating residue; other site 225849012668 intercalation triad [nucleotide binding]; other site 225849012669 8OG recognition residue [nucleotide binding]; other site 225849012670 putative reading head residues; other site 225849012671 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 225849012672 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 225849012673 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 225849012674 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 225849012675 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 225849012676 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 225849012677 active site 225849012678 (T/H)XGH motif; other site 225849012679 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 225849012680 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 225849012681 active site 225849012682 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 225849012683 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 225849012684 dimerization interface [polypeptide binding]; other site 225849012685 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 225849012686 dimer interface [polypeptide binding]; other site 225849012687 phosphorylation site [posttranslational modification] 225849012688 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 225849012689 ATP binding site [chemical binding]; other site 225849012690 Mg2+ binding site [ion binding]; other site 225849012691 G-X-G motif; other site 225849012692 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 225849012693 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 225849012694 active site 225849012695 phosphorylation site [posttranslational modification] 225849012696 intermolecular recognition site; other site 225849012697 dimerization interface [polypeptide binding]; other site 225849012698 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 225849012699 DNA binding site [nucleotide binding] 225849012700 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 225849012701 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 225849012702 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 225849012703 Walker A/P-loop; other site 225849012704 ATP binding site [chemical binding]; other site 225849012705 Q-loop/lid; other site 225849012706 ABC transporter signature motif; other site 225849012707 Walker B; other site 225849012708 D-loop; other site 225849012709 H-loop/switch region; other site 225849012710 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 225849012711 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 225849012712 dimer interface [polypeptide binding]; other site 225849012713 conserved gate region; other site 225849012714 putative PBP binding loops; other site 225849012715 ABC-ATPase subunit interface; other site 225849012716 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 225849012717 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 225849012718 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 225849012719 MoaE homodimer interface [polypeptide binding]; other site 225849012720 MoaD interaction [polypeptide binding]; other site 225849012721 active site residues [active] 225849012722 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 225849012723 MoaE interaction surface [polypeptide binding]; other site 225849012724 MoeB interaction surface [polypeptide binding]; other site 225849012725 thiocarboxylated glycine; other site 225849012726 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 225849012727 trimer interface [polypeptide binding]; other site 225849012728 dimer interface [polypeptide binding]; other site 225849012729 putative active site [active] 225849012730 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 225849012731 MPT binding site; other site 225849012732 trimer interface [polypeptide binding]; other site 225849012733 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 225849012734 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 225849012735 FeS/SAM binding site; other site 225849012736 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 225849012737 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 225849012738 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 225849012739 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 225849012740 Cache domain; Region: Cache_1; pfam02743 225849012741 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 225849012742 dimerization interface [polypeptide binding]; other site 225849012743 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 225849012744 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 225849012745 dimer interface [polypeptide binding]; other site 225849012746 putative CheW interface [polypeptide binding]; other site 225849012747 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 225849012748 6-N-hydroxylaminopurine resistance protein; Provisional; Region: PRK11536 225849012749 MOSC domain; Region: MOSC; pfam03473 225849012750 3-alpha domain; Region: 3-alpha; pfam03475 225849012751 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 225849012752 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 225849012753 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 225849012754 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 225849012755 metal binding site [ion binding]; metal-binding site 225849012756 active site 225849012757 I-site; other site 225849012758 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 225849012759 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 225849012760 substrate binding site [chemical binding]; other site 225849012761 ATP binding site [chemical binding]; other site 225849012762 coproporphyrinogen III oxidase; Provisional; Region: PRK08629 225849012763 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 225849012764 FeS/SAM binding site; other site 225849012765 radical SAM/SPASM domain, FxsB family; Region: SAM_SPASM_FxsB; TIGR04269 225849012766 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 225849012767 FeS/SAM binding site; other site 225849012768 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 225849012769 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 225849012770 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 225849012771 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 225849012772 [4Fe-4S] binding site [ion binding]; other site 225849012773 molybdopterin cofactor binding site; other site 225849012774 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 225849012775 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 225849012776 molybdopterin cofactor binding site; other site 225849012777 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 225849012778 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 225849012779 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 225849012780 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 225849012781 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 225849012782 [4Fe-4S] binding site [ion binding]; other site 225849012783 molybdopterin cofactor binding site; other site 225849012784 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 225849012785 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 225849012786 molybdopterin cofactor binding site; other site 225849012787 formate dehydrogenase region TAT target; Region: formate_TAT; TIGR02811 225849012788 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 225849012789 Ferredoxin [Energy production and conversion]; Region: COG1146 225849012790 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 225849012791 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 225849012792 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 225849012793 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 225849012794 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 225849012795 Helix-turn-helix domain; Region: HTH_17; pfam12728 225849012796 PBP superfamily domain; Region: PBP_like; pfam12727 225849012797 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 225849012798 Protein of unknown function (DUF890); Region: Methyltransf_10; pfam05971 225849012799 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 225849012800 S-adenosylmethionine binding site [chemical binding]; other site 225849012801 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 225849012802 Chorismate lyase; Region: Chor_lyase; cl01230 225849012803 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4412 225849012804 Immune inhibitor A peptidase M6; Region: Peptidase_M6; cl11525 225849012805 FOG: PKD repeat [General function prediction only]; Region: COG3291 225849012806 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 225849012807 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 225849012808 alpha-glucosidase; Provisional; Region: PRK10137 225849012809 Trehalase; Region: Trehalase; cl17346 225849012810 MarC family integral membrane protein; Region: MarC; cl00919 225849012811 NRDE protein; Region: NRDE; cl01315 225849012812 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 225849012813 SnoaL-like domain; Region: SnoaL_3; pfam13474 225849012814 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 225849012815 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 225849012816 putative acyl-acceptor binding pocket; other site 225849012817 LysE type translocator; Region: LysE; cl00565 225849012818 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 225849012819 bifunctional heptose 7-phosphate kinase/heptose 1-phosphate adenyltransferase; Provisional; Region: PRK11316 225849012820 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 225849012821 putative ribose interaction site [chemical binding]; other site 225849012822 putative ADP binding site [chemical binding]; other site 225849012823 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 225849012824 active site 225849012825 nucleotide binding site [chemical binding]; other site 225849012826 HIGH motif; other site 225849012827 KMSKS motif; other site 225849012828 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 225849012829 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 225849012830 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 225849012831 ADP-L-glycero-D-mannoheptose-6-epimerase; Provisional; Region: rfaD; PRK11150 225849012832 NADP binding site [chemical binding]; other site 225849012833 homopentamer interface [polypeptide binding]; other site 225849012834 substrate binding site [chemical binding]; other site 225849012835 active site 225849012836 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 225849012837 active site 225849012838 nucleotide binding site [chemical binding]; other site 225849012839 HIGH motif; other site 225849012840 KMSKS motif; other site 225849012841 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 225849012842 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 225849012843 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 225849012844 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 225849012845 Sialyltransferase PMO188; Region: PM0188; pfam11477 225849012846 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 225849012847 Glycosyltransferase family 9 (heptosyltransferase); Region: Glyco_transf_9; pfam01075 225849012848 putative active site [active] 225849012849 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 225849012850 Lipopolysaccharide kinase (Kdo/WaaP) family; Region: Kdo; pfam06293 225849012851 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 225849012852 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 225849012853 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 225849012854 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 225849012855 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 225849012856 Bacterial transcriptional repressor; Region: TetR; pfam13972 225849012857 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 225849012858 Transposase; Region: HTH_Tnp_1; pfam01527 225849012859 Integrase core domain; Region: rve; pfam00665 225849012860 Integrase core domain; Region: rve_3; pfam13683 225849012861 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 225849012862 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 225849012863 substrate-cofactor binding pocket; other site 225849012864 pyridoxal 5'-phosphate binding site [chemical binding]; other site 225849012865 catalytic residue [active] 225849012866 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 225849012867 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 225849012868 NAD(P) binding site [chemical binding]; other site 225849012869 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 225849012870 active site residue [active] 225849012871 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 225849012872 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 225849012873 Rhomboid family; Region: Rhomboid; pfam01694 225849012874 lipopolysaccharide core biosynthesis protein; Provisional; Region: PRK10422 225849012875 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 225849012876 putative active site [active] 225849012877 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 225849012878 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 225849012879 conserved cys residue [active] 225849012880 DNA polymerase I; Provisional; Region: PRK05755 225849012881 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 225849012882 active site 225849012883 metal binding site 1 [ion binding]; metal-binding site 225849012884 putative 5' ssDNA interaction site; other site 225849012885 metal binding site 3; metal-binding site 225849012886 metal binding site 2 [ion binding]; metal-binding site 225849012887 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 225849012888 putative DNA binding site [nucleotide binding]; other site 225849012889 putative metal binding site [ion binding]; other site 225849012890 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 225849012891 active site 225849012892 catalytic site [active] 225849012893 substrate binding site [chemical binding]; other site 225849012894 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 225849012895 active site 225849012896 DNA binding site [nucleotide binding] 225849012897 catalytic site [active] 225849012898 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 225849012899 G1 box; other site 225849012900 GTP/Mg2+ binding site [chemical binding]; other site 225849012901 Switch I region; other site 225849012902 G2 box; other site 225849012903 G3 box; other site 225849012904 Switch II region; other site 225849012905 G4 box; other site 225849012906 G5 box; other site 225849012907 Cytochrome c553 [Energy production and conversion]; Region: COG2863 225849012908 Cytochrome c; Region: Cytochrom_C; cl11414 225849012909 Methyltransferase domain; Region: Methyltransf_23; pfam13489 225849012910 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 225849012911 Der GTPase activator; Provisional; Region: PRK05244 225849012912 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 225849012913 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 225849012914 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 225849012915 FeS/SAM binding site; other site 225849012916 HemN C-terminal domain; Region: HemN_C; pfam06969 225849012917 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 225849012918 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 225849012919 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 225849012920 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 225849012921 FHIPEP family; Region: FHIPEP; pfam00771 225849012922 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 225849012923 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 225849012924 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 225849012925 Bacterial export proteins, family 3; Region: Bac_export_3; cl00867 225849012926 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 225849012927 flagellar motor switch protein FliN; Region: fliN; TIGR02480 225849012928 type III secretion system apparatus protein YscQ/HrcQ; Region: SpaO_YscQ; TIGR02551 225849012929 flagellar motor switch protein FliM; Region: fliM_switch; TIGR01397 225849012930 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 225849012931 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225849012932 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 225849012933 ligand binding site [chemical binding]; other site 225849012934 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 225849012935 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 225849012936 Walker A motif; other site 225849012937 ATP binding site [chemical binding]; other site 225849012938 Walker B motif; other site 225849012939 arginine finger; other site 225849012940 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 225849012941 Flagellar hook-basal body complex protein FliE; Region: FliE; pfam02049 225849012942 flagellar MS-ring protein; Reviewed; Region: fliF; PRK07193 225849012943 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 225849012944 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 225849012945 flagellar motor switch protein G; Reviewed; Region: fliG; PRK07194 225849012946 FliG C-terminal domain; Region: FliG_C; pfam01706 225849012947 flagellar assembly protein H; Provisional; Region: fliH; PRK13386 225849012948 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 225849012949 Flagellar assembly protein FliH; Region: FliH; pfam02108 225849012950 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 225849012951 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 225849012952 Walker A motif; other site 225849012953 ATP binding site [chemical binding]; other site 225849012954 Walker B motif; other site 225849012955 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 225849012956 RNA polymerase sigma factor SigZ; Provisional; Region: PRK09637 225849012957 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225849012958 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 225849012959 DNA binding residues [nucleotide binding] 225849012960 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 225849012961 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 225849012962 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 225849012963 N-terminal domain interface [polypeptide binding]; other site 225849012964 dimer interface [polypeptide binding]; other site 225849012965 substrate binding pocket (H-site) [chemical binding]; other site 225849012966 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 225849012967 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 225849012968 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 225849012969 putative active site [active] 225849012970 putative NTP binding site [chemical binding]; other site 225849012971 putative nucleic acid binding site [nucleotide binding]; other site 225849012972 FlgN protein; Region: FlgN; pfam05130 225849012973 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 225849012974 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 225849012975 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 225849012976 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 225849012977 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK12685 225849012978 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK06802 225849012979 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 225849012980 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK09619 225849012981 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 225849012982 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 225849012983 flagellar hook protein FlgE; Validated; Region: flgE; PRK06803 225849012984 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 225849012985 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 225849012986 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 225849012987 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 225849012988 flagellar basal-body rod protein FlgF; Region: flgF; TIGR02490 225849012989 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 225849012990 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 225849012991 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 225849012992 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK00249 225849012993 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12407 225849012994 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 225849012995 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 225849012996 peptidoglycan hydrolase; Reviewed; Region: flgJ; PRK12708 225849012997 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK07191 225849012998 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 225849012999 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 225849013000 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK07192 225849013001 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 225849013002 flagellin; Provisional; Region: PRK12802 225849013003 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 225849013004 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 225849013005 flagellar capping protein; Reviewed; Region: fliD; PRK08032 225849013006 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 225849013007 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 225849013008 Flagellar protein FliS; Region: FliS; cl00654 225849013009 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 225849013010 Flagellar basal body-associated protein FliL; Region: FliL; pfam03748 225849013011 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 225849013012 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 225849013013 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 225849013014 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 225849013015 DNA binding residues [nucleotide binding] 225849013016 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 225849013017 flagellar motor stator protein MotA; Region: MotA1; TIGR03818 225849013018 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 225849013019 hypothetical protein; Validated; Region: PRK06778 225849013020 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 225849013021 ligand binding site [chemical binding]; other site 225849013022 Polyferredoxin [Energy production and conversion]; Region: NapH; COG0348 225849013023 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 225849013024 4Fe-4S binding domain; Region: Fer4_5; pfam12801 225849013025 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 225849013026 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 225849013027 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 225849013028 substrate binding site [chemical binding]; other site 225849013029 oxyanion hole (OAH) forming residues; other site 225849013030 trimer interface [polypeptide binding]; other site 225849013031 Predicted membrane protein [Function unknown]; Region: COG3205 225849013032 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 225849013033 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 225849013034 PBP superfamily domain; Region: PBP_like_2; cl17296 225849013035 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 225849013036 phosphate ABC transporter, permease protein PstC; Region: phosphate_pstC; TIGR02138 225849013037 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 225849013038 dimer interface [polypeptide binding]; other site 225849013039 conserved gate region; other site 225849013040 putative PBP binding loops; other site 225849013041 ABC-ATPase subunit interface; other site 225849013042 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 225849013043 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 225849013044 dimer interface [polypeptide binding]; other site 225849013045 conserved gate region; other site 225849013046 putative PBP binding loops; other site 225849013047 ABC-ATPase subunit interface; other site 225849013048 phosphate ABC transporter ATP-binding protein; Provisional; Region: PRK14253 225849013049 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 225849013050 Walker A/P-loop; other site 225849013051 ATP binding site [chemical binding]; other site 225849013052 Q-loop/lid; other site 225849013053 ABC transporter signature motif; other site 225849013054 Walker B; other site 225849013055 D-loop; other site 225849013056 H-loop/switch region; other site 225849013057 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 225849013058 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 225849013059 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 225849013060 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 225849013061 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 225849013062 glutaminase active site [active] 225849013063 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 225849013064 dimer interface [polypeptide binding]; other site 225849013065 active site 225849013066 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 225849013067 dimer interface [polypeptide binding]; other site 225849013068 active site 225849013069 DNA-bindng transcriptional repressor SrlR; Provisional; Region: srlR; PRK10434 225849013070 helix_turn_helix, Deoxyribose operon repressor; Region: HTH_DEOR; smart00420 225849013071 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 225849013072 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 225849013073 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 225849013074 N-terminal plug; other site 225849013075 ligand-binding site [chemical binding]; other site 225849013076 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK09451 225849013077 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 225849013078 Substrate binding site; other site 225849013079 Mg++ binding site; other site 225849013080 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 225849013081 active site 225849013082 substrate binding site [chemical binding]; other site 225849013083 CoA binding site [chemical binding]; other site 225849013084 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 225849013085 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 225849013086 gamma subunit interface [polypeptide binding]; other site 225849013087 epsilon subunit interface [polypeptide binding]; other site 225849013088 LBP interface [polypeptide binding]; other site 225849013089 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 225849013090 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 225849013091 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 225849013092 alpha subunit interaction interface [polypeptide binding]; other site 225849013093 Walker A motif; other site 225849013094 ATP binding site [chemical binding]; other site 225849013095 Walker B motif; other site 225849013096 inhibitor binding site; inhibition site 225849013097 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 225849013098 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 225849013099 core domain interface [polypeptide binding]; other site 225849013100 delta subunit interface [polypeptide binding]; other site 225849013101 epsilon subunit interface [polypeptide binding]; other site 225849013102 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 225849013103 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 225849013104 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 225849013105 beta subunit interaction interface [polypeptide binding]; other site 225849013106 Walker A motif; other site 225849013107 ATP binding site [chemical binding]; other site 225849013108 Walker B motif; other site 225849013109 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 225849013110 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 225849013111 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 225849013112 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 225849013113 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 225849013114 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 225849013115 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 225849013116 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 225849013117 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 225849013118 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 225849013119 ParB-like nuclease domain; Region: ParBc; pfam02195 225849013120 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 225849013121 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 225849013122 P-loop; other site 225849013123 Magnesium ion binding site [ion binding]; other site 225849013124 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 225849013125 Magnesium ion binding site [ion binding]; other site 225849013126 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 225849013127 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 225849013128 S-adenosylmethionine binding site [chemical binding]; other site 225849013129 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 225849013130 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 225849013131 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 225849013132 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932