-- dump date 20140619_115727 -- class Genbank::misc_feature -- table misc_feature_note -- id note 1321370000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 1321370000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 1321370000003 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 1321370000004 Walker A motif; other site 1321370000005 ATP binding site [chemical binding]; other site 1321370000006 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 1321370000007 Walker B motif; other site 1321370000008 arginine finger; other site 1321370000009 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 1321370000010 DnaA box-binding interface [nucleotide binding]; other site 1321370000011 DNA polymerase III subunit beta; Validated; Region: PRK05643 1321370000012 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 1321370000013 putative DNA binding surface [nucleotide binding]; other site 1321370000014 dimer interface [polypeptide binding]; other site 1321370000015 beta-clamp/clamp loader binding surface; other site 1321370000016 beta-clamp/translesion DNA polymerase binding surface; other site 1321370000017 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1321370000018 recombination protein F; Reviewed; Region: recF; PRK00064 1321370000019 Q-loop/lid; other site 1321370000020 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1321370000021 ABC transporter signature motif; other site 1321370000022 Walker B; other site 1321370000023 D-loop; other site 1321370000024 H-loop/switch region; other site 1321370000025 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 1321370000026 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 1321370000027 ATP binding site [chemical binding]; other site 1321370000028 Mg2+ binding site [ion binding]; other site 1321370000029 G-X-G motif; other site 1321370000030 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 1321370000031 anchoring element; other site 1321370000032 dimer interface [polypeptide binding]; other site 1321370000033 ATP binding site [chemical binding]; other site 1321370000034 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 1321370000035 active site 1321370000036 putative metal-binding site [ion binding]; other site 1321370000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1321370000038 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 1321370000039 DALR anticodon binding domain; Region: DALR_1; pfam05746 1321370000040 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 1321370000041 dimer interface [polypeptide binding]; other site 1321370000042 motif 1; other site 1321370000043 active site 1321370000044 motif 2; other site 1321370000045 motif 3; other site 1321370000046 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 1321370000047 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1321370000048 Coenzyme A binding pocket [chemical binding]; other site 1321370000049 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 1321370000050 CPxP motif; other site 1321370000051 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 1321370000052 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 1321370000053 dimer interface [polypeptide binding]; other site 1321370000054 active site 1321370000055 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 1321370000056 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 1321370000057 substrate binding site [chemical binding]; other site 1321370000058 oxyanion hole (OAH) forming residues; other site 1321370000059 trimer interface [polypeptide binding]; other site 1321370000060 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1321370000061 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1321370000062 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1321370000063 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 1321370000064 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1321370000065 catalytic residue [active] 1321370000066 proline dipeptidase; Provisional; Region: PRK13607 1321370000067 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 1321370000068 active site 1321370000069 hypothetical protein; Provisional; Region: PRK11568 1321370000070 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 1321370000071 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 1321370000072 potassium transporter peripheral membrane component; Reviewed; Region: trkA; PRK09496 1321370000073 TrkA-N domain; Region: TrkA_N; pfam02254 1321370000074 TrkA-C domain; Region: TrkA_C; pfam02080 1321370000075 TrkA-N domain; Region: TrkA_N; pfam02254 1321370000076 TrkA-C domain; Region: TrkA_C; pfam02080 1321370000077 16S rRNA methyltransferase B; Provisional; Region: PRK10901 1321370000078 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 1321370000079 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 1321370000080 S-adenosylmethionine binding site [chemical binding]; other site 1321370000081 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 1321370000082 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 1321370000083 putative active site [active] 1321370000084 substrate binding site [chemical binding]; other site 1321370000085 putative cosubstrate binding site; other site 1321370000086 catalytic site [active] 1321370000087 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 1321370000088 substrate binding site [chemical binding]; other site 1321370000089 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 1321370000090 active site 1321370000091 catalytic residues [active] 1321370000092 metal binding site [ion binding]; metal-binding site 1321370000093 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 1321370000094 DNA protecting protein DprA; Region: dprA; TIGR00732 1321370000095 Protein of unknown function (DUF494); Region: DUF494; pfam04361 1321370000096 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1321370000097 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 1321370000098 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1321370000099 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1321370000100 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1321370000101 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 1321370000102 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 1321370000103 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 1321370000104 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 1321370000105 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 1321370000106 NAD(P) binding site [chemical binding]; other site 1321370000107 shikimate binding site; other site 1321370000108 DNA polymerase I; Provisional; Region: PRK05755 1321370000109 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 1321370000110 active site 1321370000111 metal binding site 1 [ion binding]; metal-binding site 1321370000112 putative 5' ssDNA interaction site; other site 1321370000113 metal binding site 3; metal-binding site 1321370000114 metal binding site 2 [ion binding]; metal-binding site 1321370000115 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 1321370000116 putative DNA binding site [nucleotide binding]; other site 1321370000117 putative metal binding site [ion binding]; other site 1321370000118 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 1321370000119 active site 1321370000120 catalytic site [active] 1321370000121 substrate binding site [chemical binding]; other site 1321370000122 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 1321370000123 active site 1321370000124 DNA binding site [nucleotide binding] 1321370000125 catalytic site [active] 1321370000126 EamA-like transporter family; Region: EamA; pfam00892 1321370000127 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1321370000128 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 1321370000129 G1 box; other site 1321370000130 GTP/Mg2+ binding site [chemical binding]; other site 1321370000131 Switch I region; other site 1321370000132 G2 box; other site 1321370000133 G3 box; other site 1321370000134 Switch II region; other site 1321370000135 G4 box; other site 1321370000136 G5 box; other site 1321370000137 Cytochrome c553 [Energy production and conversion]; Region: COG2863 1321370000138 Cytochrome c; Region: Cytochrom_C; cl11414 1321370000139 Der GTPase activator; Provisional; Region: PRK05244 1321370000140 Protein of unknown function (DUF2489); Region: DUF2489; pfam10675 1321370000141 serine O-acetyltransferase; Region: cysE; TIGR01172 1321370000142 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 1321370000143 trimer interface [polypeptide binding]; other site 1321370000144 active site 1321370000145 substrate binding site [chemical binding]; other site 1321370000146 CoA binding site [chemical binding]; other site 1321370000147 PAS domain; Region: PAS_9; pfam13426 1321370000148 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 1321370000149 putative active site [active] 1321370000150 heme pocket [chemical binding]; other site 1321370000151 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1321370000152 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1321370000153 dimer interface [polypeptide binding]; other site 1321370000154 putative CheW interface [polypeptide binding]; other site 1321370000155 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 1321370000156 DNA-binding site [nucleotide binding]; DNA binding site 1321370000157 RNA-binding motif; other site 1321370000158 Isochorismatase family; Region: Isochorismatase; pfam00857 1321370000159 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 1321370000160 catalytic triad [active] 1321370000161 dimer interface [polypeptide binding]; other site 1321370000162 conserved cis-peptide bond; other site 1321370000163 AIR carboxylase; Region: AIRC; pfam00731 1321370000164 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 1321370000165 ATP-grasp domain; Region: ATP-grasp; pfam02222 1321370000166 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 1321370000167 putative hydrolase; Provisional; Region: PRK11460 1321370000168 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 1321370000169 Prephenate dehydratase; Region: PDT; pfam00800 1321370000170 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 1321370000171 putative L-Phe binding site [chemical binding]; other site 1321370000172 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1321370000173 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1321370000174 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1321370000175 alanine racemase; Reviewed; Region: alr; PRK00053 1321370000176 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 1321370000177 active site 1321370000178 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1321370000179 substrate binding site [chemical binding]; other site 1321370000180 catalytic residues [active] 1321370000181 dimer interface [polypeptide binding]; other site 1321370000182 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 1321370000183 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 1321370000184 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 1321370000185 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 1321370000186 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 1321370000187 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 1321370000188 Amidohydrolase; Region: Amidohydro_4; pfam13147 1321370000189 active site 1321370000190 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1321370000191 Beta-lactamase; Region: Beta-lactamase; pfam00144 1321370000192 Domain of unknown function (DUF3471); Region: DUF3471; pfam11954 1321370000193 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1321370000194 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 1321370000195 putative C-terminal domain interface [polypeptide binding]; other site 1321370000196 putative GSH binding site (G-site) [chemical binding]; other site 1321370000197 putative dimer interface [polypeptide binding]; other site 1321370000198 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 1321370000199 dimer interface [polypeptide binding]; other site 1321370000200 N-terminal domain interface [polypeptide binding]; other site 1321370000201 putative substrate binding pocket (H-site) [chemical binding]; other site 1321370000202 Predicted transcriptional regulator [Transcription]; Region: COG2378 1321370000203 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 1321370000204 dimerization interface [polypeptide binding]; other site 1321370000205 putative Zn2+ binding site [ion binding]; other site 1321370000206 putative DNA binding site [nucleotide binding]; other site 1321370000207 WYL domain; Region: WYL; pfam13280 1321370000208 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 1321370000209 catalytic motif [active] 1321370000210 Zn binding site [ion binding]; other site 1321370000211 Integrase core domain; Region: rve; pfam00665 1321370000212 Integrase core domain; Region: rve_2; pfam13333 1321370000213 HTH-like domain; Region: HTH_21; pfam13276 1321370000214 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1321370000215 EamA-like transporter family; Region: EamA; pfam00892 1321370000216 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1321370000217 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1321370000218 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 1321370000219 dimerization interface [polypeptide binding]; other site 1321370000220 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1321370000221 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1321370000222 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 1321370000223 DNA binding residues [nucleotide binding] 1321370000224 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 1321370000225 Domain of unknown function (DUF4412); Region: DUF4412; pfam14371 1321370000226 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1321370000227 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 1321370000228 non-specific DNA binding site [nucleotide binding]; other site 1321370000229 salt bridge; other site 1321370000230 sequence-specific DNA binding site [nucleotide binding]; other site 1321370000231 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 1321370000232 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 1321370000233 non-specific DNA binding site [nucleotide binding]; other site 1321370000234 salt bridge; other site 1321370000235 sequence-specific DNA binding site [nucleotide binding]; other site 1321370000236 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1321370000237 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1321370000238 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1321370000239 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1321370000240 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1321370000241 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 1321370000242 DNA binding residues [nucleotide binding] 1321370000243 dimerization interface [polypeptide binding]; other site 1321370000244 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 1321370000245 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1321370000246 Protein export membrane protein; Region: SecD_SecF; cl14618 1321370000247 Protein of unknown function (DUF3240); Region: DUF3240; pfam11582 1321370000248 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1321370000249 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1321370000250 thioredoxin 2; Provisional; Region: PRK10996 1321370000251 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 1321370000252 catalytic residues [active] 1321370000253 Predicted membrane protein [Function unknown]; Region: COG1238 1321370000254 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1321370000255 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 1321370000256 N-terminal plug; other site 1321370000257 ligand-binding site [chemical binding]; other site 1321370000258 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1321370000259 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1321370000260 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 1321370000261 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 1321370000262 DNA binding site [nucleotide binding] 1321370000263 active site 1321370000264 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1321370000265 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1321370000266 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 1321370000267 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 1321370000268 NAD(P) binding site [chemical binding]; other site 1321370000269 catalytic residues [active] 1321370000270 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 1321370000271 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 1321370000272 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1321370000273 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1321370000274 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1321370000275 dimerization interface [polypeptide binding]; other site 1321370000276 DPS ferroxidase diiron center [ion binding]; other site 1321370000277 ion pore; other site 1321370000278 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1321370000279 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 1321370000280 active site 1321370000281 FMN binding site [chemical binding]; other site 1321370000282 substrate binding site [chemical binding]; other site 1321370000283 homotetramer interface [polypeptide binding]; other site 1321370000284 catalytic residue [active] 1321370000285 TraB family; Region: TraB; pfam01963 1321370000286 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 1321370000287 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 1321370000288 MarR family; Region: MarR; pfam01047 1321370000289 MarR family; Region: MarR_2; cl17246 1321370000290 Glycosyl hydrolase family 43, includes arabinoxylan arabinofuranohydrolase, beta-xylosidase, endo-1,4-beta-xylanase, alpha-L-arabinofuranosidase; Region: GH43_AXH_like; cd08990 1321370000291 substrate binding site [chemical binding]; other site 1321370000292 active site 1321370000293 active site 1321370000294 Alpha-L-arabinofuranosidase B (ABFB); Region: AbfB; pfam05270 1321370000295 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 1321370000296 classical (c) SDRs; Region: SDR_c; cd05233 1321370000297 NAD(P) binding site [chemical binding]; other site 1321370000298 active site 1321370000299 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1321370000300 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1321370000301 putative active site [active] 1321370000302 putative metal binding site [ion binding]; other site 1321370000303 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1321370000304 Sulfatase; Region: Sulfatase; pfam00884 1321370000305 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1321370000306 Thermostable hemolysin; Region: T_hemolysin; pfam12261 1321370000307 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1321370000308 AMP-binding enzyme; Region: AMP-binding; pfam00501 1321370000309 acyl-activating enzyme (AAE) consensus motif; other site 1321370000310 AMP binding site [chemical binding]; other site 1321370000311 active site 1321370000312 CoA binding site [chemical binding]; other site 1321370000313 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 1321370000314 heme binding pocket [chemical binding]; other site 1321370000315 heme ligand [chemical binding]; other site 1321370000316 short chain dehydrogenase; Provisional; Region: PRK09072 1321370000317 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1321370000318 NAD(P) binding site [chemical binding]; other site 1321370000319 active site 1321370000320 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 1321370000321 TPR motif; other site 1321370000322 binding surface 1321370000323 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1321370000324 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370000325 active site 1321370000326 phosphorylation site [posttranslational modification] 1321370000327 intermolecular recognition site; other site 1321370000328 dimerization interface [polypeptide binding]; other site 1321370000329 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 1321370000330 DNA binding site [nucleotide binding] 1321370000331 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1321370000332 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 1321370000333 dimer interface [polypeptide binding]; other site 1321370000334 phosphorylation site [posttranslational modification] 1321370000335 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 1321370000336 ATP binding site [chemical binding]; other site 1321370000337 Mg2+ binding site [ion binding]; other site 1321370000338 G-X-G motif; other site 1321370000339 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 1321370000340 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 1321370000341 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1321370000342 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1321370000343 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 1321370000344 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370000345 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370000346 metal binding site [ion binding]; metal-binding site 1321370000347 active site 1321370000348 I-site; other site 1321370000349 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1321370000350 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 1321370000351 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 1321370000352 Phytase; Region: Phytase; cl17685 1321370000353 Phytase; Region: Phytase; cl17685 1321370000354 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 1321370000355 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 1321370000356 active site 1321370000357 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 1321370000358 Isochorismatase family; Region: Isochorismatase; pfam00857 1321370000359 catalytic triad [active] 1321370000360 metal binding site [ion binding]; metal-binding site 1321370000361 conserved cis-peptide bond; other site 1321370000362 Macro domain, Appr-1"-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly...; Region: Macro_Appr_pase_like; cd02908 1321370000363 putative ADP-ribose binding site [chemical binding]; other site 1321370000364 putative active site [active] 1321370000365 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1321370000366 Methyltransferase domain; Region: Methyltransf_11; pfam08241 1321370000367 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1321370000368 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1321370000369 dimer interface [polypeptide binding]; other site 1321370000370 active site 1321370000371 heme binding site [chemical binding]; other site 1321370000372 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1321370000373 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1321370000374 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 1321370000375 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1321370000376 classical (c) SDRs; Region: SDR_c; cd05233 1321370000377 NAD(P) binding site [chemical binding]; other site 1321370000378 active site 1321370000379 Cytochrome c; Region: Cytochrom_C; pfam00034 1321370000380 High-affinity Fe2+/Pb2+ permease [Inorganic ion transport and metabolism]; Region: FTR1; COG0672 1321370000381 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 1321370000382 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 1321370000383 N-terminal plug; other site 1321370000384 ligand-binding site [chemical binding]; other site 1321370000385 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 1321370000386 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 1321370000387 intersubunit interface [polypeptide binding]; other site 1321370000388 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 1321370000389 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 1321370000390 ABC-ATPase subunit interface; other site 1321370000391 dimer interface [polypeptide binding]; other site 1321370000392 putative PBP binding regions; other site 1321370000393 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 1321370000394 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 1321370000395 Walker A/P-loop; other site 1321370000396 ATP binding site [chemical binding]; other site 1321370000397 Q-loop/lid; other site 1321370000398 ABC transporter signature motif; other site 1321370000399 Walker B; other site 1321370000400 D-loop; other site 1321370000401 H-loop/switch region; other site 1321370000402 Putative heme iron utilization protein [Inorganic ion transport and metabolism]; Region: HugZ; COG0748 1321370000403 Pyridoxamine 5'-phosphate oxidase; Region: Pyrid_oxidase_2; pfam13883 1321370000404 Protein of unknown function (DUF2470); Region: DUF2470; pfam10615 1321370000405 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1321370000406 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 1321370000407 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 1321370000408 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 1321370000409 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1321370000410 active site 1321370000411 metal binding site [ion binding]; metal-binding site 1321370000412 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 1321370000413 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1; Region: GT1_UGDG_like; cd03817 1321370000414 putative ADP-binding pocket [chemical binding]; other site 1321370000415 Protein of unknown function (DUF3429); Region: DUF3429; pfam11911 1321370000416 cryptochrome, DASH family; Region: crypto_DASH; TIGR02765 1321370000417 DNA photolyase; Region: DNA_photolyase; pfam00875 1321370000418 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 1321370000419 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1321370000420 NAD binding site [chemical binding]; other site 1321370000421 homodimer interface [polypeptide binding]; other site 1321370000422 active site 1321370000423 substrate binding site [chemical binding]; other site 1321370000424 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 1321370000425 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 1321370000426 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 1321370000427 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1321370000428 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1321370000429 putative acyl-acceptor binding pocket; other site 1321370000430 Phosphopantetheine attachment site; Region: PP-binding; cl09936 1321370000431 acyl carrier protein; Provisional; Region: PRK05350 1321370000432 Predicted membrane protein [Function unknown]; Region: COG4648 1321370000433 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 1321370000434 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1321370000435 AMP binding site [chemical binding]; other site 1321370000436 active site 1321370000437 acyl-activating enzyme (AAE) consensus motif; other site 1321370000438 CoA binding site [chemical binding]; other site 1321370000439 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 1321370000440 active site 2 [active] 1321370000441 dimer interface [polypeptide binding]; other site 1321370000442 active site 1 [active] 1321370000443 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 1321370000444 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1321370000445 Ligand binding site; other site 1321370000446 Putative Catalytic site; other site 1321370000447 DXD motif; other site 1321370000448 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1321370000449 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1321370000450 putative acyl-acceptor binding pocket; other site 1321370000451 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1321370000452 active sites [active] 1321370000453 tetramer interface [polypeptide binding]; other site 1321370000454 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 1321370000455 active site 1321370000456 Predicted exporter [General function prediction only]; Region: COG4258 1321370000457 Predicted exporter [General function prediction only]; Region: COG4258 1321370000458 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1321370000459 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1321370000460 Protein of unknown function (DUF3261); Region: DUF3261; pfam11659 1321370000461 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 1321370000462 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 1321370000463 dimer interface [polypeptide binding]; other site 1321370000464 active site 1321370000465 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 1321370000466 putative active site 1 [active] 1321370000467 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1321370000468 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 1321370000469 NAD(P) binding site [chemical binding]; other site 1321370000470 homotetramer interface [polypeptide binding]; other site 1321370000471 homodimer interface [polypeptide binding]; other site 1321370000472 active site 1321370000473 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 1321370000474 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 1321370000475 dimer interface [polypeptide binding]; other site 1321370000476 active site 1321370000477 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1321370000478 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1321370000479 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 1321370000480 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. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_4; cd03407 1321370000481 EAL domain; Region: EAL; pfam00563 1321370000482 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 1321370000483 probable FeS assembly SUF system protein SufT; Region: FeS_long_SufT; TIGR03406 1321370000484 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 1321370000485 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1321370000486 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 1321370000487 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1321370000488 catalytic residue [active] 1321370000489 FeS assembly protein SufD; Region: sufD; TIGR01981 1321370000490 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 1321370000491 FeS assembly ATPase SufC; Region: sufC; TIGR01978 1321370000492 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 1321370000493 Walker A/P-loop; other site 1321370000494 ATP binding site [chemical binding]; other site 1321370000495 Q-loop/lid; other site 1321370000496 ABC transporter signature motif; other site 1321370000497 Walker B; other site 1321370000498 D-loop; other site 1321370000499 H-loop/switch region; other site 1321370000500 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 1321370000501 putative ABC transporter; Region: ycf24; CHL00085 1321370000502 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1321370000503 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 1321370000504 DNA binding residues [nucleotide binding] 1321370000505 dimerization interface [polypeptide binding]; other site 1321370000506 Curli production assembly/transport component CsgG; Region: CsgG; pfam03783 1321370000507 Type VIII secretion system (T8SS), CsgF protein; Region: CsgF; cl08082 1321370000508 Curli assembly protein CsgE; Region: CsgE; pfam10627 1321370000509 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1321370000510 curlin minor subunit CsgB; Provisional; Region: csgB; PRK10101 1321370000511 Curlin associated repeat; Region: Curlin_rpt; pfam07012 1321370000512 Peptidase S8 family domain in Subtilisin-like proteins; Region: Peptidases_S8_Subtilisin_like; cd07473 1321370000513 catalytic triad [active] 1321370000514 putative active site [active] 1321370000515 Proprotein convertase P-domain; Region: P_proprotein; pfam01483 1321370000516 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 1321370000517 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 1321370000518 active site 1321370000519 catalytic triad [active] 1321370000520 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 1321370000521 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1321370000522 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1321370000523 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1321370000524 hypothetical protein; Provisional; Region: PRK12378 1321370000525 OmpW family; Region: OmpW; cl17427 1321370000526 Response regulator consisting of a CheY-like receiver domain and a Fis-type HTH domain [Signal transduction mechanisms / Transcription]; Region: COG4567 1321370000527 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370000528 active site 1321370000529 phosphorylation site [posttranslational modification] 1321370000530 intermolecular recognition site; other site 1321370000531 dimerization interface [polypeptide binding]; other site 1321370000532 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1321370000533 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1321370000534 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 1321370000535 ATP binding site [chemical binding]; other site 1321370000536 Mg2+ binding site [ion binding]; other site 1321370000537 G-X-G motif; other site 1321370000538 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 1321370000539 N-terminal plug; other site 1321370000540 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 1321370000541 ligand-binding site [chemical binding]; other site 1321370000542 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 1321370000543 dimerization interface [polypeptide binding]; other site 1321370000544 putative DNA binding site [nucleotide binding]; other site 1321370000545 putative Zn2+ binding site [ion binding]; other site 1321370000546 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 1321370000547 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1321370000548 Sterol-sensing domain of SREBP cleavage-activation; Region: Sterol-sensing; pfam12349 1321370000549 purine nucleoside phosphorylase; Reviewed; Region: deoD; PRK05819 1321370000550 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1321370000551 dimer interface [polypeptide binding]; other site 1321370000552 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1321370000553 putative CheW interface [polypeptide binding]; other site 1321370000554 Hemerythrin; Region: Hemerythrin; cd12107 1321370000555 Fe binding site [ion binding]; other site 1321370000556 Acyl transferase domain; Region: Acyl_transf_1; cl08282 1321370000557 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 1321370000558 tetramer interface [polypeptide binding]; other site 1321370000559 TPP-binding site [chemical binding]; other site 1321370000560 heterodimer interface [polypeptide binding]; other site 1321370000561 phosphorylation loop region [posttranslational modification] 1321370000562 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 1321370000563 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 1321370000564 alpha subunit interface [polypeptide binding]; other site 1321370000565 TPP binding site [chemical binding]; other site 1321370000566 heterodimer interface [polypeptide binding]; other site 1321370000567 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1321370000568 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 1321370000569 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1321370000570 FAD binding site [chemical binding]; other site 1321370000571 substrate binding pocket [chemical binding]; other site 1321370000572 catalytic base [active] 1321370000573 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 1321370000574 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 1321370000575 ligand binding site [chemical binding]; other site 1321370000576 flexible hinge region; other site 1321370000577 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 1321370000578 putative switch regulator; other site 1321370000579 non-specific DNA interactions [nucleotide binding]; other site 1321370000580 DNA binding site [nucleotide binding] 1321370000581 sequence specific DNA binding site [nucleotide binding]; other site 1321370000582 putative cAMP binding site [chemical binding]; other site 1321370000583 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 1321370000584 putative protease; Provisional; Region: PRK15452 1321370000585 Peptidase family U32; Region: Peptidase_U32; pfam01136 1321370000586 transcriptional regulator NarL; Provisional; Region: PRK10651 1321370000587 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370000588 active site 1321370000589 phosphorylation site [posttranslational modification] 1321370000590 intermolecular recognition site; other site 1321370000591 dimerization interface [polypeptide binding]; other site 1321370000592 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 1321370000593 DNA binding residues [nucleotide binding] 1321370000594 dimerization interface [polypeptide binding]; other site 1321370000595 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 1321370000596 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 1321370000597 Signal transduction histidine kinase, nitrate/nitrite-specific [Signal transduction mechanisms]; Region: NarQ; COG3850 1321370000598 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 1321370000599 dimerization interface [polypeptide binding]; other site 1321370000600 Histidine kinase; Region: HisKA_3; pfam07730 1321370000601 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 1321370000602 ATP binding site [chemical binding]; other site 1321370000603 Mg2+ binding site [ion binding]; other site 1321370000604 G-X-G motif; other site 1321370000605 Nitric oxide reductase large subunit [Inorganic ion transport and metabolism]; Region: NorB; COG3256 1321370000606 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: RNR_activ_nrdG3; TIGR02826 1321370000607 anaerobic ribonucleoside triphosphate reductase; Provisional; Region: PRK08271 1321370000608 Class III ribonucleotide reductase; Region: RNR_III; cd01675 1321370000609 effector binding site; other site 1321370000610 active site 1321370000611 Zn binding site [ion binding]; other site 1321370000612 glycine loop; other site 1321370000613 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 1321370000614 NHAD transporter family protein; Provisional; Region: PLN00137; cl17324 1321370000615 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 1321370000616 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 1321370000617 FeS/SAM binding site; other site 1321370000618 HemN C-terminal domain; Region: HemN_C; pfam06969 1321370000619 SCP-2 sterol transfer family; Region: SCP2; cl01225 1321370000620 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1321370000621 Peptidase family U32; Region: Peptidase_U32; pfam01136 1321370000622 putative protease; Provisional; Region: PRK15447 1321370000623 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 1321370000624 NnrS protein; Region: NnrS; pfam05940 1321370000625 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 1321370000626 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 1321370000627 GAF domain; Region: GAF; pfam01590 1321370000628 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 1321370000629 Walker A motif; other site 1321370000630 ATP binding site [chemical binding]; other site 1321370000631 Walker B motif; other site 1321370000632 arginine finger; other site 1321370000633 Hemerythrin-like domain; Region: Hr-like; cd12108 1321370000634 Domain of unknown function (DUF3393); Region: DUF3393; pfam11873 1321370000635 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1321370000636 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 1321370000637 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1321370000638 catalytic residue [active] 1321370000639 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 1321370000640 putative active site [active] 1321370000641 Zn binding site [ion binding]; other site 1321370000642 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 1321370000643 TrkA-N domain; Region: TrkA_N; pfam02254 1321370000644 TrkA-C domain; Region: TrkA_C; pfam02080 1321370000645 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1321370000646 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1321370000647 Cache domain; Region: Cache_1; pfam02743 1321370000648 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 1321370000649 dimerization interface [polypeptide binding]; other site 1321370000650 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1321370000651 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1321370000652 dimer interface [polypeptide binding]; other site 1321370000653 putative CheW interface [polypeptide binding]; other site 1321370000654 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 1321370000655 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 1321370000656 DNA polymerase IV; Validated; Region: PRK02406 1321370000657 DNA binding site [nucleotide binding] 1321370000658 active site 1321370000659 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 1321370000660 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1321370000661 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1321370000662 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1321370000663 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1321370000664 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370000665 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370000666 metal binding site [ion binding]; metal-binding site 1321370000667 active site 1321370000668 I-site; other site 1321370000669 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 1321370000670 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 1321370000671 Part of AAA domain; Region: AAA_19; pfam13245 1321370000672 Family description; Region: UvrD_C_2; pfam13538 1321370000673 Membrane fusogenic activity; Region: BMFP; pfam04380 1321370000674 ferredoxin-NADP reductase; Provisional; Region: PRK10926 1321370000675 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 1321370000676 FAD binding pocket [chemical binding]; other site 1321370000677 FAD binding motif [chemical binding]; other site 1321370000678 phosphate binding motif [ion binding]; other site 1321370000679 beta-alpha-beta structure motif; other site 1321370000680 NAD binding pocket [chemical binding]; other site 1321370000681 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1321370000682 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 1321370000683 catalytic residues [active] 1321370000684 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 1321370000685 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1321370000686 catalytic residues [active] 1321370000687 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 1321370000688 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 1321370000689 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1321370000690 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 1321370000691 DsbD alpha interface [polypeptide binding]; other site 1321370000692 catalytic residues [active] 1321370000693 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 1321370000694 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1321370000695 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 1321370000696 Walker A motif; other site 1321370000697 ATP binding site [chemical binding]; other site 1321370000698 Walker B motif; other site 1321370000699 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 1321370000700 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 1321370000701 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 1321370000702 tetramer interface [polypeptide binding]; other site 1321370000703 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370000704 catalytic residue [active] 1321370000705 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1321370000706 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 1321370000707 dimer interface [polypeptide binding]; other site 1321370000708 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370000709 catalytic residue [active] 1321370000710 Cys/Met metabolism PLP-dependent enzyme; Region: Cys_Met_Meta_PP; pfam01053 1321370000711 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 1321370000712 homodimer interface [polypeptide binding]; other site 1321370000713 substrate-cofactor binding pocket; other site 1321370000714 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370000715 catalytic residue [active] 1321370000716 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_18; cd08357 1321370000717 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1321370000718 putative metal binding site [ion binding]; other site 1321370000719 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 1321370000720 tetramer interface [polypeptide binding]; other site 1321370000721 serine racemase; Region: PLN02970 1321370000722 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370000723 catalytic residue [active] 1321370000724 Protein of unknown function (DUF416); Region: DUF416; pfam04222 1321370000725 Protein of unknown function (DUF1145); Region: DUF1145; cl11481 1321370000726 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 1321370000727 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 1321370000728 S-adenosylmethionine binding site [chemical binding]; other site 1321370000729 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 1321370000730 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 1321370000731 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 1321370000732 P loop; other site 1321370000733 GTP binding site [chemical binding]; other site 1321370000734 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 1321370000735 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1321370000736 Walker A/P-loop; other site 1321370000737 ATP binding site [chemical binding]; other site 1321370000738 Q-loop/lid; other site 1321370000739 ABC transporter signature motif; other site 1321370000740 Walker B; other site 1321370000741 D-loop; other site 1321370000742 H-loop/switch region; other site 1321370000743 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 1321370000744 putative protein insertion permease FtsX; Region: ftsX; TIGR00439 1321370000745 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 1321370000746 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1321370000747 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 1321370000748 DNA binding residues [nucleotide binding] 1321370000749 Flagellin N-methylase; Region: FliB; cl00497 1321370000750 Putative catalytic domain of family 2 polysaccharide deacetylases (DACs) from bacteria; Region: CE4_DAC2; cd10936 1321370000751 NodB motif; other site 1321370000752 putative active site [active] 1321370000753 putative catalytic site [active] 1321370000754 Zn binding site [ion binding]; other site 1321370000755 Membrane-bound metallopeptidase [Cell division and chromosome partitioning]; Region: COG4942 1321370000756 Peptidase family M23; Region: Peptidase_M23; pfam01551 1321370000757 phosphoglyceromutase; Provisional; Region: PRK05434 1321370000758 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 1321370000759 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 1321370000760 active site residue [active] 1321370000761 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 1321370000762 SecA binding site; other site 1321370000763 Preprotein binding site; other site 1321370000764 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1321370000765 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 1321370000766 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 1321370000767 division inhibitor protein; Provisional; Region: slmA; PRK09480 1321370000768 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1321370000769 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1321370000770 trimer interface [polypeptide binding]; other site 1321370000771 active site 1321370000772 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 1321370000773 Flavoprotein; Region: Flavoprotein; pfam02441 1321370000774 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 1321370000775 hypothetical protein; Reviewed; Region: PRK00024 1321370000776 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1321370000777 MPN+ (JAMM) motif; other site 1321370000778 Zinc-binding site [ion binding]; other site 1321370000779 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 1321370000780 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 1321370000781 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 1321370000782 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 1321370000783 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 1321370000784 DNA binding site [nucleotide binding] 1321370000785 catalytic residue [active] 1321370000786 H2TH interface [polypeptide binding]; other site 1321370000787 putative catalytic residues [active] 1321370000788 turnover-facilitating residue; other site 1321370000789 intercalation triad [nucleotide binding]; other site 1321370000790 8OG recognition residue [nucleotide binding]; other site 1321370000791 putative reading head residues; other site 1321370000792 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 1321370000793 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1321370000794 pimelyl-[acyl-carrier protein] methyl ester esterase; Region: bioH; TIGR01738 1321370000795 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 1321370000796 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1321370000797 active site 1321370000798 Fe/S biogenesis protein NfuA; Provisional; Region: PRK11190 1321370000799 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 1321370000800 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 1321370000801 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1321370000802 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1321370000803 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1321370000804 Domain of unknown function (DUF4397); Region: DUF4397; pfam14344 1321370000805 DinF and similar proteins, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_DinF_like; cd13136 1321370000806 DNA-damage-inducible SOS response protein; Provisional; Region: PRK10367 1321370000807 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 1321370000808 putative active site [active] 1321370000809 putative metal binding site [ion binding]; other site 1321370000810 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 1321370000811 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1321370000812 Cu(I) binding site [ion binding]; other site 1321370000813 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 1321370000814 UbiA prenyltransferase family; Region: UbiA; pfam01040 1321370000815 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 1321370000816 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 1321370000817 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 1321370000818 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 1321370000819 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 1321370000820 Subunit III/VIIa interface [polypeptide binding]; other site 1321370000821 Phospholipid binding site [chemical binding]; other site 1321370000822 Subunit I/III interface [polypeptide binding]; other site 1321370000823 Subunit III/VIb interface [polypeptide binding]; other site 1321370000824 Subunit III/VIa interface; other site 1321370000825 Subunit III/Vb interface [polypeptide binding]; other site 1321370000826 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 1321370000827 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 1321370000828 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 1321370000829 Subunit I/III interface [polypeptide binding]; other site 1321370000830 D-pathway; other site 1321370000831 Subunit I/VIIc interface [polypeptide binding]; other site 1321370000832 Subunit I/IV interface [polypeptide binding]; other site 1321370000833 Subunit I/II interface [polypeptide binding]; other site 1321370000834 Low-spin heme (heme a) binding site [chemical binding]; other site 1321370000835 Subunit I/VIIa interface [polypeptide binding]; other site 1321370000836 Subunit I/VIa interface [polypeptide binding]; other site 1321370000837 Dimer interface; other site 1321370000838 Putative water exit pathway; other site 1321370000839 Binuclear center (heme a3/CuB) [ion binding]; other site 1321370000840 K-pathway; other site 1321370000841 Subunit I/Vb interface [polypeptide binding]; other site 1321370000842 Putative proton exit pathway; other site 1321370000843 Subunit I/VIb interface; other site 1321370000844 Subunit I/VIc interface [polypeptide binding]; other site 1321370000845 Electron transfer pathway; other site 1321370000846 Subunit I/VIIIb interface [polypeptide binding]; other site 1321370000847 Subunit I/VIIb interface [polypeptide binding]; other site 1321370000848 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 1321370000849 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 1321370000850 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 1321370000851 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1321370000852 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1321370000853 LexA repressor; Validated; Region: PRK00215 1321370000854 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 1321370000855 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 1321370000856 Catalytic site [active] 1321370000857 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 1321370000858 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 1321370000859 putative acyl-acceptor binding pocket; other site 1321370000860 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 1321370000861 UbiA prenyltransferase family; Region: UbiA; pfam01040 1321370000862 Chorismate lyase; Region: Chor_lyase; cl01230 1321370000863 flagellar basal body-associated protein FliL-like protein; Validated; Region: PRK05697 1321370000864 Protein of unknown function (DUF3582); Region: DUF3582; pfam12122 1321370000865 rhomboid family protease GlpG; Region: rhombo_GlpG; TIGR04239 1321370000866 Rhomboid family; Region: Rhomboid; pfam01694 1321370000867 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 1321370000868 active site residue [active] 1321370000869 L-threonine 3-dehydrogenase; Validated; Region: tdh; PRK05396 1321370000870 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 1321370000871 NAD(P) binding site [chemical binding]; other site 1321370000872 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1321370000873 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 1321370000874 substrate-cofactor binding pocket; other site 1321370000875 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370000876 catalytic residue [active] 1321370000877 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 1321370000878 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 1321370000879 active site 1321370000880 (T/H)XGH motif; other site 1321370000881 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1321370000882 Na2 binding site [ion binding]; other site 1321370000883 putative substrate binding site 1 [chemical binding]; other site 1321370000884 Na binding site 1 [ion binding]; other site 1321370000885 putative substrate binding site 2 [chemical binding]; other site 1321370000886 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 1321370000887 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 1321370000888 active site 1321370000889 substrate-binding site [chemical binding]; other site 1321370000890 metal-binding site [ion binding] 1321370000891 ATP binding site [chemical binding]; other site 1321370000892 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 1321370000893 ATP-binding cassette domain of an uncharacterized transporter; Region: ABC_putative_ATPase; cd03269 1321370000894 Walker A/P-loop; other site 1321370000895 ATP binding site [chemical binding]; other site 1321370000896 Q-loop/lid; other site 1321370000897 ABC transporter signature motif; other site 1321370000898 Walker B; other site 1321370000899 D-loop; other site 1321370000900 H-loop/switch region; other site 1321370000901 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1321370000902 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1321370000903 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1321370000904 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 1321370000905 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1321370000906 Fatty acid desaturase; Region: FA_desaturase; pfam00487 1321370000907 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 1321370000908 Di-iron ligands [ion binding]; other site 1321370000909 SprA-related family; Region: SprA-related; pfam12118 1321370000910 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 1321370000911 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 1321370000912 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 1321370000913 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 1321370000914 RNA binding site [nucleotide binding]; other site 1321370000915 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 1321370000916 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1321370000917 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1321370000918 Tryptophan-rich protein (DUF2389); Region: DUF2389; pfam09493 1321370000919 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1321370000920 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 1321370000921 YaeQ protein; Region: YaeQ; pfam07152 1321370000922 Protein of unknown function (DUF4241); Region: DUF4241; pfam14025 1321370000923 putative lipid kinase; Reviewed; Region: PRK13057 1321370000924 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 1321370000925 Histidine kinase; Region: His_kinase; pfam06580 1321370000926 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 1321370000927 ATP binding site [chemical binding]; other site 1321370000928 Mg2+ binding site [ion binding]; other site 1321370000929 G-X-G motif; other site 1321370000930 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1321370000931 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370000932 active site 1321370000933 phosphorylation site [posttranslational modification] 1321370000934 intermolecular recognition site; other site 1321370000935 dimerization interface [polypeptide binding]; other site 1321370000936 LytTr DNA-binding domain; Region: LytTR; smart00850 1321370000937 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 1321370000938 Amidohydrolase; Region: Amidohydro_4; pfam13147 1321370000939 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 1321370000940 active site 1321370000941 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370000942 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370000943 metal binding site [ion binding]; metal-binding site 1321370000944 active site 1321370000945 I-site; other site 1321370000946 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 1321370000947 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 1321370000948 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 1321370000949 Predicted transcriptional regulator [Transcription]; Region: COG2944 1321370000950 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 1321370000951 non-specific DNA binding site [nucleotide binding]; other site 1321370000952 salt bridge; other site 1321370000953 sequence-specific DNA binding site [nucleotide binding]; other site 1321370000954 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 1321370000955 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1321370000956 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1321370000957 active site 1321370000958 metal binding site [ion binding]; metal-binding site 1321370000959 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_19; cd04678 1321370000960 nudix motif; other site 1321370000961 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1321370000962 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1321370000963 DNA-binding site [nucleotide binding]; DNA binding site 1321370000964 FCD domain; Region: FCD; pfam07729 1321370000965 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 1321370000966 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 1321370000967 putative deacylase active site [active] 1321370000968 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 1321370000969 Amidohydrolase; Region: Amidohydro_4; pfam13147 1321370000970 active site 1321370000971 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1321370000972 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1321370000973 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 1321370000974 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1321370000975 Walker A/P-loop; other site 1321370000976 ATP binding site [chemical binding]; other site 1321370000977 Q-loop/lid; other site 1321370000978 ABC transporter signature motif; other site 1321370000979 Walker B; other site 1321370000980 D-loop; other site 1321370000981 H-loop/switch region; other site 1321370000982 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 1321370000983 Histidine kinase; Region: HisKA_3; pfam07730 1321370000984 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 1321370000985 ATP binding site [chemical binding]; other site 1321370000986 Mg2+ binding site [ion binding]; other site 1321370000987 G-X-G motif; other site 1321370000988 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1321370000989 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370000990 active site 1321370000991 phosphorylation site [posttranslational modification] 1321370000992 intermolecular recognition site; other site 1321370000993 dimerization interface [polypeptide binding]; other site 1321370000994 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 1321370000995 DNA binding residues [nucleotide binding] 1321370000996 dimerization interface [polypeptide binding]; other site 1321370000997 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 1321370000998 Prostaglandin dehydrogenases; Region: PGDH; cd05288 1321370000999 NAD(P) binding site [chemical binding]; other site 1321370001000 substrate binding site [chemical binding]; other site 1321370001001 dimer interface [polypeptide binding]; other site 1321370001002 Domain of unknown function (DUF4282); Region: DUF4282; pfam14110 1321370001003 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 1321370001004 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1321370001005 substrate binding pocket [chemical binding]; other site 1321370001006 membrane-bound complex binding site; other site 1321370001007 hinge residues; other site 1321370001008 PAS fold; Region: PAS_4; pfam08448 1321370001009 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 1321370001010 putative active site [active] 1321370001011 heme pocket [chemical binding]; other site 1321370001012 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370001013 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370001014 metal binding site [ion binding]; metal-binding site 1321370001015 active site 1321370001016 I-site; other site 1321370001017 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 1321370001018 Ion channel; Region: Ion_trans_2; pfam07885 1321370001019 osmolarity response regulator; Provisional; Region: ompR; PRK09468 1321370001020 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370001021 active site 1321370001022 phosphorylation site [posttranslational modification] 1321370001023 intermolecular recognition site; other site 1321370001024 dimerization interface [polypeptide binding]; other site 1321370001025 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 1321370001026 DNA binding site [nucleotide binding] 1321370001027 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 1321370001028 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 1321370001029 dimerization interface [polypeptide binding]; other site 1321370001030 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 1321370001031 dimer interface [polypeptide binding]; other site 1321370001032 phosphorylation site [posttranslational modification] 1321370001033 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 1321370001034 ATP binding site [chemical binding]; other site 1321370001035 Mg2+ binding site [ion binding]; other site 1321370001036 G-X-G motif; other site 1321370001037 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 1321370001038 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1321370001039 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1321370001040 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1321370001041 adenosine nucleotide hydrolase NudE; Provisional; Region: nudE; PRK11762 1321370001042 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 1321370001043 dimer interface [polypeptide binding]; other site 1321370001044 ADP-ribose binding site [chemical binding]; other site 1321370001045 active site 1321370001046 nudix motif; other site 1321370001047 metal binding site [ion binding]; metal-binding site 1321370001048 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1321370001049 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 1321370001050 active site 1321370001051 hypothetical protein; Provisional; Region: PRK04966 1321370001052 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 1321370001053 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1321370001054 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1321370001055 Walker A/P-loop; other site 1321370001056 ATP binding site [chemical binding]; other site 1321370001057 Q-loop/lid; other site 1321370001058 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1321370001059 ABC transporter signature motif; other site 1321370001060 Walker B; other site 1321370001061 D-loop; other site 1321370001062 ABC transporter; Region: ABC_tran_2; pfam12848 1321370001063 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1321370001064 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 1321370001065 Uncharacterized conserved protein [Function unknown]; Region: COG0062 1321370001066 putative carbohydrate kinase; Provisional; Region: PRK10565 1321370001067 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 1321370001068 putative substrate binding site [chemical binding]; other site 1321370001069 putative ATP binding site [chemical binding]; other site 1321370001070 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 1321370001071 N-acetylmuramoyl-l-alanine amidase II; Provisional; Region: PRK10431 1321370001072 AMIN domain; Region: AMIN; pfam11741 1321370001073 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 1321370001074 active site 1321370001075 metal binding site [ion binding]; metal-binding site 1321370001076 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1321370001077 DNA mismatch repair protein MutL; Region: mutl; TIGR00585 1321370001078 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 1321370001079 Mg2+ binding site [ion binding]; other site 1321370001080 G-X-G motif; other site 1321370001081 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 1321370001082 ATP binding site [chemical binding]; other site 1321370001083 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 1321370001084 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 1321370001085 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 1321370001086 bacterial Hfq-like; Region: Hfq; cd01716 1321370001087 hexamer interface [polypeptide binding]; other site 1321370001088 Sm1 motif; other site 1321370001089 RNA binding site [nucleotide binding]; other site 1321370001090 Sm2 motif; other site 1321370001091 GTPase HflX; Provisional; Region: PRK11058 1321370001092 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 1321370001093 HflX GTPase family; Region: HflX; cd01878 1321370001094 G1 box; other site 1321370001095 GTP/Mg2+ binding site [chemical binding]; other site 1321370001096 Switch I region; other site 1321370001097 G2 box; other site 1321370001098 G3 box; other site 1321370001099 Switch II region; other site 1321370001100 G4 box; other site 1321370001101 G5 box; other site 1321370001102 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 1321370001103 HflK protein; Region: hflK; TIGR01933 1321370001104 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 1321370001105 FtsH protease regulator HflC; Provisional; Region: PRK11029 1321370001106 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 1321370001107 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 1321370001108 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 1321370001109 GDP-binding site [chemical binding]; other site 1321370001110 ACT binding site; other site 1321370001111 IMP binding site; other site 1321370001112 elongation factor Tu; Reviewed; Region: PRK00049 1321370001113 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1321370001114 G1 box; other site 1321370001115 GEF interaction site [polypeptide binding]; other site 1321370001116 GTP/Mg2+ binding site [chemical binding]; other site 1321370001117 Switch I region; other site 1321370001118 G2 box; other site 1321370001119 G3 box; other site 1321370001120 Switch II region; other site 1321370001121 G4 box; other site 1321370001122 G5 box; other site 1321370001123 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 1321370001124 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 1321370001125 Antibiotic Binding Site [chemical binding]; other site 1321370001126 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 1321370001127 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 1321370001128 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 1321370001129 putative homodimer interface [polypeptide binding]; other site 1321370001130 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1321370001131 heterodimer interface [polypeptide binding]; other site 1321370001132 homodimer interface [polypeptide binding]; other site 1321370001133 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 1321370001134 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 1321370001135 23S rRNA interface [nucleotide binding]; other site 1321370001136 L7/L12 interface [polypeptide binding]; other site 1321370001137 putative thiostrepton binding site; other site 1321370001138 L25 interface [polypeptide binding]; other site 1321370001139 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 1321370001140 mRNA/rRNA interface [nucleotide binding]; other site 1321370001141 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 1321370001142 23S rRNA interface [nucleotide binding]; other site 1321370001143 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 1321370001144 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 1321370001145 core dimer interface [polypeptide binding]; other site 1321370001146 peripheral dimer interface [polypeptide binding]; other site 1321370001147 L10 interface [polypeptide binding]; other site 1321370001148 L11 interface [polypeptide binding]; other site 1321370001149 putative EF-Tu interaction site [polypeptide binding]; other site 1321370001150 putative EF-G interaction site [polypeptide binding]; other site 1321370001151 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 1321370001152 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 1321370001153 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 1321370001154 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 1321370001155 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 1321370001156 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 1321370001157 RPB3 interaction site [polypeptide binding]; other site 1321370001158 RPB1 interaction site [polypeptide binding]; other site 1321370001159 RPB11 interaction site [polypeptide binding]; other site 1321370001160 RPB10 interaction site [polypeptide binding]; other site 1321370001161 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 1321370001162 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 1321370001163 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 1321370001164 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 1321370001165 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 1321370001166 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 1321370001167 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1321370001168 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 1321370001169 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 1321370001170 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 1321370001171 DNA binding site [nucleotide binding] 1321370001172 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 1321370001173 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 1321370001174 S17 interaction site [polypeptide binding]; other site 1321370001175 S8 interaction site; other site 1321370001176 16S rRNA interaction site [nucleotide binding]; other site 1321370001177 streptomycin interaction site [chemical binding]; other site 1321370001178 23S rRNA interaction site [nucleotide binding]; other site 1321370001179 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 1321370001180 30S ribosomal protein S7; Validated; Region: PRK05302 1321370001181 elongation factor G; Reviewed; Region: PRK00007 1321370001182 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 1321370001183 G1 box; other site 1321370001184 putative GEF interaction site [polypeptide binding]; other site 1321370001185 GTP/Mg2+ binding site [chemical binding]; other site 1321370001186 Switch I region; other site 1321370001187 G2 box; other site 1321370001188 G3 box; other site 1321370001189 Switch II region; other site 1321370001190 G4 box; other site 1321370001191 G5 box; other site 1321370001192 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 1321370001193 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 1321370001194 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 1321370001195 elongation factor Tu; Reviewed; Region: PRK00049 1321370001196 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 1321370001197 G1 box; other site 1321370001198 GEF interaction site [polypeptide binding]; other site 1321370001199 GTP/Mg2+ binding site [chemical binding]; other site 1321370001200 Switch I region; other site 1321370001201 G2 box; other site 1321370001202 G3 box; other site 1321370001203 Switch II region; other site 1321370001204 G4 box; other site 1321370001205 G5 box; other site 1321370001206 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 1321370001207 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 1321370001208 Antibiotic Binding Site [chemical binding]; other site 1321370001209 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1321370001210 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 1321370001211 glutaminase A; Region: Gln_ase; TIGR03814 1321370001212 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 1321370001213 active site 1321370001214 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 1321370001215 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1321370001216 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 1321370001217 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 1321370001218 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 1321370001219 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1321370001220 putative substrate translocation pore; other site 1321370001221 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 1321370001222 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 1321370001223 dimer interface [polypeptide binding]; other site 1321370001224 ssDNA binding site [nucleotide binding]; other site 1321370001225 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1321370001226 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1321370001227 MarR family; Region: MarR; pfam01047 1321370001228 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 1321370001229 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1321370001230 HlyD family secretion protein; Region: HlyD_3; pfam13437 1321370001231 Protein of unknown function (DUF2955); Region: DUF2955; pfam11168 1321370001232 adenosine deaminase; Provisional; Region: PRK09358 1321370001233 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 1321370001234 active site 1321370001235 thymidine kinase; Provisional; Region: PRK04296 1321370001236 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 1321370001237 ATP binding site [chemical binding]; other site 1321370001238 Walker A motif; other site 1321370001239 Walker B motif; other site 1321370001240 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 1321370001241 active site 1321370001242 substrate binding pocket [chemical binding]; other site 1321370001243 dimer interface [polypeptide binding]; other site 1321370001244 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 1321370001245 Secretin and TonB N terminus short domain; Region: STN; smart00965 1321370001246 Secretin N-terminal domain; Region: Secretin_N_2; pfam07655 1321370001247 pilus (MSHA type) biogenesis protein MshL; Region: pilus_MshL; TIGR02519 1321370001248 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1321370001249 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 1321370001250 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 1321370001251 Walker A motif; other site 1321370001252 ATP binding site [chemical binding]; other site 1321370001253 Walker B motif; other site 1321370001254 arginine finger; other site 1321370001255 TPR repeat; Region: TPR_11; pfam13414 1321370001256 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 1321370001257 binding surface 1321370001258 TPR motif; other site 1321370001259 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 1321370001260 TPR motif; other site 1321370001261 binding surface 1321370001262 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 1321370001263 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 1321370001264 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 1321370001265 Walker A motif; other site 1321370001266 ATP binding site [chemical binding]; other site 1321370001267 Walker B motif; other site 1321370001268 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1321370001269 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1321370001270 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1321370001271 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 1321370001272 Concanavalin A-like lectin/glucanases superfamily; Region: Laminin_G_3; pfam13385 1321370001273 PEGA domain; Region: PEGA; pfam08308 1321370001274 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1321370001275 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1321370001276 rod shape-determining protein MreB; Provisional; Region: PRK13927 1321370001277 MreB and similar proteins; Region: MreB_like; cd10225 1321370001278 nucleotide binding site [chemical binding]; other site 1321370001279 Mg binding site [ion binding]; other site 1321370001280 putative protofilament interaction site [polypeptide binding]; other site 1321370001281 RodZ interaction site [polypeptide binding]; other site 1321370001282 rod shape-determining protein MreC; Provisional; Region: PRK13922 1321370001283 rod shape-determining protein MreC; Region: MreC; pfam04085 1321370001284 rod shape-determining protein MreD; Region: MreD; cl01087 1321370001285 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 1321370001286 active site 1321370001287 dimer interface [polypeptide binding]; other site 1321370001288 ribonuclease G; Provisional; Region: PRK11712 1321370001289 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 1321370001290 homodimer interface [polypeptide binding]; other site 1321370001291 oligonucleotide binding site [chemical binding]; other site 1321370001292 TIGR02099 family protein; Region: TIGR02099 1321370001293 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 1321370001294 nitrilase; Region: PLN02798 1321370001295 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 1321370001296 putative active site [active] 1321370001297 catalytic triad [active] 1321370001298 dimer interface [polypeptide binding]; other site 1321370001299 protease TldD; Provisional; Region: tldD; PRK10735 1321370001300 hypothetical protein; Provisional; Region: PRK05255 1321370001301 peptidase PmbA; Provisional; Region: PRK11040 1321370001302 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 1321370001303 MgtE intracellular N domain; Region: MgtE_N; smart00924 1321370001304 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 1321370001305 Divalent cation transporter; Region: MgtE; cl00786 1321370001306 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 1321370001307 dimerization domain swap beta strand [polypeptide binding]; other site 1321370001308 regulatory protein interface [polypeptide binding]; other site 1321370001309 active site 1321370001310 regulatory phosphorylation site [posttranslational modification]; other site 1321370001311 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 1321370001312 AAA domain; Region: AAA_18; pfam13238 1321370001313 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 1321370001314 active site 1321370001315 phosphorylation site [posttranslational modification] 1321370001316 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 1321370001317 30S subunit binding site; other site 1321370001318 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 1321370001319 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 1321370001320 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 1321370001321 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 1321370001322 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 1321370001323 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 1321370001324 Walker A/P-loop; other site 1321370001325 ATP binding site [chemical binding]; other site 1321370001326 Q-loop/lid; other site 1321370001327 ABC transporter signature motif; other site 1321370001328 Walker B; other site 1321370001329 D-loop; other site 1321370001330 H-loop/switch region; other site 1321370001331 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 1321370001332 OstA-like protein; Region: OstA; pfam03968 1321370001333 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 1321370001334 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117 1321370001335 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 1321370001336 active site 1321370001337 motif I; other site 1321370001338 motif II; other site 1321370001339 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 1321370001340 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 1321370001341 putative active site [active] 1321370001342 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 1321370001343 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1321370001344 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1321370001345 putative ABC transporter ATP-binding protein YrbF; Provisional; Region: PRK11831 1321370001346 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 1321370001347 Walker A/P-loop; other site 1321370001348 ATP binding site [chemical binding]; other site 1321370001349 Q-loop/lid; other site 1321370001350 ABC transporter signature motif; other site 1321370001351 Walker B; other site 1321370001352 D-loop; other site 1321370001353 H-loop/switch region; other site 1321370001354 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 1321370001355 Permease; Region: Permease; cl00510 1321370001356 mce related protein; Region: MCE; pfam02470 1321370001357 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; cl01074 1321370001358 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 1321370001359 anti sigma factor interaction site; other site 1321370001360 regulatory phosphorylation site [posttranslational modification]; other site 1321370001361 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 1321370001362 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 1321370001363 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 1321370001364 hinge; other site 1321370001365 active site 1321370001366 serine endoprotease; Provisional; Region: PRK10898 1321370001367 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1321370001368 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 1321370001369 protein binding site [polypeptide binding]; other site 1321370001370 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 1321370001371 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1321370001372 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 1321370001373 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 1321370001374 protein binding site [polypeptide binding]; other site 1321370001375 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3105 1321370001376 Protein of unknown function (DUF1043); Region: DUF1043; cl11473 1321370001377 Predicted ATPase [General function prediction only]; Region: COG1485 1321370001378 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 1321370001379 23S rRNA interface [nucleotide binding]; other site 1321370001380 L3 interface [polypeptide binding]; other site 1321370001381 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 1321370001382 Ubiquitinol-cytochrome C reductase Fe-S subunit TAT signal; Region: UCR_Fe-S_N; pfam10399 1321370001383 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 1321370001384 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 1321370001385 [2Fe-2S] cluster binding site [ion binding]; other site 1321370001386 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 1321370001387 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 1321370001388 Qi binding site; other site 1321370001389 intrachain domain interface; other site 1321370001390 interchain domain interface [polypeptide binding]; other site 1321370001391 heme bH binding site [chemical binding]; other site 1321370001392 heme bL binding site [chemical binding]; other site 1321370001393 Qo binding site; other site 1321370001394 interchain domain interface [polypeptide binding]; other site 1321370001395 intrachain domain interface; other site 1321370001396 Qi binding site; other site 1321370001397 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 1321370001398 Qo binding site; other site 1321370001399 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 1321370001400 stringent starvation protein A; Provisional; Region: sspA; PRK09481 1321370001401 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1321370001402 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 1321370001403 dimer interface [polypeptide binding]; other site 1321370001404 N-terminal domain interface [polypeptide binding]; other site 1321370001405 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 1321370001406 outer membrane lipoprotein; Provisional; Region: PRK11023 1321370001407 BON domain; Region: BON; pfam04972 1321370001408 BON domain; Region: BON; pfam04972 1321370001409 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 1321370001410 dimer interface [polypeptide binding]; other site 1321370001411 active site 1321370001412 hypothetical protein; Reviewed; Region: PRK12497 1321370001413 Putative lipoprotein [General function prediction only]; Region: LppC; COG3107 1321370001414 Periplasmic binding component of lipoprotein LppC, an immunodominant antigen; Region: PBP1_YraM_LppC_lipoprotein_like; cd06339 1321370001415 putative ligand binding site [chemical binding]; other site 1321370001416 Predicted methyltransferases [General function prediction only]; Region: COG0313 1321370001417 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 1321370001418 putative SAM binding site [chemical binding]; other site 1321370001419 putative homodimer interface [polypeptide binding]; other site 1321370001420 CHASE domain; Region: CHASE; cl01369 1321370001421 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370001422 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370001423 metal binding site [ion binding]; metal-binding site 1321370001424 active site 1321370001425 I-site; other site 1321370001426 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 1321370001427 cell division protein MraZ; Reviewed; Region: PRK00326 1321370001428 MraZ protein; Region: MraZ; pfam02381 1321370001429 MraZ protein; Region: MraZ; pfam02381 1321370001430 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 1321370001431 MraW methylase family; Region: Methyltransf_5; cl17771 1321370001432 Cell division protein FtsL; Region: FtsL; pfam04999 1321370001433 peptidoglycan synthase FtsI; Provisional; Region: PRK15105 1321370001434 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1321370001435 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1321370001436 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 1321370001437 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1321370001438 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1321370001439 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1321370001440 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Reviewed; Region: murF; PRK10773 1321370001441 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1321370001442 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1321370001443 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1321370001444 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 1321370001445 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 1321370001446 Mg++ binding site [ion binding]; other site 1321370001447 putative catalytic motif [active] 1321370001448 putative substrate binding site [chemical binding]; other site 1321370001449 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 1321370001450 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1321370001451 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1321370001452 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 1321370001453 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 1321370001454 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 1321370001455 active site 1321370001456 homodimer interface [polypeptide binding]; other site 1321370001457 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 1321370001458 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1321370001459 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1321370001460 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1321370001461 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 1321370001462 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 1321370001463 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1321370001464 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 1321370001465 Cell division protein FtsQ; Region: FtsQ; pfam03799 1321370001466 cell division protein FtsA; Reviewed; Region: ftsA; PRK09472 1321370001467 Cell division protein FtsA; Region: FtsA; smart00842 1321370001468 Cell division protein FtsA; Region: FtsA; pfam14450 1321370001469 cell division protein FtsZ; Validated; Region: PRK09330 1321370001470 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 1321370001471 nucleotide binding site [chemical binding]; other site 1321370001472 SulA interaction site; other site 1321370001473 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 1321370001474 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 1321370001475 Protein of unknown function (DUF721); Region: DUF721; pfam05258 1321370001476 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1321370001477 Peptidase family M23; Region: Peptidase_M23; pfam01551 1321370001478 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 1321370001479 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 1321370001480 SEC-C motif; Region: SEC-C; pfam02810 1321370001481 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 1321370001482 active site 1321370001483 8-oxo-dGMP binding site [chemical binding]; other site 1321370001484 nudix motif; other site 1321370001485 metal binding site [ion binding]; metal-binding site 1321370001486 Domain of unknown function (DUF329); Region: DUF329; cl01144 1321370001487 hypothetical protein; Provisional; Region: PRK05287 1321370001488 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 1321370001489 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 1321370001490 CoA-binding site [chemical binding]; other site 1321370001491 ATP-binding [chemical binding]; other site 1321370001492 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 1321370001493 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 1321370001494 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 1321370001495 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 1321370001496 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1321370001497 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1321370001498 Type II/IV secretion system protein; Region: T2SE; pfam00437 1321370001499 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 1321370001500 Walker A motif; other site 1321370001501 ATP binding site [chemical binding]; other site 1321370001502 Walker B motif; other site 1321370001503 putative major pilin subunit; Provisional; Region: PRK10574 1321370001504 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 1321370001505 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 1321370001506 dimerization interface [polypeptide binding]; other site 1321370001507 active site 1321370001508 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 1321370001509 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 1321370001510 amidase catalytic site [active] 1321370001511 Zn binding residues [ion binding]; other site 1321370001512 substrate binding site [chemical binding]; other site 1321370001513 regulatory protein AmpE; Provisional; Region: PRK10987 1321370001514 Transcriptional regulators [Transcription]; Region: FadR; COG2186 1321370001515 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1321370001516 DNA-binding site [nucleotide binding]; DNA binding site 1321370001517 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1321370001518 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 1321370001519 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 1321370001520 dimer interface [polypeptide binding]; other site 1321370001521 TPP-binding site [chemical binding]; other site 1321370001522 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 1321370001523 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 1321370001524 E3 interaction surface; other site 1321370001525 lipoyl attachment site [posttranslational modification]; other site 1321370001526 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 1321370001527 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 1321370001528 E3 interaction surface; other site 1321370001529 lipoyl attachment site [posttranslational modification]; other site 1321370001530 e3 binding domain; Region: E3_binding; pfam02817 1321370001531 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1321370001532 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 1321370001533 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1321370001534 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1321370001535 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1321370001536 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 1321370001537 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 1321370001538 active site 1321370001539 Zn binding site [ion binding]; other site 1321370001540 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1321370001541 HlyD family secretion protein; Region: HlyD_3; pfam13437 1321370001542 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1321370001543 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1321370001544 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1321370001545 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 1321370001546 dimerization interface [polypeptide binding]; other site 1321370001547 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1321370001548 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1321370001549 HlyD family secretion protein; Region: HlyD_3; pfam13437 1321370001550 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1321370001551 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 1321370001552 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 1321370001553 substrate binding site [chemical binding]; other site 1321370001554 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 1321370001555 substrate binding site [chemical binding]; other site 1321370001556 ligand binding site [chemical binding]; other site 1321370001557 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1321370001558 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 1321370001559 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 1321370001560 arginine repressor; Provisional; Region: PRK05066 1321370001561 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 1321370001562 malate dehydrogenase; Provisional; Region: PRK05086 1321370001563 Glyoxysomal and mitochondrial malate dehydrogenases; Region: MDH_glyoxysomal_mitochondrial; cd01337 1321370001564 NAD binding site [chemical binding]; other site 1321370001565 dimerization interface [polypeptide binding]; other site 1321370001566 Substrate binding site [chemical binding]; other site 1321370001567 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1321370001568 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1321370001569 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1321370001570 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1321370001571 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1321370001572 substrate binding pocket [chemical binding]; other site 1321370001573 chain length determination region; other site 1321370001574 substrate-Mg2+ binding site; other site 1321370001575 catalytic residues [active] 1321370001576 aspartate-rich region 1; other site 1321370001577 active site lid residues [active] 1321370001578 aspartate-rich region 2; other site 1321370001579 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 1321370001580 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 1321370001581 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 1321370001582 GTPase CgtA; Reviewed; Region: obgE; PRK12298 1321370001583 GTP1/OBG; Region: GTP1_OBG; pfam01018 1321370001584 Obg GTPase; Region: Obg; cd01898 1321370001585 G1 box; other site 1321370001586 GTP/Mg2+ binding site [chemical binding]; other site 1321370001587 Switch I region; other site 1321370001588 G2 box; other site 1321370001589 G3 box; other site 1321370001590 Switch II region; other site 1321370001591 G4 box; other site 1321370001592 G5 box; other site 1321370001593 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 1321370001594 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 1321370001595 folate binding site [chemical binding]; other site 1321370001596 NADP+ binding site [chemical binding]; other site 1321370001597 Protein of unknown function (DUF3718); Region: DUF3718; pfam12514 1321370001598 Endonuclease_V, a DNA repair enzyme that initiates repair of nitrosative deaminated purine bases; Region: Endonuclease_V; cl00653 1321370001599 TAP-like protein; Region: Abhydrolase_4; pfam08386 1321370001600 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1321370001601 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 1321370001602 ATP-binding cassette domain of the Na+ transporter; Region: ABC_NatA_sodium_exporter; cd03266 1321370001603 Walker A/P-loop; other site 1321370001604 ATP binding site [chemical binding]; other site 1321370001605 Q-loop/lid; other site 1321370001606 ABC transporter signature motif; other site 1321370001607 Walker B; other site 1321370001608 D-loop; other site 1321370001609 H-loop/switch region; other site 1321370001610 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 1321370001611 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 1321370001612 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 1321370001613 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 1321370001614 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1321370001615 Coenzyme A binding pocket [chemical binding]; other site 1321370001616 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 1321370001617 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 1321370001618 homotetramer interface [polypeptide binding]; other site 1321370001619 ligand binding site [chemical binding]; other site 1321370001620 catalytic site [active] 1321370001621 NAD binding site [chemical binding]; other site 1321370001622 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 1321370001623 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 1321370001624 substrate binding site [chemical binding]; other site 1321370001625 ATP binding site [chemical binding]; other site 1321370001626 CobD/Cbib protein; Region: CobD_Cbib; cl00561 1321370001627 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 1321370001628 putative GTP cyclohydrolase; Provisional; Region: PRK13674 1321370001629 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 1321370001630 putative binding surface; other site 1321370001631 active site 1321370001632 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 1321370001633 DNA binding site [nucleotide binding] 1321370001634 Response regulator receiver domain; Region: Response_reg; pfam00072 1321370001635 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370001636 active site 1321370001637 phosphorylation site [posttranslational modification] 1321370001638 intermolecular recognition site; other site 1321370001639 dimerization interface [polypeptide binding]; other site 1321370001640 putative inner membrane diguanylate cyclase; Provisional; Region: PRK09966 1321370001641 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 1321370001642 dimerization interface [polypeptide binding]; other site 1321370001643 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 1321370001644 dimer interface [polypeptide binding]; other site 1321370001645 phosphorylation site [posttranslational modification] 1321370001646 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 1321370001647 ATP binding site [chemical binding]; other site 1321370001648 Mg2+ binding site [ion binding]; other site 1321370001649 G-X-G motif; other site 1321370001650 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 1321370001651 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 1321370001652 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 1321370001653 S-adenosylmethionine binding site [chemical binding]; other site 1321370001654 Protein of unknown function (DUF342); Region: DUF342; pfam03961 1321370001655 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_1; cd06251 1321370001656 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1321370001657 putative active site [active] 1321370001658 Zn binding site [ion binding]; other site 1321370001659 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 1321370001660 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1321370001661 Uncharacterized protein conserved in archaea [Posttranslational modification, protein turnover, chaperones]; Region: COG4067 1321370001662 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1321370001663 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1321370001664 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1321370001665 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 1321370001666 Protein of unknown function (DUF2982); Region: DUF2982; pfam11201 1321370001667 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 1321370001668 putative DNA-binding cleft [nucleotide binding]; other site 1321370001669 putative DNA clevage site; other site 1321370001670 molecular lever; other site 1321370001671 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 1321370001672 putative active site [active] 1321370001673 Ap4A binding site [chemical binding]; other site 1321370001674 nudix motif; other site 1321370001675 putative metal binding site [ion binding]; other site 1321370001676 fused phosphoenolpyruvate-protein phosphotransferase PtsP/GAF domain; Provisional; Region: PRK11061 1321370001677 GAF domain; Region: GAF; pfam01590 1321370001678 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 1321370001679 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1321370001680 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1321370001681 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1321370001682 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 1321370001683 thymidylate synthase; Reviewed; Region: thyA; PRK01827 1321370001684 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 1321370001685 dimerization interface [polypeptide binding]; other site 1321370001686 active site 1321370001687 Transposase IS200 like; Region: Y1_Tnp; cl00848 1321370001688 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1321370001689 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1321370001690 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1321370001691 Response regulator receiver domain; Region: Response_reg; pfam00072 1321370001692 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370001693 active site 1321370001694 phosphorylation site [posttranslational modification] 1321370001695 intermolecular recognition site; other site 1321370001696 dimerization interface [polypeptide binding]; other site 1321370001697 Chemotaxis protein CheC, inhibitor of MCP methylation [Cell motility and secretion / Signal transduction mechanisms]; Region: CheC; COG1776 1321370001698 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 1321370001699 PAS domain; Region: PAS_9; pfam13426 1321370001700 putative active site [active] 1321370001701 heme pocket [chemical binding]; other site 1321370001702 sulfur acceptor protein CsdL; Provisional; Region: PRK15116 1321370001703 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 1321370001704 putative ATP binding site [chemical binding]; other site 1321370001705 putative substrate interface [chemical binding]; other site 1321370001706 Fe-S metabolism associated domain; Region: SufE; cl00951 1321370001707 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 1321370001708 Ligand binding site [chemical binding]; other site 1321370001709 Electron transfer flavoprotein domain; Region: ETF; pfam01012 1321370001710 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 1321370001711 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 1321370001712 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 1321370001713 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 1321370001714 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1321370001715 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1321370001716 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1321370001717 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1321370001718 ligand binding site; other site 1321370001719 tetramer interface; other site 1321370001720 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 1321370001721 NeuB family; Region: NeuB; pfam03102 1321370001722 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1321370001723 NeuB binding interface [polypeptide binding]; other site 1321370001724 putative substrate binding site [chemical binding]; other site 1321370001725 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 1321370001726 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1321370001727 active site 1321370001728 homodimer interface [polypeptide binding]; other site 1321370001729 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 1321370001730 ligand binding site [chemical binding]; other site 1321370001731 active site 1321370001732 UGI interface [polypeptide binding]; other site 1321370001733 catalytic site [active] 1321370001734 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1321370001735 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1321370001736 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 1321370001737 dimerization interface [polypeptide binding]; other site 1321370001738 NADH dehydrogenase subunit L; Provisional; Region: PRK08168 1321370001739 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1321370001740 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 1321370001741 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 1321370001742 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 1321370001743 non-specific DNA binding site [nucleotide binding]; other site 1321370001744 salt bridge; other site 1321370001745 sequence-specific DNA binding site [nucleotide binding]; other site 1321370001746 HipA N-terminal domain; Region: Couple_hipA; cl11853 1321370001747 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG1373 1321370001748 AAA domain; Region: AAA_14; pfam13173 1321370001749 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1321370001750 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1321370001751 Beta-Casp domain; Region: Beta-Casp; smart01027 1321370001752 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1321370001753 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 1321370001754 Fic/DOC family; Region: Fic; pfam02661 1321370001755 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1321370001756 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1321370001757 G1 box; other site 1321370001758 G1 box; other site 1321370001759 GTP/Mg2+ binding site [chemical binding]; other site 1321370001760 GTP/Mg2+ binding site [chemical binding]; other site 1321370001761 G2 box; other site 1321370001762 Switch I region; other site 1321370001763 G3 box; other site 1321370001764 Switch II region; other site 1321370001765 G4 box; other site 1321370001766 CCC1-related protein family; Region: CCC1_like_1; cd02437 1321370001767 G5 box; other site 1321370001768 CCC1-related family of proteins; Region: CCC1_like; cl00278 1321370001769 Predicted GTPase [General function prediction only]; Region: COG3596 1321370001770 50S ribosome-binding GTPase; Region: MMR_HSR1; pfam01926 1321370001771 G1 box; other site 1321370001772 GTP/Mg2+ binding site [chemical binding]; other site 1321370001773 G2 box; other site 1321370001774 G3 box; other site 1321370001775 Switch II region; other site 1321370001776 G4 box; other site 1321370001777 G5 box; other site 1321370001778 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4735 1321370001779 GTPase SAR1 and related small G proteins [General function prediction only]; Region: COG1100 1321370001780 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 1321370001781 G1 box; other site 1321370001782 GTP/Mg2+ binding site [chemical binding]; other site 1321370001783 G2 box; other site 1321370001784 Switch I region; other site 1321370001785 Switch II region; other site 1321370001786 G3 box; other site 1321370001787 G4 box; other site 1321370001788 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 1321370001789 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 1321370001790 Walker A motif; other site 1321370001791 ATP binding site [chemical binding]; other site 1321370001792 Walker B motif; other site 1321370001793 UDP-glucose 6-dehydrogenase; Provisional; Region: PRK15057 1321370001794 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1321370001795 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1321370001796 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1321370001797 Chain length determinant protein; Region: Wzz; cl15801 1321370001798 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1321370001799 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1321370001800 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1321370001801 Walker A/P-loop; other site 1321370001802 ATP binding site [chemical binding]; other site 1321370001803 Q-loop/lid; other site 1321370001804 ABC transporter signature motif; other site 1321370001805 Walker B; other site 1321370001806 D-loop; other site 1321370001807 H-loop/switch region; other site 1321370001808 dTDP-glucose 4,6 dehydratase; Provisional; Region: PRK10084 1321370001809 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 1321370001810 NAD binding site [chemical binding]; other site 1321370001811 substrate binding site [chemical binding]; other site 1321370001812 homodimer interface [polypeptide binding]; other site 1321370001813 active site 1321370001814 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 1321370001815 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 1321370001816 substrate binding site; other site 1321370001817 tetramer interface; other site 1321370001818 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1321370001819 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 1321370001820 trimer interface [polypeptide binding]; other site 1321370001821 active site 1321370001822 substrate binding site [chemical binding]; other site 1321370001823 CoA binding site [chemical binding]; other site 1321370001824 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 1321370001825 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1321370001826 NAD(P) binding site [chemical binding]; other site 1321370001827 active site 1321370001828 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 1321370001829 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 1321370001830 inhibitor-cofactor binding pocket; inhibition site 1321370001831 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370001832 catalytic residue [active] 1321370001833 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 1321370001834 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 1321370001835 trimer interface [polypeptide binding]; other site 1321370001836 active site 1321370001837 substrate binding site [chemical binding]; other site 1321370001838 CoA binding site [chemical binding]; other site 1321370001839 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1321370001840 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 1321370001841 NAD(P) binding site [chemical binding]; other site 1321370001842 homodimer interface [polypeptide binding]; other site 1321370001843 substrate binding site [chemical binding]; other site 1321370001844 active site 1321370001845 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 1321370001846 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 1321370001847 inhibitor-cofactor binding pocket; inhibition site 1321370001848 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370001849 catalytic residue [active] 1321370001850 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 1321370001851 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 1321370001852 active site 1321370001853 homodimer interface [polypeptide binding]; other site 1321370001854 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 1321370001855 NeuB family; Region: NeuB; pfam03102 1321370001856 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 1321370001857 NeuB binding interface [polypeptide binding]; other site 1321370001858 putative substrate binding site [chemical binding]; other site 1321370001859 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 1321370001860 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 1321370001861 putative trimer interface [polypeptide binding]; other site 1321370001862 putative CoA binding site [chemical binding]; other site 1321370001863 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 1321370001864 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 1321370001865 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 1321370001866 Substrate binding site; other site 1321370001867 metal-binding site 1321370001868 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 1321370001869 ligand binding site; other site 1321370001870 tetramer interface; other site 1321370001871 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 1321370001872 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 1321370001873 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 1321370001874 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 1321370001875 putative glycosyl transferase; Provisional; Region: PRK10018 1321370001876 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 1321370001877 active site 1321370001878 sugar transferase, PEP-CTERM/EpsH1 system associated; Region: stp2; TIGR03088 1321370001879 This family is most closely related to the GT1 family of glycosyltransferases. WbnK in Shigella dysenteriae has been shown to be involved in the type 7 O-antigen biosynthesis; Region: GT1_WbnK_like; cd03807 1321370001880 putative ADP-binding pocket [chemical binding]; other site 1321370001881 UDP-glucose 4-epimerase; Region: PLN02240 1321370001882 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 1321370001883 NAD binding site [chemical binding]; other site 1321370001884 homodimer interface [polypeptide binding]; other site 1321370001885 active site 1321370001886 substrate binding site [chemical binding]; other site 1321370001887 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 1321370001888 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1321370001889 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1321370001890 NAD(P) binding site [chemical binding]; other site 1321370001891 active site 1321370001892 Bacterial sugar transferase; Region: Bac_transf; pfam02397 1321370001893 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1321370001894 UDP glucuronic acid epimerase, extended (e) SDRs; Region: UDP_GE_SDE_e; cd05253 1321370001895 putative NAD(P) binding site [chemical binding]; other site 1321370001896 active site 1321370001897 putative substrate binding site [chemical binding]; other site 1321370001898 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 1321370001899 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 1321370001900 SLBB domain; Region: SLBB; pfam10531 1321370001901 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 1321370001902 SLBB domain; Region: SLBB; pfam10531 1321370001903 SLBB domain; Region: SLBB; pfam10531 1321370001904 Protein of unknown function (DUF2886); Region: DUF2886; pfam11102 1321370001905 Capsule biosynthesis GfcC; Region: Caps_synth_GfcC; pfam06251 1321370001906 Bacterial putative lipoprotein (DUF940); Region: DUF940; pfam06082 1321370001907 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 1321370001908 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 1321370001909 NAD(P) binding site [chemical binding]; other site 1321370001910 homodimer interface [polypeptide binding]; other site 1321370001911 substrate binding site [chemical binding]; other site 1321370001912 active site 1321370001913 Phosphoglucose isomerase; Region: PGI; pfam00342 1321370001914 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 1321370001915 active site 1321370001916 dimer interface [polypeptide binding]; other site 1321370001917 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 1321370001918 dimer interface [polypeptide binding]; other site 1321370001919 active site 1321370001920 Protein of unknown function (DUF3307); Region: DUF3307; pfam11750 1321370001921 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 1321370001922 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1321370001923 active site 1321370001924 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1321370001925 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1321370001926 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1321370001927 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 1321370001928 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 1321370001929 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 1321370001930 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 1321370001931 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 1321370001932 active site 1321370001933 GMP synthase; Reviewed; Region: guaA; PRK00074 1321370001934 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 1321370001935 AMP/PPi binding site [chemical binding]; other site 1321370001936 candidate oxyanion hole; other site 1321370001937 catalytic triad [active] 1321370001938 potential glutamine specificity residues [chemical binding]; other site 1321370001939 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 1321370001940 ATP Binding subdomain [chemical binding]; other site 1321370001941 Ligand Binding sites [chemical binding]; other site 1321370001942 Dimerization subdomain; other site 1321370001943 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1321370001944 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1321370001945 putative catalytic site [active] 1321370001946 putative phosphate binding site [ion binding]; other site 1321370001947 putative metal binding site [ion binding]; other site 1321370001948 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1321370001949 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 1321370001950 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1321370001951 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 1321370001952 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 1321370001953 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 1321370001954 nucleoside/Zn binding site; other site 1321370001955 dimer interface [polypeptide binding]; other site 1321370001956 catalytic motif [active] 1321370001957 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 1321370001958 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 1321370001959 metal binding site [ion binding]; metal-binding site 1321370001960 putative dimer interface [polypeptide binding]; other site 1321370001961 membrane-bound lytic transglycosylase F; Provisional; Region: PRK10859 1321370001962 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 1321370001963 substrate binding pocket [chemical binding]; other site 1321370001964 membrane-bound complex binding site; other site 1321370001965 hinge residues; other site 1321370001966 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 1321370001967 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1321370001968 catalytic residue [active] 1321370001969 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1321370001970 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1321370001971 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1321370001972 Metallo-peptidase family M12B Reprolysin-like; Region: Reprolysin_3; pfam13582 1321370001973 Peptidase M66; Region: Peptidase_M66; pfam10462 1321370001974 active site 1321370001975 active site 1321370001976 transcriptional activator RfaH; Provisional; Region: rfaH; PRK09014 1321370001977 N-Utilization Substance G (NusG) N-terminal domain in the NusG Specialized Paralog (SP), RfaH; Region: NGN_SP_RfaH; cd09892 1321370001978 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 1321370001979 heterodimer interface [polypeptide binding]; other site 1321370001980 homodimer interface [polypeptide binding]; other site 1321370001981 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 1321370001982 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 1321370001983 dimerization interface [polypeptide binding]; other site 1321370001984 ATP binding site [chemical binding]; other site 1321370001985 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 1321370001986 dimerization interface [polypeptide binding]; other site 1321370001987 ATP binding site [chemical binding]; other site 1321370001988 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 1321370001989 putative active site [active] 1321370001990 catalytic triad [active] 1321370001991 probable addiction module antidote protein; Region: dnstrm_HI1420; TIGR02684 1321370001992 putative addiction module killer protein; Region: upstrm_HI1419; TIGR02683 1321370001993 Metal-dependent hydrolases of the beta-lactamase superfamily III [General function prediction only]; Region: ElaC; COG1234 1321370001994 Protein of unknown function (DUF998); Region: DUF998; pfam06197 1321370001995 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1321370001996 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 1321370001997 metal-binding site [ion binding] 1321370001998 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1321370001999 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 1321370002000 motif II; other site 1321370002001 glutamate racemase; Provisional; Region: PRK00865 1321370002002 malate dehydrogenase; Provisional; Region: PRK13529 1321370002003 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1321370002004 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 1321370002005 NAD(P) binding site [chemical binding]; other site 1321370002006 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 1321370002007 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 1321370002008 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1321370002009 catalytic residue [active] 1321370002010 azurin; Region: azurin; TIGR02695 1321370002011 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1321370002012 HlyD family secretion protein; Region: HlyD_3; pfam13437 1321370002013 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1321370002014 tellurium resistance terB-like protein, subgroup 2; Region: terB_like_2; cd07313 1321370002015 putative metal binding site [ion binding]; other site 1321370002016 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1321370002017 GAF domain; Region: GAF; pfam01590 1321370002018 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1321370002019 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 1321370002020 ATP binding site [chemical binding]; other site 1321370002021 Mg2+ binding site [ion binding]; other site 1321370002022 G-X-G motif; other site 1321370002023 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 1321370002024 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1321370002025 tol-pal system beta propeller repeat protein TolB; Region: propeller_TolB; TIGR02800 1321370002026 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1321370002027 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 1321370002028 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 1321370002029 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 1321370002030 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1321370002031 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1321370002032 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 1321370002033 substrate binding pocket [chemical binding]; other site 1321370002034 dimerization interface [polypeptide binding]; other site 1321370002035 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 1321370002036 Isocitrate dehydrogenase kinase/phosphatase (AceK); Region: AceK; pfam06315 1321370002037 isocitrate lyase; Provisional; Region: PRK15063 1321370002038 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 1321370002039 tetramer interface [polypeptide binding]; other site 1321370002040 active site 1321370002041 Mg2+/Mn2+ binding site [ion binding]; other site 1321370002042 malate synthase A; Region: malate_syn_A; TIGR01344 1321370002043 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 1321370002044 active site 1321370002045 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1321370002046 HAMP (Histidine kinases, Adenylyl cyclases, Methyl binding proteins, Phosphatases) domain; Region: HAMP; smart00304 1321370002047 dimerization interface [polypeptide binding]; other site 1321370002048 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1321370002049 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1321370002050 dimer interface [polypeptide binding]; other site 1321370002051 putative CheW interface [polypeptide binding]; other site 1321370002052 acetylornithine deacetylase; Provisional; Region: PRK05111 1321370002053 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 1321370002054 metal binding site [ion binding]; metal-binding site 1321370002055 putative dimer interface [polypeptide binding]; other site 1321370002056 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 1321370002057 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1321370002058 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 1321370002059 nucleotide binding site [chemical binding]; other site 1321370002060 substrate binding site [chemical binding]; other site 1321370002061 ornithine carbamoyltransferase; Provisional; Region: PRK14805 1321370002062 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1321370002063 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1321370002064 argininosuccinate synthase; Provisional; Region: PRK13820 1321370002065 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 1321370002066 ANP binding site [chemical binding]; other site 1321370002067 Substrate Binding Site II [chemical binding]; other site 1321370002068 Substrate Binding Site I [chemical binding]; other site 1321370002069 bifunctional argininosuccinate lyase/N-acetylglutamate synthase; Provisional; Region: PRK12308 1321370002070 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 1321370002071 active sites [active] 1321370002072 tetramer interface [polypeptide binding]; other site 1321370002073 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1321370002074 Coenzyme A binding pocket [chemical binding]; other site 1321370002075 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1321370002076 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1321370002077 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 1321370002078 Divergent PAP2 family; Region: DUF212; cl00855 1321370002079 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 1321370002080 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1321370002081 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1321370002082 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1321370002083 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1321370002084 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 1321370002085 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1321370002086 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1321370002087 ABC transporter; Region: ABC_tran_2; pfam12848 1321370002088 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1321370002089 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 1321370002090 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 1321370002091 C-terminal domain interface [polypeptide binding]; other site 1321370002092 GSH binding site (G-site) [chemical binding]; other site 1321370002093 dimer interface [polypeptide binding]; other site 1321370002094 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 1321370002095 N-terminal domain interface [polypeptide binding]; other site 1321370002096 putative dimer interface [polypeptide binding]; other site 1321370002097 active site 1321370002098 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 1321370002099 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 1321370002100 Amidohydrolase; Region: Amidohydro_2; pfam04909 1321370002101 Predicted membrane protein [Function unknown]; Region: COG2855 1321370002102 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1321370002103 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1321370002104 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 1321370002105 putative dimerization interface [polypeptide binding]; other site 1321370002106 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1321370002107 nucleoside diphosphate kinase regulator; Provisional; Region: PRK05753 1321370002108 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1321370002109 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 1321370002110 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 1321370002111 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 1321370002112 active site 1321370002113 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1321370002114 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1321370002115 DNA binding residues [nucleotide binding] 1321370002116 dimer interface [polypeptide binding]; other site 1321370002117 putative metal binding site [ion binding]; other site 1321370002118 Heavy-metal-associated domain; Region: HMA; pfam00403 1321370002119 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1321370002120 lipoprotein signal peptidase; Provisional; Region: PRK14776 1321370002121 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 1321370002122 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1321370002123 allantoate amidohydrolase; Reviewed; Region: PRK12893 1321370002124 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 1321370002125 MPN+ (JAMM) motif; other site 1321370002126 Zinc-binding site [ion binding]; other site 1321370002127 Fic/DOC family; Region: Fic; cl00960 1321370002128 RadC-like JAB domain; Region: RadC; pfam04002 1321370002129 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1321370002130 Predicted transcriptional regulator [Transcription]; Region: AlpA; COG3311 1321370002131 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 1321370002132 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1321370002133 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 1321370002134 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1321370002135 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1321370002136 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 1321370002137 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 1321370002138 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 1321370002139 DEAD-like helicases superfamily; Region: DEXDc; smart00487 1321370002140 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 1321370002141 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 1321370002142 active site 1321370002143 DNA binding site [nucleotide binding] 1321370002144 Int/Topo IB signature motif; other site 1321370002145 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 1321370002146 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1321370002147 synthetase active site [active] 1321370002148 NTP binding site [chemical binding]; other site 1321370002149 metal binding site [ion binding]; metal-binding site 1321370002150 integrase; Provisional; Region: PRK09692 1321370002151 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 1321370002152 active site 1321370002153 Int/Topo IB signature motif; other site 1321370002154 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 1321370002155 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 1321370002156 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 1321370002157 GIY-YIG motif/motif A; other site 1321370002158 active site 1321370002159 catalytic site [active] 1321370002160 putative DNA binding site [nucleotide binding]; other site 1321370002161 metal binding site [ion binding]; metal-binding site 1321370002162 UvrB/uvrC motif; Region: UVR; pfam02151 1321370002163 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 1321370002164 Helix-hairpin-helix motif; Region: HHH; pfam00633 1321370002165 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1321370002166 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 1321370002167 DNA binding residues [nucleotide binding] 1321370002168 dimerization interface [polypeptide binding]; other site 1321370002169 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 1321370002170 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1321370002171 minor groove reading motif; other site 1321370002172 helix-hairpin-helix signature motif; other site 1321370002173 substrate binding pocket [chemical binding]; other site 1321370002174 active site 1321370002175 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 1321370002176 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 1321370002177 active site 1321370002178 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 1321370002179 active site 2 [active] 1321370002180 active site 1 [active] 1321370002181 Protein of unknown function (DUF3667); Region: DUF3667; pfam12412 1321370002182 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 1321370002183 YccA-like proteins; Region: YccA_like; cd10433 1321370002184 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 1321370002185 DsrE/DsrF-like family; Region: DrsE; cl00672 1321370002186 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 1321370002187 sulfur relay protein, TusE/DsrC/DsvC family; Region: dsrC_tusE_dsvC; TIGR03342 1321370002188 seryl-tRNA synthetase; Provisional; Region: PRK05431 1321370002189 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 1321370002190 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 1321370002191 dimer interface [polypeptide binding]; other site 1321370002192 active site 1321370002193 motif 1; other site 1321370002194 motif 2; other site 1321370002195 motif 3; other site 1321370002196 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 1321370002197 recombination factor protein RarA; Reviewed; Region: PRK13342 1321370002198 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 1321370002199 Walker A motif; other site 1321370002200 ATP binding site [chemical binding]; other site 1321370002201 Walker B motif; other site 1321370002202 arginine finger; other site 1321370002203 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 1321370002204 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 1321370002205 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 1321370002206 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 1321370002207 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 1321370002208 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 1321370002209 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 1321370002210 putative DNA binding site [nucleotide binding]; other site 1321370002211 putative Zn2+ binding site [ion binding]; other site 1321370002212 AsnC family; Region: AsnC_trans_reg; pfam01037 1321370002213 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 1321370002214 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 1321370002215 hexamer interface [polypeptide binding]; other site 1321370002216 ligand binding site [chemical binding]; other site 1321370002217 putative active site [active] 1321370002218 NAD(P) binding site [chemical binding]; other site 1321370002219 thioredoxin reductase; Provisional; Region: PRK10262 1321370002220 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1321370002221 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1321370002222 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 1321370002223 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 1321370002224 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 1321370002225 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 1321370002226 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 1321370002227 rRNA binding site [nucleotide binding]; other site 1321370002228 predicted 30S ribosome binding site; other site 1321370002229 ATP-dependent Clp protease ATP-binding subunit; Provisional; Region: clpA; PRK11034 1321370002230 Clp amino terminal domain; Region: Clp_N; pfam02861 1321370002231 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 1321370002232 Walker A motif; other site 1321370002233 ATP binding site [chemical binding]; other site 1321370002234 Walker B motif; other site 1321370002235 arginine finger; other site 1321370002236 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 1321370002237 Walker A motif; other site 1321370002238 ATP binding site [chemical binding]; other site 1321370002239 Walker B motif; other site 1321370002240 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1321370002241 Uncharacterized conserved protein [Function unknown]; Region: COG2127 1321370002242 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 1321370002243 DNA-binding site [nucleotide binding]; DNA binding site 1321370002244 RNA-binding motif; other site 1321370002245 nucleoid-associated protein NdpA; Validated; Region: PRK00378 1321370002246 Nucleoid-associated protein [General function prediction only]; Region: COG3081 1321370002247 Domain of unknown function (DUF3413); Region: DUF3413; pfam11893 1321370002248 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 1321370002249 active site 1321370002250 DNA binding site [nucleotide binding] 1321370002251 Int/Topo IB signature motif; other site 1321370002252 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 1321370002253 DNA binding residues [nucleotide binding] 1321370002254 Protein of unknown function (DUF3987); Region: DUF3987; pfam13148 1321370002255 Fic family protein [Function unknown]; Region: COG3177 1321370002256 Fic/DOC family; Region: Fic; pfam02661 1321370002257 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 1321370002258 putative DNA binding site [nucleotide binding]; other site 1321370002259 putative Zn2+ binding site [ion binding]; other site 1321370002260 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 1321370002261 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1321370002262 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 1321370002263 conserved hypothetical protein; Region: TIGR02285 1321370002264 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 1321370002265 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1321370002266 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 1321370002267 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 1321370002268 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 1321370002269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1321370002270 NAD(P) binding site [chemical binding]; other site 1321370002271 active site 1321370002272 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1321370002273 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1321370002274 asparagine synthetase AsnA; Provisional; Region: PRK05425 1321370002275 motif 1; other site 1321370002276 dimer interface [polypeptide binding]; other site 1321370002277 active site 1321370002278 motif 2; other site 1321370002279 motif 3; other site 1321370002280 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 1321370002281 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 1321370002282 putative DNA binding site [nucleotide binding]; other site 1321370002283 putative Zn2+ binding site [ion binding]; other site 1321370002284 AsnC family; Region: AsnC_trans_reg; pfam01037 1321370002285 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_1; cd06238 1321370002286 putative active site [active] 1321370002287 Zn binding site [ion binding]; other site 1321370002288 Carbon starvation protein, predicted membrane protein [Signal transduction mechanisms]; Region: CstA; COG1966 1321370002289 Carbon starvation protein CstA; Region: CstA; pfam02554 1321370002290 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 1321370002291 Anion-transporting ATPase; Region: ArsA_ATPase; pfam02374 1321370002292 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1321370002293 DTAP/Switch II; other site 1321370002294 Switch I; other site 1321370002295 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 1321370002296 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 1321370002297 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 1321370002298 putative NAD(P) binding site [chemical binding]; other site 1321370002299 dimer interface [polypeptide binding]; other site 1321370002300 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1321370002301 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1321370002302 HlyD family secretion protein; Region: HlyD_3; pfam13437 1321370002303 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 1321370002304 Protein export membrane protein; Region: SecD_SecF; cl14618 1321370002305 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 1321370002306 glycosyltransferase, TIGR04182 family; Region: glyco_TIGR04182 1321370002307 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 1321370002308 Ligand binding site; other site 1321370002309 Putative Catalytic site; other site 1321370002310 DXD motif; other site 1321370002311 Predicted membrane protein [Function unknown]; Region: COG2246 1321370002312 GtrA-like protein; Region: GtrA; pfam04138 1321370002313 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1321370002314 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 1321370002315 PA/protease or protease-like domain interface [polypeptide binding]; other site 1321370002316 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_1; cd05660 1321370002317 Peptidase family M28; Region: Peptidase_M28; pfam04389 1321370002318 metal binding site [ion binding]; metal-binding site 1321370002319 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1321370002320 Uncharacterized conserved protein [Function unknown]; Region: COG0397 1321370002321 hypothetical protein; Validated; Region: PRK00029 1321370002322 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 1321370002323 phosphate binding site [ion binding]; other site 1321370002324 putative substrate binding pocket [chemical binding]; other site 1321370002325 dimer interface [polypeptide binding]; other site 1321370002326 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 1321370002327 trimer interface [polypeptide binding]; other site 1321370002328 active site 1321370002329 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 1321370002330 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 1321370002331 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 1321370002332 active site 1321370002333 HIGH motif; other site 1321370002334 KMSKS motif; other site 1321370002335 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 1321370002336 anticodon binding site; other site 1321370002337 tRNA binding surface [nucleotide binding]; other site 1321370002338 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 1321370002339 dimer interface [polypeptide binding]; other site 1321370002340 putative tRNA-binding site [nucleotide binding]; other site 1321370002341 PilZ domain; Region: PilZ; pfam07238 1321370002342 Hemimethylated DNA-binding protein YccV like; Region: YccV-like; pfam08755 1321370002343 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 1321370002344 nucleotide binding site/active site [active] 1321370002345 HIT family signature motif; other site 1321370002346 catalytic residue [active] 1321370002347 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1321370002348 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1321370002349 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 1321370002350 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 1321370002351 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1321370002352 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 1321370002353 maleylacetoacetate isomerase; Region: maiA; TIGR01262 1321370002354 C-terminal domain interface [polypeptide binding]; other site 1321370002355 GSH binding site (G-site) [chemical binding]; other site 1321370002356 putative dimer interface [polypeptide binding]; other site 1321370002357 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 1321370002358 dimer interface [polypeptide binding]; other site 1321370002359 N-terminal domain interface [polypeptide binding]; other site 1321370002360 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 1321370002361 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 1321370002362 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 1321370002363 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 1321370002364 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 1321370002365 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 1321370002366 dimer interface [polypeptide binding]; other site 1321370002367 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 1321370002368 active site 1321370002369 Fe binding site [ion binding]; other site 1321370002370 Transcriptional regulator of aromatic amino acids metabolism [Transcription / Amino acid transport and metabolism]; Region: TyrR; COG3283 1321370002371 N-terminal ACT domain of the TyrR protein; Region: ACT_TyrR; cd04877 1321370002372 putative aromatic amino acid binding site; other site 1321370002373 PAS domain; Region: PAS; smart00091 1321370002374 putative active site [active] 1321370002375 heme pocket [chemical binding]; other site 1321370002376 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 1321370002377 Walker A motif; other site 1321370002378 ATP binding site [chemical binding]; other site 1321370002379 Walker B motif; other site 1321370002380 arginine finger; other site 1321370002381 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 1321370002382 aromatic arch; other site 1321370002383 DCoH dimer interaction site [polypeptide binding]; other site 1321370002384 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 1321370002385 DCoH tetramer interaction site [polypeptide binding]; other site 1321370002386 substrate binding site [chemical binding]; other site 1321370002387 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 1321370002388 cofactor binding site; other site 1321370002389 metal binding site [ion binding]; metal-binding site 1321370002390 methionine gamma-lyase; Provisional; Region: PRK06234 1321370002391 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 1321370002392 homodimer interface [polypeptide binding]; other site 1321370002393 substrate-cofactor binding pocket; other site 1321370002394 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370002395 catalytic residue [active] 1321370002396 hypothetical protein; Provisional; Region: PRK05415 1321370002397 Domain of unknown function (DUF697); Region: DUF697; pfam05128 1321370002398 YcjX-like family, DUF463; Region: DUF463; pfam04317 1321370002399 phage shock protein C; Region: phageshock_pspC; TIGR02978 1321370002400 PspC domain; Region: PspC; pfam04024 1321370002401 phage shock protein B; Provisional; Region: pspB; PRK09458 1321370002402 phage shock protein A; Region: phageshock_pspA; TIGR02977 1321370002403 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1321370002404 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 1321370002405 Walker A motif; other site 1321370002406 ATP binding site [chemical binding]; other site 1321370002407 Walker B motif; other site 1321370002408 arginine finger; other site 1321370002409 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1321370002410 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 1321370002411 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 1321370002412 peptide binding site [polypeptide binding]; other site 1321370002413 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 1321370002414 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 1321370002415 dimer interface [polypeptide binding]; other site 1321370002416 conserved gate region; other site 1321370002417 putative PBP binding loops; other site 1321370002418 ABC-ATPase subunit interface; other site 1321370002419 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 1321370002420 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 1321370002421 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 1321370002422 dimer interface [polypeptide binding]; other site 1321370002423 conserved gate region; other site 1321370002424 putative PBP binding loops; other site 1321370002425 ABC-ATPase subunit interface; other site 1321370002426 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapD; COG4170 1321370002427 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1321370002428 Walker A/P-loop; other site 1321370002429 ATP binding site [chemical binding]; other site 1321370002430 Q-loop/lid; other site 1321370002431 ABC transporter signature motif; other site 1321370002432 Walker B; other site 1321370002433 D-loop; other site 1321370002434 H-loop/switch region; other site 1321370002435 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 1321370002436 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SapF; COG4167 1321370002437 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 1321370002438 Walker A/P-loop; other site 1321370002439 ATP binding site [chemical binding]; other site 1321370002440 Q-loop/lid; other site 1321370002441 ABC transporter signature motif; other site 1321370002442 Walker B; other site 1321370002443 D-loop; other site 1321370002444 H-loop/switch region; other site 1321370002445 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 1321370002446 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1321370002447 Na binding site [ion binding]; other site 1321370002448 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 1321370002449 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 1321370002450 hypothetical protein; Provisional; Region: PRK10279 1321370002451 Bacterial patatin-like phospholipase domain containing protein 6; Region: Pat_NTE_like_bacteria; cd07228 1321370002452 active site 1321370002453 nucleophile elbow; other site 1321370002454 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 1321370002455 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1321370002456 recombinase A; Provisional; Region: recA; PRK09354 1321370002457 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 1321370002458 hexamer interface [polypeptide binding]; other site 1321370002459 Walker A motif; other site 1321370002460 ATP binding site [chemical binding]; other site 1321370002461 Walker B motif; other site 1321370002462 Competence-damaged protein; Region: CinA; pfam02464 1321370002463 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 1321370002464 MutS domain I; Region: MutS_I; pfam01624 1321370002465 MutS domain II; Region: MutS_II; pfam05188 1321370002466 MutS domain III; Region: MutS_III; pfam05192 1321370002467 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 1321370002468 Walker A/P-loop; other site 1321370002469 ATP binding site [chemical binding]; other site 1321370002470 Q-loop/lid; other site 1321370002471 ABC transporter signature motif; other site 1321370002472 Walker B; other site 1321370002473 D-loop; other site 1321370002474 H-loop/switch region; other site 1321370002475 RNA polymerase sigma factor RpoS; Region: rpoS_proteo; TIGR02394 1321370002476 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1321370002477 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1321370002478 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1321370002479 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 1321370002480 DNA binding residues [nucleotide binding] 1321370002481 lipoprotein NlpD; Provisional; Region: nlpD; PRK10871 1321370002482 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1321370002483 Peptidase family M23; Region: Peptidase_M23; pfam01551 1321370002484 Predicted membrane protein [Function unknown]; Region: COG1238 1321370002485 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 1321370002486 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 1321370002487 S-adenosylmethionine binding site [chemical binding]; other site 1321370002488 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 1321370002489 tRNA pseudouridine synthase D (TruD); Region: TruD; pfam01142 1321370002490 Pseudouridine synthase, similar to Escherichia coli TruD; Region: PseudoU_synth_EcTruD; cd02575 1321370002491 Permutation of conserved domain; other site 1321370002492 active site 1321370002493 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1321370002494 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 1321370002495 homotrimer interaction site [polypeptide binding]; other site 1321370002496 zinc binding site [ion binding]; other site 1321370002497 CDP-binding sites; other site 1321370002498 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 1321370002499 substrate binding site; other site 1321370002500 dimer interface; other site 1321370002501 cell division protein FtsB; Reviewed; Region: ftsB; PRK00888 1321370002502 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 1321370002503 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1321370002504 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 1321370002505 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1321370002506 Bacterial signalling protein N terminal repeat; Region: MHYT; pfam03707 1321370002507 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 1321370002508 PAS domain; Region: PAS_9; pfam13426 1321370002509 putative active site [active] 1321370002510 heme pocket [chemical binding]; other site 1321370002511 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370002512 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370002513 metal binding site [ion binding]; metal-binding site 1321370002514 active site 1321370002515 I-site; other site 1321370002516 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 1321370002517 hypothetical protein; Provisional; Region: PRK11019 1321370002518 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 1321370002519 MAPEG family; Region: MAPEG; pfam01124 1321370002520 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 1321370002521 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 1321370002522 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1321370002523 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 1321370002524 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1321370002525 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1321370002526 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1321370002527 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 1321370002528 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 1321370002529 Cu(I) binding site [ion binding]; other site 1321370002530 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 1321370002531 ThiC-associated domain; Region: ThiC-associated; pfam13667 1321370002532 ThiC family; Region: ThiC; pfam01964 1321370002533 HMP-P kinase/thiamin-monophosphate pyrophosphorylase; Region: PLN02898 1321370002534 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 1321370002535 dimer interface [polypeptide binding]; other site 1321370002536 substrate binding site [chemical binding]; other site 1321370002537 ATP binding site [chemical binding]; other site 1321370002538 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 1321370002539 thiamine phosphate binding site [chemical binding]; other site 1321370002540 active site 1321370002541 pyrophosphate binding site [ion binding]; other site 1321370002542 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 1321370002543 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 1321370002544 ATP binding site [chemical binding]; other site 1321370002545 substrate interface [chemical binding]; other site 1321370002546 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 1321370002547 thiS-thiF/thiG interaction site; other site 1321370002548 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 1321370002549 ThiS interaction site; other site 1321370002550 putative active site [active] 1321370002551 tetramer interface [polypeptide binding]; other site 1321370002552 thiamine biosynthesis protein ThiH; Reviewed; Region: thiH; PRK09240 1321370002553 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 1321370002554 FeS/SAM binding site; other site 1321370002555 Biotin and Thiamin Synthesis associated domain; Region: BATS; pfam06968 1321370002556 enolase; Provisional; Region: eno; PRK00077 1321370002557 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 1321370002558 dimer interface [polypeptide binding]; other site 1321370002559 metal binding site [ion binding]; metal-binding site 1321370002560 substrate binding pocket [chemical binding]; other site 1321370002561 CTP synthetase; Validated; Region: pyrG; PRK05380 1321370002562 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 1321370002563 Catalytic site [active] 1321370002564 active site 1321370002565 UTP binding site [chemical binding]; other site 1321370002566 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 1321370002567 active site 1321370002568 putative oxyanion hole; other site 1321370002569 catalytic triad [active] 1321370002570 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1321370002571 RDD family; Region: RDD; pfam06271 1321370002572 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1321370002573 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 1321370002574 carboxyltransferase (CT) interaction site; other site 1321370002575 biotinylation site [posttranslational modification]; other site 1321370002576 HlyD family secretion protein; Region: HlyD_3; pfam13437 1321370002577 Outer membrane efflux protein; Region: OEP; pfam02321 1321370002578 Outer membrane efflux protein; Region: OEP; pfam02321 1321370002579 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1321370002580 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 1321370002581 S-adenosylmethionine binding site [chemical binding]; other site 1321370002582 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1321370002583 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 1321370002584 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1321370002585 Coenzyme A binding pocket [chemical binding]; other site 1321370002586 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1321370002587 Mannose-6-phosphate isomerase [Carbohydrate transport and metabolism]; Region: {ManC}; COG0662 1321370002588 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 1321370002589 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 1321370002590 Trp docking motif [polypeptide binding]; other site 1321370002591 putative active site [active] 1321370002592 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 1321370002593 acetoin reductases; Region: 23BDH; TIGR02415 1321370002594 NAD binding site [chemical binding]; other site 1321370002595 homotetramer interface [polypeptide binding]; other site 1321370002596 homodimer interface [polypeptide binding]; other site 1321370002597 active site 1321370002598 substrate binding site [chemical binding]; other site 1321370002599 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1321370002600 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 1321370002601 N-terminal plug; other site 1321370002602 ligand-binding site [chemical binding]; other site 1321370002603 putative alcohol dehydrogenase; Provisional; Region: PRK09860 1321370002604 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 1321370002605 dimer interface [polypeptide binding]; other site 1321370002606 active site 1321370002607 metal binding site [ion binding]; metal-binding site 1321370002608 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 1321370002609 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1321370002610 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1321370002611 ZIP Zinc transporter; Region: Zip; pfam02535 1321370002612 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 1321370002613 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 1321370002614 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 1321370002615 DNA binding residues [nucleotide binding] 1321370002616 putative dimer interface [polypeptide binding]; other site 1321370002617 putative metal binding residues [ion binding]; other site 1321370002618 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 1321370002619 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 1321370002620 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 1321370002621 homodimer interface [polypeptide binding]; other site 1321370002622 metal binding site [ion binding]; metal-binding site 1321370002623 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 1321370002624 homodimer interface [polypeptide binding]; other site 1321370002625 active site 1321370002626 putative chemical substrate binding site [chemical binding]; other site 1321370002627 metal binding site [ion binding]; metal-binding site 1321370002628 (p)ppGpp synthetase I/GTP pyrophosphokinase; Provisional; Region: relA; PRK10872 1321370002629 HD domain; Region: HD_4; pfam13328 1321370002630 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1321370002631 synthetase active site [active] 1321370002632 NTP binding site [chemical binding]; other site 1321370002633 metal binding site [ion binding]; metal-binding site 1321370002634 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 1321370002635 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1321370002636 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 1321370002637 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 1321370002638 S-adenosylmethionine binding site [chemical binding]; other site 1321370002639 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 1321370002640 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 1321370002641 active site 1321370002642 hydrophilic channel; other site 1321370002643 dimerization interface [polypeptide binding]; other site 1321370002644 catalytic residues [active] 1321370002645 active site lid [active] 1321370002646 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 1321370002647 Recombination protein O N terminal; Region: RecO_N; pfam11967 1321370002648 Recombination protein O C terminal; Region: RecO_C; pfam02565 1321370002649 GTPase Era; Reviewed; Region: era; PRK00089 1321370002650 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 1321370002651 G1 box; other site 1321370002652 GTP/Mg2+ binding site [chemical binding]; other site 1321370002653 Switch I region; other site 1321370002654 G2 box; other site 1321370002655 Switch II region; other site 1321370002656 G3 box; other site 1321370002657 G4 box; other site 1321370002658 G5 box; other site 1321370002659 KH domain; Region: KH_2; pfam07650 1321370002660 ribonuclease III; Reviewed; Region: rnc; PRK00102 1321370002661 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 1321370002662 dimerization interface [polypeptide binding]; other site 1321370002663 active site 1321370002664 metal binding site [ion binding]; metal-binding site 1321370002665 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 1321370002666 dsRNA binding site [nucleotide binding]; other site 1321370002667 signal peptidase I; Provisional; Region: PRK10861 1321370002668 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 1321370002669 Catalytic site [active] 1321370002670 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 1321370002671 GTP-binding protein LepA; Provisional; Region: PRK05433 1321370002672 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 1321370002673 G1 box; other site 1321370002674 putative GEF interaction site [polypeptide binding]; other site 1321370002675 GTP/Mg2+ binding site [chemical binding]; other site 1321370002676 Switch I region; other site 1321370002677 G2 box; other site 1321370002678 G3 box; other site 1321370002679 Switch II region; other site 1321370002680 G4 box; other site 1321370002681 G5 box; other site 1321370002682 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 1321370002683 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 1321370002684 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 1321370002685 Positive regulator of sigma(E), RseC/MucC; Region: RseC_MucC; pfam04246 1321370002686 anti-sigma E factor; Provisional; Region: rseB; PRK09455 1321370002687 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseB; COG3026 1321370002688 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 1321370002689 RNA polymerase sigma factor AlgU; Provisional; Region: algU; PRK11923 1321370002690 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1321370002691 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 1321370002692 DNA binding residues [nucleotide binding] 1321370002693 L-aspartate oxidase; Provisional; Region: PRK09077 1321370002694 L-aspartate oxidase; Provisional; Region: PRK06175 1321370002695 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1321370002696 Uncharacterized conserved protein [Function unknown]; Region: COG2938 1321370002697 putative global regulator; Reviewed; Region: PRK09559 1321370002698 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 1321370002699 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1321370002700 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 1321370002701 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 1321370002702 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 1321370002703 dimer interface [polypeptide binding]; other site 1321370002704 putative anticodon binding site; other site 1321370002705 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 1321370002706 motif 1; other site 1321370002707 active site 1321370002708 motif 2; other site 1321370002709 motif 3; other site 1321370002710 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1321370002711 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1321370002712 RF-1 domain; Region: RF-1; pfam00472 1321370002713 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 1321370002714 DHH family; Region: DHH; pfam01368 1321370002715 DHHA1 domain; Region: DHHA1; pfam02272 1321370002716 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 1321370002717 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 1321370002718 dimerization domain [polypeptide binding]; other site 1321370002719 dimer interface [polypeptide binding]; other site 1321370002720 catalytic residues [active] 1321370002721 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 1321370002722 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 1321370002723 active site 1321370002724 Int/Topo IB signature motif; other site 1321370002725 Ribosomal S4P (gammaproteobacterial); Region: Ribosomal_S4Pg; pfam11993 1321370002726 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 1321370002727 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 1321370002728 NAD(P) binding site [chemical binding]; other site 1321370002729 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1321370002730 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370002731 active site 1321370002732 phosphorylation site [posttranslational modification] 1321370002733 intermolecular recognition site; other site 1321370002734 dimerization interface [polypeptide binding]; other site 1321370002735 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 1321370002736 binding surface 1321370002737 TPR motif; other site 1321370002738 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1321370002739 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 1321370002740 TPR motif; other site 1321370002741 Pirin-related protein [General function prediction only]; Region: COG1741 1321370002742 Pirin; Region: Pirin; pfam02678 1321370002743 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1321370002744 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 1321370002745 Glutathione S-transferase, N-terminal domain; Region: GST_N_2; pfam13409 1321370002746 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 1321370002747 putative dimer interface [polypeptide binding]; other site 1321370002748 N-terminal domain interface [polypeptide binding]; other site 1321370002749 putative substrate binding pocket (H-site) [chemical binding]; other site 1321370002750 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 1321370002751 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 1321370002752 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 1321370002753 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 1321370002754 active site 1321370002755 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 1321370002756 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 1321370002757 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 1321370002758 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 1321370002759 trimer interface [polypeptide binding]; other site 1321370002760 active site 1321370002761 UDP-GlcNAc binding site [chemical binding]; other site 1321370002762 lipid binding site [chemical binding]; lipid-binding site 1321370002763 periplasmic chaperone; Provisional; Region: PRK10780 1321370002764 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 1321370002765 outer membrane protein assembly factor YaeT; Provisional; Region: PRK11067 1321370002766 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1321370002767 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1321370002768 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1321370002769 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 1321370002770 Surface antigen; Region: Bac_surface_Ag; pfam01103 1321370002771 zinc metallopeptidase RseP; Provisional; Region: PRK10779 1321370002772 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 1321370002773 active site 1321370002774 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 1321370002775 protein binding site [polypeptide binding]; other site 1321370002776 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 1321370002777 protein binding site [polypeptide binding]; other site 1321370002778 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 1321370002779 putative substrate binding region [chemical binding]; other site 1321370002780 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 1321370002781 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 1321370002782 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 1321370002783 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 1321370002784 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 1321370002785 CDP-diglyceride synthase; Provisional; Region: cdsA; PRK11624 1321370002786 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 1321370002787 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 1321370002788 catalytic residue [active] 1321370002789 putative FPP diphosphate binding site; other site 1321370002790 putative FPP binding hydrophobic cleft; other site 1321370002791 dimer interface [polypeptide binding]; other site 1321370002792 putative IPP diphosphate binding site; other site 1321370002793 ribosome recycling factor; Reviewed; Region: frr; PRK00083 1321370002794 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 1321370002795 hinge region; other site 1321370002796 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 1321370002797 putative nucleotide binding site [chemical binding]; other site 1321370002798 uridine monophosphate binding site [chemical binding]; other site 1321370002799 homohexameric interface [polypeptide binding]; other site 1321370002800 elongation factor Ts; Provisional; Region: tsf; PRK09377 1321370002801 UBA/TS-N domain; Region: UBA; pfam00627 1321370002802 Elongation factor TS; Region: EF_TS; pfam00889 1321370002803 Elongation factor TS; Region: EF_TS; pfam00889 1321370002804 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 1321370002805 rRNA interaction site [nucleotide binding]; other site 1321370002806 S8 interaction site; other site 1321370002807 putative laminin-1 binding site; other site 1321370002808 methionine aminopeptidase; Provisional; Region: PRK08671 1321370002809 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 1321370002810 active site 1321370002811 PII uridylyl-transferase; Provisional; Region: PRK05007 1321370002812 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1321370002813 metal binding triad; other site 1321370002814 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1321370002815 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1321370002816 Zn2+ binding site [ion binding]; other site 1321370002817 Mg2+ binding site [ion binding]; other site 1321370002818 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 1321370002819 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 1321370002820 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 1321370002821 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 1321370002822 trimer interface [polypeptide binding]; other site 1321370002823 active site 1321370002824 substrate binding site [chemical binding]; other site 1321370002825 CoA binding site [chemical binding]; other site 1321370002826 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1321370002827 tRNA pseudouridine isomerase C; Region: PseudoU_synth_TruC; cd02563 1321370002828 probable active site [active] 1321370002829 tRNA pseudouridine synthase C; Region: DUF446; pfam04287 1321370002830 Protein of unknown function (DUF3549); Region: DUF3549; pfam12069 1321370002831 Protein of unknown function (DUF3301); Region: DUF3301; pfam11743 1321370002832 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 1321370002833 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1321370002834 Coenzyme A binding pocket [chemical binding]; other site 1321370002835 Syd protein (SUKH-2); Region: Syd; pfam07348 1321370002836 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 1321370002837 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 1321370002838 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 1321370002839 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1321370002840 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 1321370002841 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 1321370002842 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370002843 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370002844 metal binding site [ion binding]; metal-binding site 1321370002845 active site 1321370002846 I-site; other site 1321370002847 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1321370002848 Domain of unknown function (DUF3412); Region: DUF3412; pfam11892 1321370002849 Protein of unknown function (DUF3192); Region: DUF3192; pfam11399 1321370002850 isocitrate dehydrogenase; Provisional; Region: PRK08997 1321370002851 tartrate dehydrogenase; Region: TTC; TIGR02089 1321370002852 putative 23S rRNA C2498 ribose 2'-O-ribose methyltransferase; Provisional; Region: PRK11760 1321370002853 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 1321370002854 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 1321370002855 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1321370002856 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 1321370002857 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1321370002858 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 1321370002859 dimerization interface [polypeptide binding]; other site 1321370002860 substrate binding pocket [chemical binding]; other site 1321370002861 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 1321370002862 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1321370002863 NAD(P) binding site [chemical binding]; other site 1321370002864 active site 1321370002865 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1321370002866 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 1321370002867 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 1321370002868 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 1321370002869 substrate binding site [chemical binding]; other site 1321370002870 oxyanion hole (OAH) forming residues; other site 1321370002871 trimer interface [polypeptide binding]; other site 1321370002872 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 1321370002873 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1321370002874 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1321370002875 active site 1321370002876 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 1321370002877 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 1321370002878 tetrameric interface [polypeptide binding]; other site 1321370002879 NAD binding site [chemical binding]; other site 1321370002880 catalytic residues [active] 1321370002881 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1321370002882 EamA-like transporter family; Region: EamA; pfam00892 1321370002883 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 1321370002884 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 1321370002885 dimer interface [polypeptide binding]; other site 1321370002886 active site 1321370002887 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 1321370002888 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 1321370002889 DNA binding residues [nucleotide binding] 1321370002890 putative dimer interface [polypeptide binding]; other site 1321370002891 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 1321370002892 isovaleryl-CoA dehydrogenase; Region: PLN02519 1321370002893 substrate binding site [chemical binding]; other site 1321370002894 FAD binding site [chemical binding]; other site 1321370002895 catalytic base [active] 1321370002896 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 1321370002897 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 1321370002898 enoyl-CoA hydratase; Provisional; Region: PRK05995 1321370002899 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 1321370002900 substrate binding site [chemical binding]; other site 1321370002901 oxyanion hole (OAH) forming residues; other site 1321370002902 trimer interface [polypeptide binding]; other site 1321370002903 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 1321370002904 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1321370002905 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1321370002906 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1321370002907 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 1321370002908 carboxyltransferase (CT) interaction site; other site 1321370002909 biotinylation site [posttranslational modification]; other site 1321370002910 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 1321370002911 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 1321370002912 active site 1321370002913 catalytic residues [active] 1321370002914 metal binding site [ion binding]; metal-binding site 1321370002915 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 1321370002916 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 1321370002917 acyl-activating enzyme (AAE) consensus motif; other site 1321370002918 putative AMP binding site [chemical binding]; other site 1321370002919 putative active site [active] 1321370002920 putative CoA binding site [chemical binding]; other site 1321370002921 CHASE domain; Region: CHASE; cl01369 1321370002922 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370002923 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370002924 metal binding site [ion binding]; metal-binding site 1321370002925 active site 1321370002926 I-site; other site 1321370002927 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 1321370002928 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 1321370002929 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1321370002930 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 1321370002931 DNA binding protein, nucleoid-associated; Provisional; Region: PRK10328 1321370002932 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 1321370002933 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 1321370002934 homodimer interaction site [polypeptide binding]; other site 1321370002935 cofactor binding site; other site 1321370002936 prolyl-tRNA synthetase; Provisional; Region: PRK09194 1321370002937 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 1321370002938 dimer interface [polypeptide binding]; other site 1321370002939 motif 1; other site 1321370002940 active site 1321370002941 motif 2; other site 1321370002942 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 1321370002943 putative deacylase active site [active] 1321370002944 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 1321370002945 active site 1321370002946 motif 3; other site 1321370002947 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 1321370002948 anticodon binding site; other site 1321370002949 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1321370002950 active site 1321370002951 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1321370002952 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 1321370002953 catalytic loop [active] 1321370002954 iron binding site [ion binding]; other site 1321370002955 Predicted inorganic polyphosphate/ATP-NAD kinase [General function prediction only]; Region: COG3199 1321370002956 ATP-NAD kinase; Region: NAD_kinase; pfam01513 1321370002957 Predicted small secreted protein [Function unknown]; Region: COG5510 1321370002958 Protein of unknown function, DUF462; Region: DUF462; pfam04315 1321370002959 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 1321370002960 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 1321370002961 Tetramer interface [polypeptide binding]; other site 1321370002962 active site 1321370002963 FMN-binding site [chemical binding]; other site 1321370002964 HemK family putative methylases; Region: hemK_fam; TIGR00536 1321370002965 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 1321370002966 S-adenosylmethionine binding site [chemical binding]; other site 1321370002967 hypothetical protein; Provisional; Region: PRK04946 1321370002968 Smr domain; Region: Smr; pfam01713 1321370002969 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 1321370002970 catalytic core [active] 1321370002971 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2914 1321370002972 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 1321370002973 putative coenzyme Q binding site [chemical binding]; other site 1321370002974 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 1321370002975 SmpB-tmRNA interface; other site 1321370002976 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 1321370002977 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 1321370002978 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1321370002979 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 1321370002980 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1321370002981 Type II/IV secretion system protein; Region: T2SE; pfam00437 1321370002982 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 1321370002983 ATP binding site [chemical binding]; other site 1321370002984 Walker A motif; other site 1321370002985 hexamer interface [polypeptide binding]; other site 1321370002986 Walker B motif; other site 1321370002987 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 1321370002988 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1321370002989 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 1321370002990 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1321370002991 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1321370002992 Putative addiction module component; Region: Unstab_antitox; pfam09720 1321370002993 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 1321370002994 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: rSAM_QueE_Ecoli; TIGR04322 1321370002995 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 1321370002996 Ligand Binding Site [chemical binding]; other site 1321370002997 beta-hexosaminidase; Provisional; Region: PRK05337 1321370002998 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 1321370002999 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 1321370003000 C-terminal peptidase (prc); Region: prc; TIGR00225 1321370003001 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 1321370003002 protein binding site [polypeptide binding]; other site 1321370003003 C-terminal processing peptidase-like; serine protease family S41; Region: Peptidase_S41_CPP_like; cd07561 1321370003004 Catalytic dyad [active] 1321370003005 acyl-CoA dehydrogenase; Reviewed; Region: PRK13026 1321370003006 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1321370003007 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1321370003008 active site 1321370003009 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1321370003010 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1321370003011 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1321370003012 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 1321370003013 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1321370003014 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 1321370003015 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 1321370003016 Protein of unknown function (DUF819); Region: DUF819; cl02317 1321370003017 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 1321370003018 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1321370003019 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370003020 active site 1321370003021 phosphorylation site [posttranslational modification] 1321370003022 intermolecular recognition site; other site 1321370003023 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 1321370003024 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 1321370003025 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 1321370003026 S-adenosylmethionine binding site [chemical binding]; other site 1321370003027 peptide chain release factor 1; Validated; Region: prfA; PRK00591 1321370003028 This domain is found in peptide chain release factors; Region: PCRF; smart00937 1321370003029 RF-1 domain; Region: RF-1; pfam00472 1321370003030 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 1321370003031 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 1321370003032 tRNA; other site 1321370003033 putative tRNA binding site [nucleotide binding]; other site 1321370003034 putative NADP binding site [chemical binding]; other site 1321370003035 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 1321370003036 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 1321370003037 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 1321370003038 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 1321370003039 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 1321370003040 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 1321370003041 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 1321370003042 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1321370003043 active site 1321370003044 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 1321370003045 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 1321370003046 5S rRNA interface [nucleotide binding]; other site 1321370003047 CTC domain interface [polypeptide binding]; other site 1321370003048 L16 interface [polypeptide binding]; other site 1321370003049 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 1321370003050 putative active site [active] 1321370003051 catalytic residue [active] 1321370003052 GTP-binding protein YchF; Reviewed; Region: PRK09601 1321370003053 YchF GTPase; Region: YchF; cd01900 1321370003054 G1 box; other site 1321370003055 GTP/Mg2+ binding site [chemical binding]; other site 1321370003056 Switch I region; other site 1321370003057 G2 box; other site 1321370003058 Switch II region; other site 1321370003059 G3 box; other site 1321370003060 G4 box; other site 1321370003061 G5 box; other site 1321370003062 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 1321370003063 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 1321370003064 apolar tunnel; other site 1321370003065 heme binding site [chemical binding]; other site 1321370003066 dimerization interface [polypeptide binding]; other site 1321370003067 Protein of unknown function (DUF3034); Region: DUF3034; pfam11231 1321370003068 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 1321370003069 dimerization interface [polypeptide binding]; other site 1321370003070 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370003071 metal binding site [ion binding]; metal-binding site 1321370003072 active site 1321370003073 I-site; other site 1321370003074 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 1321370003075 fumarate hydratase; Reviewed; Region: fumC; PRK00485 1321370003076 Class II fumarases; Region: Fumarase_classII; cd01362 1321370003077 active site 1321370003078 tetramer interface [polypeptide binding]; other site 1321370003079 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1321370003080 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1321370003081 NADP binding site [chemical binding]; other site 1321370003082 homodimer interface [polypeptide binding]; other site 1321370003083 active site 1321370003084 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1321370003085 2-octaprenyl-3-methyl-6-methoxy-1,4-benzoquinol hydroxylase; Reviewed; Region: ubiF; PRK08020 1321370003086 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1321370003087 EamA-like transporter family; Region: EamA; pfam00892 1321370003088 EamA-like transporter family; Region: EamA; pfam00892 1321370003089 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 1321370003090 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 1321370003091 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 1321370003092 FeS/SAM binding site; other site 1321370003093 TRAM domain; Region: TRAM; pfam01938 1321370003094 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 1321370003095 PhoH-like protein; Region: PhoH; pfam02562 1321370003096 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG0319 1321370003097 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 1321370003098 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 1321370003099 Transporter associated domain; Region: CorC_HlyC; smart01091 1321370003100 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 1321370003101 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 1321370003102 putative active site [active] 1321370003103 catalytic triad [active] 1321370003104 putative dimer interface [polypeptide binding]; other site 1321370003105 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 1321370003106 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1321370003107 HIGH motif; other site 1321370003108 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1321370003109 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 1321370003110 active site 1321370003111 KMSKS motif; other site 1321370003112 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 1321370003113 tRNA binding surface [nucleotide binding]; other site 1321370003114 Lipopolysaccharide-assembly; Region: LptE; cl01125 1321370003115 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 1321370003116 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 1321370003117 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 1321370003118 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 1321370003119 active site 1321370003120 (T/H)XGH motif; other site 1321370003121 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 1321370003122 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 1321370003123 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 1321370003124 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 1321370003125 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 1321370003126 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 1321370003127 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1321370003128 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 1321370003129 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1321370003130 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1321370003131 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1321370003132 Sporulation related domain; Region: SPOR; pfam05036 1321370003133 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 1321370003134 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 1321370003135 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 1321370003136 hypothetical protein; Provisional; Region: PRK04998 1321370003137 lipoate-protein ligase B; Provisional; Region: PRK14342 1321370003138 lipoyl synthase; Provisional; Region: PRK05481 1321370003139 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 1321370003140 FeS/SAM binding site; other site 1321370003141 MAPEG family; Region: MAPEG; cl09190 1321370003142 lipoprotein NlpI; Provisional; Region: PRK11189 1321370003143 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 1321370003144 binding surface 1321370003145 TPR motif; other site 1321370003146 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 1321370003147 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 1321370003148 RNase E interface [polypeptide binding]; other site 1321370003149 trimer interface [polypeptide binding]; other site 1321370003150 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 1321370003151 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 1321370003152 RNase E interface [polypeptide binding]; other site 1321370003153 trimer interface [polypeptide binding]; other site 1321370003154 active site 1321370003155 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl17245 1321370003156 nucleic acid binding region [nucleotide binding]; other site 1321370003157 G-X-X-G motif; other site 1321370003158 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 1321370003159 RNA binding site [nucleotide binding]; other site 1321370003160 domain interface; other site 1321370003161 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 1321370003162 16S/18S rRNA binding site [nucleotide binding]; other site 1321370003163 S13e-L30e interaction site [polypeptide binding]; other site 1321370003164 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 1321370003165 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 1321370003166 RNA binding site [nucleotide binding]; other site 1321370003167 active site 1321370003168 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 1321370003169 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 1321370003170 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1321370003171 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 1321370003172 translation initiation factor IF-2; Region: IF-2; TIGR00487 1321370003173 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 1321370003174 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 1321370003175 G1 box; other site 1321370003176 putative GEF interaction site [polypeptide binding]; other site 1321370003177 GTP/Mg2+ binding site [chemical binding]; other site 1321370003178 Switch I region; other site 1321370003179 G2 box; other site 1321370003180 G3 box; other site 1321370003181 Switch II region; other site 1321370003182 G4 box; other site 1321370003183 G5 box; other site 1321370003184 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 1321370003185 Translation-initiation factor 2; Region: IF-2; pfam11987 1321370003186 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 1321370003187 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 1321370003188 NusA N-terminal domain; Region: NusA_N; pfam08529 1321370003189 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 1321370003190 RNA binding site [nucleotide binding]; other site 1321370003191 homodimer interface [polypeptide binding]; other site 1321370003192 NusA-like KH domain; Region: KH_5; pfam13184 1321370003193 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 1321370003194 G-X-X-G motif; other site 1321370003195 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1321370003196 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 1321370003197 ribosome maturation protein RimP; Reviewed; Region: PRK00092 1321370003198 Sm and related proteins; Region: Sm_like; cl00259 1321370003199 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 1321370003200 putative oligomer interface [polypeptide binding]; other site 1321370003201 putative RNA binding site [nucleotide binding]; other site 1321370003202 Preprotein translocase SecG subunit; Region: SecG; pfam03840 1321370003203 triosephosphate isomerase; Provisional; Region: PRK14567 1321370003204 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 1321370003205 substrate binding site [chemical binding]; other site 1321370003206 dimer interface [polypeptide binding]; other site 1321370003207 catalytic triad [active] 1321370003208 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 1321370003209 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 1321370003210 active site 1321370003211 substrate binding site [chemical binding]; other site 1321370003212 metal binding site [ion binding]; metal-binding site 1321370003213 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 1321370003214 dihydropteroate synthase; Region: DHPS; TIGR01496 1321370003215 substrate binding pocket [chemical binding]; other site 1321370003216 dimer interface [polypeptide binding]; other site 1321370003217 inhibitor binding site; inhibition site 1321370003218 FtsH Extracellular; Region: FtsH_ext; pfam06480 1321370003219 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 1321370003220 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 1321370003221 Walker A motif; other site 1321370003222 ATP binding site [chemical binding]; other site 1321370003223 Walker B motif; other site 1321370003224 arginine finger; other site 1321370003225 Peptidase family M41; Region: Peptidase_M41; pfam01434 1321370003226 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 1321370003227 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 1321370003228 S-adenosylmethionine binding site [chemical binding]; other site 1321370003229 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 1321370003230 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 1321370003231 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 1321370003232 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 1321370003233 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 1321370003234 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1321370003235 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1321370003236 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 1321370003237 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1321370003238 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1321370003239 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 1321370003240 IMP binding site; other site 1321370003241 dimer interface [polypeptide binding]; other site 1321370003242 interdomain contacts; other site 1321370003243 partial ornithine binding site; other site 1321370003244 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 1321370003245 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 1321370003246 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 1321370003247 catalytic site [active] 1321370003248 subunit interface [polypeptide binding]; other site 1321370003249 dihydrodipicolinate reductase; Provisional; Region: PRK00048 1321370003250 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 1321370003251 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 1321370003252 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1321370003253 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1321370003254 Peptidase family M48; Region: Peptidase_M48; pfam01435 1321370003255 chaperone protein DnaJ; Provisional; Region: PRK10767 1321370003256 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 1321370003257 HSP70 interaction site [polypeptide binding]; other site 1321370003258 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 1321370003259 substrate binding site [polypeptide binding]; other site 1321370003260 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 1321370003261 Zn binding sites [ion binding]; other site 1321370003262 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 1321370003263 dimer interface [polypeptide binding]; other site 1321370003264 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 1321370003265 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 1321370003266 nucleotide binding site [chemical binding]; other site 1321370003267 GrpE; Region: GrpE; pfam01025 1321370003268 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 1321370003269 dimer interface [polypeptide binding]; other site 1321370003270 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 1321370003271 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 1321370003272 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 1321370003273 recombination and repair protein; Provisional; Region: PRK10869 1321370003274 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1321370003275 Walker A/P-loop; other site 1321370003276 ATP binding site [chemical binding]; other site 1321370003277 The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature; Region: BAR; cl12013 1321370003278 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 1321370003279 ABC transporter signature motif; other site 1321370003280 Walker B; other site 1321370003281 D-loop; other site 1321370003282 H-loop/switch region; other site 1321370003283 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 1321370003284 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 1321370003285 Secreted/periplasmic Zn-dependent peptidases, insulinase-like [Posttranslational modification, protein turnover, chaperones]; Region: Ptr; COG1025 1321370003286 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1321370003287 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1321370003288 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1321370003289 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1321370003290 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 1321370003291 PAS fold; Region: PAS_3; pfam08447 1321370003292 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 1321370003293 PAS domain; Region: PAS_9; pfam13426 1321370003294 putative active site [active] 1321370003295 heme pocket [chemical binding]; other site 1321370003296 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370003297 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370003298 metal binding site [ion binding]; metal-binding site 1321370003299 active site 1321370003300 I-site; other site 1321370003301 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 1321370003302 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 1321370003303 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 1321370003304 substrate binding site [chemical binding]; other site 1321370003305 oxyanion hole (OAH) forming residues; other site 1321370003306 trimer interface [polypeptide binding]; other site 1321370003307 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 1321370003308 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1321370003309 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 1321370003310 3-ketoacyl-CoA thiolase; Reviewed; Region: fadI; PRK08963 1321370003311 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 1321370003312 dimer interface [polypeptide binding]; other site 1321370003313 active site 1321370003314 MoxR-like ATPases [General function prediction only]; Region: COG0714 1321370003315 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 1321370003316 Walker A motif; other site 1321370003317 ATP binding site [chemical binding]; other site 1321370003318 Walker B motif; other site 1321370003319 arginine finger; other site 1321370003320 Protein of unknown function DUF58; Region: DUF58; pfam01882 1321370003321 Domain of unknown function (DUF4381); Region: DUF4381; pfam14316 1321370003322 Aerotolerance regulator N-terminal; Region: BatA; cl06567 1321370003323 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 1321370003324 metal ion-dependent adhesion site (MIDAS); other site 1321370003325 von Willebrand factor type A domain; Region: VWA_2; pfam13519 1321370003326 metal ion-dependent adhesion site (MIDAS); other site 1321370003327 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 1321370003328 Tetratricopeptide repeat; Region: TPR_16; pfam13432 1321370003329 binding surface 1321370003330 TPR motif; other site 1321370003331 Oxygen tolerance; Region: BatD; pfam13584 1321370003332 periplasmic folding chaperone; Provisional; Region: PRK10788 1321370003333 SurA N-terminal domain; Region: SurA_N_3; cl07813 1321370003334 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 1321370003335 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 1321370003336 IHF dimer interface [polypeptide binding]; other site 1321370003337 IHF - DNA interface [nucleotide binding]; other site 1321370003338 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 1321370003339 Found in ATP-dependent protease La (LON); Region: LON; smart00464 1321370003340 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 1321370003341 Walker A motif; other site 1321370003342 ATP binding site [chemical binding]; other site 1321370003343 Walker B motif; other site 1321370003344 arginine finger; other site 1321370003345 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1321370003346 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 1321370003347 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 1321370003348 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 1321370003349 Walker A motif; other site 1321370003350 ATP binding site [chemical binding]; other site 1321370003351 Walker B motif; other site 1321370003352 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1321370003353 Clp protease; Region: CLP_protease; pfam00574 1321370003354 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 1321370003355 oligomer interface [polypeptide binding]; other site 1321370003356 active site residues [active] 1321370003357 trigger factor; Provisional; Region: tig; PRK01490 1321370003358 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1321370003359 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 1321370003360 potential protein location (hypothetical protein K734_05065 [Idiomarina loihiensis GSL 199]) that overlaps RNA (tRNA-P) 1321370003361 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK10792 1321370003362 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 1321370003363 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 1321370003364 homodimer interface [polypeptide binding]; other site 1321370003365 NADP binding site [chemical binding]; other site 1321370003366 substrate binding site [chemical binding]; other site 1321370003367 TadE-like protein; Region: TadE; pfam07811 1321370003368 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 1321370003369 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 1321370003370 active site 1321370003371 interdomain interaction site; other site 1321370003372 putative metal-binding site [ion binding]; other site 1321370003373 nucleotide binding site [chemical binding]; other site 1321370003374 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 1321370003375 domain I; other site 1321370003376 DNA binding groove [nucleotide binding] 1321370003377 phosphate binding site [ion binding]; other site 1321370003378 domain II; other site 1321370003379 domain III; other site 1321370003380 nucleotide binding site [chemical binding]; other site 1321370003381 catalytic site [active] 1321370003382 domain IV; other site 1321370003383 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1321370003384 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 1321370003385 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1321370003386 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 1321370003387 succinylarginine dihydrolase; Provisional; Region: PRK13281 1321370003388 amidophosphoribosyltransferase; Provisional; Region: PRK09246 1321370003389 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 1321370003390 active site 1321370003391 tetramer interface [polypeptide binding]; other site 1321370003392 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1321370003393 active site 1321370003394 Uncharacterized membrane protein, required for colicin V production [General function prediction only]; Region: CvpA; COG1286 1321370003395 Colicin V production protein; Region: Colicin_V; cl00567 1321370003396 Sporulation related domain; Region: SPOR; pfam05036 1321370003397 bifunctional folylpolyglutamate synthase/ dihydrofolate synthase; Provisional; Region: PRK10846 1321370003398 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1321370003399 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 1321370003400 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 1321370003401 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 1321370003402 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 1321370003403 dimerization interface 3.5A [polypeptide binding]; other site 1321370003404 active site 1321370003405 FimV N-terminal domain; Region: FimV_core; TIGR03505 1321370003406 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 1321370003407 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 1321370003408 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 1321370003409 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 1321370003410 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 1321370003411 ligand binding site [chemical binding]; other site 1321370003412 NAD binding site [chemical binding]; other site 1321370003413 catalytic site [active] 1321370003414 homodimer interface [polypeptide binding]; other site 1321370003415 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 1321370003416 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 1321370003417 dimer interface [polypeptide binding]; other site 1321370003418 active site 1321370003419 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 1321370003420 Uncharacterized conserved protein [Function unknown]; Region: COG4121 1321370003421 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1321370003422 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1321370003423 YfcL protein; Region: YfcL; pfam08891 1321370003424 flavodoxin FldB; Provisional; Region: PRK12359 1321370003425 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 1321370003426 active site 1321370003427 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 1321370003428 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 1321370003429 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 1321370003430 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1321370003431 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 1321370003432 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 1321370003433 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 1321370003434 PA_M28_1_1: Protease-associated (PA) domain, peptidase family M28, subfamily-1, subgroup 1. 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_1; cd04820 1321370003435 PA/protease or protease-like domain interface [polypeptide binding]; other site 1321370003436 M28 Zn-Peptidases containing a PA domain insert; Region: M28_like_PA_2; cd05661 1321370003437 Peptidase family M28; Region: Peptidase_M28; pfam04389 1321370003438 metal binding site [ion binding]; metal-binding site 1321370003439 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 1321370003440 putative acyl-acceptor binding pocket; other site 1321370003441 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 1321370003442 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 1321370003443 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 1321370003444 putative active site [active] 1321370003445 putative metal binding site [ion binding]; other site 1321370003446 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 1321370003447 substrate binding site [chemical binding]; other site 1321370003448 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 1321370003449 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1321370003450 active site 1321370003451 HIGH motif; other site 1321370003452 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 1321370003453 KMSKS motif; other site 1321370003454 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 1321370003455 tRNA binding surface [nucleotide binding]; other site 1321370003456 anticodon binding site; other site 1321370003457 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 1321370003458 interface (dimer of trimers) [polypeptide binding]; other site 1321370003459 Substrate-binding/catalytic site; other site 1321370003460 Zn-binding sites [ion binding]; other site 1321370003461 Protein of unknown function (DUF1282); Region: DUF1282; pfam06930 1321370003462 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 1321370003463 active site 1321370003464 dinuclear metal binding site [ion binding]; other site 1321370003465 dimerization interface [polypeptide binding]; other site 1321370003466 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1321370003467 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1321370003468 Peptidase family S49 N-terminal; Region: Peptidase_S49_N; pfam08496 1321370003469 putative inner membrane peptidase; Provisional; Region: PRK11778 1321370003470 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1321370003471 tandem repeat interface [polypeptide binding]; other site 1321370003472 oligomer interface [polypeptide binding]; other site 1321370003473 active site residues [active] 1321370003474 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 1321370003475 Bacterial virulence factor lipase N-terminal; Region: Lipase_bact_N; pfam12262 1321370003476 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 1321370003477 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1321370003478 NAD(P) binding site [chemical binding]; other site 1321370003479 active site 1321370003480 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1321370003481 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 1321370003482 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1321370003483 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1321370003484 catalytic residue [active] 1321370003485 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 1321370003486 active site residue [active] 1321370003487 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2991 1321370003488 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 1321370003489 ApbE family; Region: ApbE; pfam02424 1321370003490 Na(+)-translocating NADH-quinone reductase subunit F; Provisional; Region: PRK05464 1321370003491 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 1321370003492 catalytic loop [active] 1321370003493 iron binding site [ion binding]; other site 1321370003494 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 1321370003495 FAD binding pocket [chemical binding]; other site 1321370003496 FAD binding motif [chemical binding]; other site 1321370003497 phosphate binding motif [ion binding]; other site 1321370003498 beta-alpha-beta structure motif; other site 1321370003499 NAD binding pocket [chemical binding]; other site 1321370003500 Na(+)-translocating NADH-quinone reductase subunit E; Provisional; Region: PRK02830 1321370003501 Na(+)-translocating NADH-quinone reductase subunit D; Validated; Region: PRK09292 1321370003502 Na(+)-translocating NADH-quinone reductase subunit C; Provisional; Region: PRK05346 1321370003503 NADH:ubiquinone oxidoreductase, Na(+)-translocating, C subunit; Region: nqrC; TIGR01938 1321370003504 Na(+)-translocating NADH-quinone reductase subunit B; Provisional; Region: PRK05349 1321370003505 Na(+)-translocating NADH-quinone reductase subunit A; Provisional; Region: PRK05352 1321370003506 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 1321370003507 E3 interaction surface; other site 1321370003508 lipoyl attachment site [posttranslational modification]; other site 1321370003509 NQRA C-terminal domain; Region: NQRA_SLBB; pfam11973 1321370003510 trans-2-enoyl-CoA reductase; Provisional; Region: PRK13656 1321370003511 NAD(P)H binding domain of trans-2-enoyl-CoA reductase; Region: Eno-Rase_NADH_b; pfam12242 1321370003512 Trans-2-enoyl-CoA reductase catalytic region; Region: Enoyl_reductase; pfam12241 1321370003513 Enoyl reductase FAD binding domain; Region: Eno-Rase_FAD_bd; pfam07055 1321370003514 BolA-like protein; Region: BolA; cl00386 1321370003515 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 1321370003516 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3009 1321370003517 Protein of unknown function (DUF330); Region: DUF330; pfam03886 1321370003518 paraquat-inducible protein B; Provisional; Region: PRK10807 1321370003519 mce related protein; Region: MCE; pfam02470 1321370003520 mce related protein; Region: MCE; pfam02470 1321370003521 Paraquat-inducible protein A; Region: PqiA; pfam04403 1321370003522 Paraquat-inducible protein A; Region: PqiA; pfam04403 1321370003523 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 1321370003524 TrkA-N domain; Region: TrkA_N; pfam02254 1321370003525 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 1321370003526 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 1321370003527 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 1321370003528 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 1321370003529 dimer interface [polypeptide binding]; other site 1321370003530 conserved gate region; other site 1321370003531 putative PBP binding loops; other site 1321370003532 ABC-ATPase subunit interface; other site 1321370003533 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1321370003534 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 1321370003535 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 1321370003536 Walker A/P-loop; other site 1321370003537 ATP binding site [chemical binding]; other site 1321370003538 Q-loop/lid; other site 1321370003539 ABC transporter signature motif; other site 1321370003540 Walker B; other site 1321370003541 D-loop; other site 1321370003542 H-loop/switch region; other site 1321370003543 TOBE domain; Region: TOBE_2; pfam08402 1321370003544 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 1321370003545 Salmonella typhimurium Zn2+ transporter ZntB-like subgroup; Region: ZntB-like_1; cd12833 1321370003546 Cl binding site [ion binding]; other site 1321370003547 oligomer interface [polypeptide binding]; other site 1321370003548 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 1321370003549 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1321370003550 acyl-activating enzyme (AAE) consensus motif; other site 1321370003551 AMP binding site [chemical binding]; other site 1321370003552 active site 1321370003553 CoA binding site [chemical binding]; other site 1321370003554 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1321370003555 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 1321370003556 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 1321370003557 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1321370003558 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1321370003559 heme binding site [chemical binding]; other site 1321370003560 ferroxidase pore; other site 1321370003561 ferroxidase diiron center [ion binding]; other site 1321370003562 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 1321370003563 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 1321370003564 heme binding site [chemical binding]; other site 1321370003565 ferroxidase pore; other site 1321370003566 ferroxidase diiron center [ion binding]; other site 1321370003567 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1321370003568 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1321370003569 HAMP domain; Region: HAMP; pfam00672 1321370003570 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1321370003571 dimer interface [polypeptide binding]; other site 1321370003572 putative CheW interface [polypeptide binding]; other site 1321370003573 Predicted glutamine amidotransferases [General function prediction only]; Region: COG2071 1321370003574 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 1321370003575 catalytic triad [active] 1321370003576 Putative amidoligase enzyme; Region: Amidoligase_2; pfam12224 1321370003577 M28 Zn-Peptidase Aeromonas (Vibrio) proteolytica aminopeptidase (AAP)-like; Region: M28_AAP_like; cd05642 1321370003578 Predicted aminopeptidases [General function prediction only]; Region: Iap; COG2234 1321370003579 putative metal binding site [ion binding]; other site 1321370003580 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 1321370003581 Interdomain contacts; other site 1321370003582 Cytokine receptor motif; other site 1321370003583 PilZ domain; Region: PilZ; pfam07238 1321370003584 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 1321370003585 putative NAD(P) binding site [chemical binding]; other site 1321370003586 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 1321370003587 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 1321370003588 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 1321370003589 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1321370003590 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 1321370003591 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 1321370003592 active site 1321370003593 dimer interface [polypeptide binding]; other site 1321370003594 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 1321370003595 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 1321370003596 active site 1321370003597 FMN binding site [chemical binding]; other site 1321370003598 substrate binding site [chemical binding]; other site 1321370003599 3Fe-4S cluster binding site [ion binding]; other site 1321370003600 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 1321370003601 domain interface; other site 1321370003602 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 1321370003603 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1321370003604 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1321370003605 quinolinate synthetase; Provisional; Region: PRK09375 1321370003606 potential protein location (hypothetical protein K734_05420 [Idiomarina loihiensis GSL 199]) that overlaps RNA (tRNA-K) 1321370003607 tol-pal system protein YbgF; Provisional; Region: PRK10803 1321370003608 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 1321370003609 TPR motif; other site 1321370003610 binding surface 1321370003611 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 1321370003612 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1321370003613 ligand binding site [chemical binding]; other site 1321370003614 translocation protein TolB; Provisional; Region: tolB; PRK04792 1321370003615 TolB amino-terminal domain; Region: TolB_N; pfam04052 1321370003616 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1321370003617 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1321370003618 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1321370003619 TolA protein; Region: tolA_full; TIGR02794 1321370003620 TolA C-terminal; Region: TolA; pfam06519 1321370003621 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1321370003622 TolR protein; Region: tolR; TIGR02801 1321370003623 TolQ protein; Region: tolQ; TIGR02796 1321370003624 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 1321370003625 active site 1321370003626 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 1321370003627 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 1321370003628 Walker A motif; other site 1321370003629 ATP binding site [chemical binding]; other site 1321370003630 Walker B motif; other site 1321370003631 arginine finger; other site 1321370003632 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 1321370003633 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 1321370003634 RuvA N terminal domain; Region: RuvA_N; pfam01330 1321370003635 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 1321370003636 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 1321370003637 active site 1321370003638 putative DNA-binding cleft [nucleotide binding]; other site 1321370003639 dimer interface [polypeptide binding]; other site 1321370003640 hypothetical protein; Validated; Region: PRK00110 1321370003641 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 1321370003642 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 1321370003643 dimer interface [polypeptide binding]; other site 1321370003644 anticodon binding site; other site 1321370003645 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 1321370003646 homodimer interface [polypeptide binding]; other site 1321370003647 motif 1; other site 1321370003648 active site 1321370003649 motif 2; other site 1321370003650 GAD domain; Region: GAD; pfam02938 1321370003651 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 1321370003652 active site 1321370003653 motif 3; other site 1321370003654 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 1321370003655 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 1321370003656 substrate binding pocket [chemical binding]; other site 1321370003657 membrane-bound complex binding site; other site 1321370003658 hinge residues; other site 1321370003659 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370003660 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370003661 metal binding site [ion binding]; metal-binding site 1321370003662 active site 1321370003663 I-site; other site 1321370003664 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 1321370003665 S-adenosylmethionine binding site [chemical binding]; other site 1321370003666 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1321370003667 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 1321370003668 S-adenosylmethionine binding site [chemical binding]; other site 1321370003669 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1321370003670 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1321370003671 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 1321370003672 dimerization interface [polypeptide binding]; other site 1321370003673 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 1321370003674 active site 1321370003675 tetramer interface; other site 1321370003676 Response regulator receiver domain; Region: Response_reg; pfam00072 1321370003677 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370003678 active site 1321370003679 phosphorylation site [posttranslational modification] 1321370003680 intermolecular recognition site; other site 1321370003681 dimerization interface [polypeptide binding]; other site 1321370003682 VacJ like lipoprotein; Region: VacJ; cl01073 1321370003683 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: COG4235 1321370003684 cytochrome c-type biogenesis protein CcmI; Region: cytochro_ccmI; TIGR03142 1321370003685 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 1321370003686 TPR motif; other site 1321370003687 binding surface 1321370003688 Cytochrome C biogenesis protein; Region: CcmH; pfam03918 1321370003689 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 1321370003690 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1321370003691 catalytic residues [active] 1321370003692 central insert; other site 1321370003693 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]; Region: CcmF; COG1138 1321370003694 cytochrome c-type biogenesis protein CcmE; Reviewed; Region: PRK13165 1321370003695 Heme exporter protein D [Intracellular trafficking and secretion]; Region: CcmD; COG3114 1321370003696 heme exporter protein CcmC; Region: ccmC; TIGR01191 1321370003697 heme exporter protein CcmB; Region: ccmB; TIGR01190 1321370003698 cytochrome c biogenesis protein CcmA; Provisional; Region: PRK13538 1321370003699 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1321370003700 Walker A/P-loop; other site 1321370003701 ATP binding site [chemical binding]; other site 1321370003702 Q-loop/lid; other site 1321370003703 ABC transporter signature motif; other site 1321370003704 Walker B; other site 1321370003705 D-loop; other site 1321370003706 H-loop/switch region; other site 1321370003707 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1321370003708 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257 1321370003709 Protein of unknown function (DUF2802); Region: DUF2802; pfam10975 1321370003710 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 1321370003711 putative CheA interaction surface; other site 1321370003712 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 1321370003713 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1321370003714 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 1321370003715 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 1321370003716 Magnesium ion binding site [ion binding]; other site 1321370003717 chemotaxis-specific methylesterase; Provisional; Region: PRK00742 1321370003718 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370003719 active site 1321370003720 phosphorylation site [posttranslational modification] 1321370003721 intermolecular recognition site; other site 1321370003722 dimerization interface [polypeptide binding]; other site 1321370003723 CheB methylesterase; Region: CheB_methylest; pfam01339 1321370003724 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 1321370003725 putative binding surface; other site 1321370003726 active site 1321370003727 Chemotaxis protein histidine kinase and related kinases [Cell motility and secretion / Signal transduction mechanisms]; Region: CheA; COG0643 1321370003728 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 1321370003729 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 1321370003730 ATP binding site [chemical binding]; other site 1321370003731 Mg2+ binding site [ion binding]; other site 1321370003732 G-X-G motif; other site 1321370003733 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 1321370003734 Chemotaxis phosphatase, CheZ; Region: CheZ; pfam04344 1321370003735 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1321370003736 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370003737 active site 1321370003738 phosphorylation site [posttranslational modification] 1321370003739 intermolecular recognition site; other site 1321370003740 dimerization interface [polypeptide binding]; other site 1321370003741 flagellar biosynthesis sigma factor; Validated; Region: fliA; PRK06986 1321370003742 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1321370003743 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1321370003744 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 1321370003745 DNA binding residues [nucleotide binding] 1321370003746 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 1321370003747 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 1321370003748 flagellar biosynthesis regulator FlhF; Validated; Region: flhF; PRK05703 1321370003749 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 1321370003750 flagellar biosynthesis protein FlhA; Validated; Region: flhA; PRK06012 1321370003751 FHIPEP family; Region: FHIPEP; pfam00771 1321370003752 hypothetical protein; Provisional; Region: PRK10506 1321370003753 hypothetical protein; Provisional; Region: PRK10557 1321370003754 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 1321370003755 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 1321370003756 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 1321370003757 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1321370003758 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 1321370003759 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 1321370003760 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1321370003761 active site 1321370003762 HIGH motif; other site 1321370003763 nucleotide binding site [chemical binding]; other site 1321370003764 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 1321370003765 active site 1321370003766 KMSKS motif; other site 1321370003767 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 1321370003768 tRNA binding surface [nucleotide binding]; other site 1321370003769 anticodon binding site; other site 1321370003770 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 1321370003771 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 1321370003772 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 1321370003773 active site 1321370003774 Riboflavin kinase; Region: Flavokinase; smart00904 1321370003775 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 1321370003776 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 1321370003777 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 1321370003778 Flagellar protein FliS; Region: FliS; cl00654 1321370003779 Flagellar capping protein [Cell motility and secretion]; Region: FliD; COG1345 1321370003780 Flagellar hook-associated protein 2 C-terminus; Region: FliD_N; pfam02465 1321370003781 Flagellin hook IN motif; Region: Flagellin_IN; pfam07196 1321370003782 Flagellar hook-associated protein 2 C-terminus; Region: FliD_C; pfam07195 1321370003783 FlaG protein; Region: FlaG; pfam03646 1321370003784 flagellin; Provisional; Region: PRK12806 1321370003785 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1321370003786 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1321370003787 flagellar hook-associated protein FlgL; Reviewed; Region: flgL; PRK08870 1321370003788 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 1321370003789 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 1321370003790 flagellar hook-associated protein FlgK; Validated; Region: flgK; PRK06945 1321370003791 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1321370003792 flagellar rod assembly protein/muramidase FlgJ; Validated; Region: flgJ; PRK05684 1321370003793 Rod binding protein [Cell envelope biogenesis, outer membrane / Cell motility and secretion / Posttranslational modification, protein turnover, chaperones]; Region: COG3951 1321370003794 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 1321370003795 flagellar basal body P-ring protein; Provisional; Region: flgI; PRK05303 1321370003796 flagellar basal body P-ring protein; Reviewed; Region: flgI; cl14622 1321370003797 flagellar basal body L-ring protein; Reviewed; Region: flgH; PRK12698 1321370003798 Flagellar L-ring protein; Region: FlgH; pfam02107 1321370003799 flagellar basal body rod protein FlgG; Provisional; Region: flgG; PRK12693 1321370003800 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1321370003801 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1321370003802 flagellar basal body rod protein FlgF; Reviewed; Region: flgF; PRK12640 1321370003803 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1321370003804 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 1321370003805 Flagella basal body rod protein; Region: Flg_bb_rod; pfam00460 1321370003806 Flagellar basal body protein FlaE; Region: FlaE; pfam07559 1321370003807 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1321370003808 flagellar basal body rod modification protein; Reviewed; Region: flgD; PRK06655 1321370003809 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 1321370003810 FlgD Tudor-like domain; Region: FLgD_tudor; pfam13861 1321370003811 flagellar basal body rod protein FlgC; Provisional; Region: flgC; PRK12631 1321370003812 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; pfam06429 1321370003813 flagellar basal body rod protein FlgB; Reviewed; Region: flgB; PRK07182 1321370003814 flagellar basal body rod protein FlgB; Provisional; Region: flgB; PRK12625 1321370003815 Methylase of chemotaxis methyl-accepting proteins [Cell motility and secretion / Signal transduction mechanisms]; Region: CheR; COG1352 1321370003816 CheR methyltransferase, all-alpha domain; Region: CheR_N; pfam03705 1321370003817 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 1321370003818 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 1321370003819 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1321370003820 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370003821 active site 1321370003822 phosphorylation site [posttranslational modification] 1321370003823 intermolecular recognition site; other site 1321370003824 dimerization interface [polypeptide binding]; other site 1321370003825 flagellar basal body P-ring biosynthesis protein FlgA; Reviewed; Region: flgA; PRK07018 1321370003826 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 1321370003827 flagellar biosynthesis anti-sigma factor FlgM; Region: FlgM_jcvi; TIGR03824 1321370003828 FlgN protein; Region: FlgN; pfam05130 1321370003829 LPP20 lipoprotein; Region: LPP20; cl15824 1321370003830 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 1321370003831 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 1321370003832 Phosphatidylglycerophosphate synthase [Lipid metabolism]; Region: PgsA; COG0558 1321370003833 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4136 1321370003834 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1321370003835 Walker A/P-loop; other site 1321370003836 ATP binding site [chemical binding]; other site 1321370003837 Q-loop/lid; other site 1321370003838 ABC transporter signature motif; other site 1321370003839 Walker B; other site 1321370003840 D-loop; other site 1321370003841 H-loop/switch region; other site 1321370003842 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 1321370003843 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 1321370003844 dimer interface [polypeptide binding]; other site 1321370003845 conserved gate region; other site 1321370003846 putative PBP binding loops; other site 1321370003847 ABC-ATPase subunit interface; other site 1321370003848 hypothetical protein; Provisional; Region: PRK11622 1321370003849 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG4134 1321370003850 Uncharacterized conserved protein [Function unknown]; Region: COG0398 1321370003851 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1321370003852 mercuric reductase; Validated; Region: PRK06370 1321370003853 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1321370003854 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1321370003855 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1321370003856 Cytotoxic translational repressor of toxin-antitoxin stability system [Translation, ribosomal structure and biogenesis / Cell division and chromosome partitioning]; Region: RelE; COG2026 1321370003857 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 1321370003858 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1321370003859 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 1321370003860 Cupin; Region: Cupin_6; pfam12852 1321370003861 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 1321370003862 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1321370003863 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 1321370003864 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 1321370003865 Protein of unknown function, DUF547; Region: DUF547; pfam04784 1321370003866 Protein of unknown function (DUF1499); Region: DUF1499; pfam07386 1321370003867 X-Pro dipeptidyl-peptidase (S15 family); Region: Peptidase_S15; pfam02129 1321370003868 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1321370003869 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 1321370003870 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 1321370003871 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1321370003872 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1321370003873 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 1321370003874 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1321370003875 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1321370003876 active site 1321370003877 catalytic site [active] 1321370003878 substrate binding site [chemical binding]; other site 1321370003879 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1321370003880 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 1321370003881 ligand binding site [chemical binding]; other site 1321370003882 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 1321370003883 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1321370003884 metal binding triad; other site 1321370003885 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 1321370003886 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 1321370003887 Na binding site [ion binding]; other site 1321370003888 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 1321370003889 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 1321370003890 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 1321370003891 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 1321370003892 Clp amino terminal domain; Region: Clp_N; pfam02861 1321370003893 Clp amino terminal domain; Region: Clp_N; pfam02861 1321370003894 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 1321370003895 Walker A motif; other site 1321370003896 ATP binding site [chemical binding]; other site 1321370003897 Walker B motif; other site 1321370003898 arginine finger; other site 1321370003899 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 1321370003900 Walker A motif; other site 1321370003901 ATP binding site [chemical binding]; other site 1321370003902 Walker B motif; other site 1321370003903 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 1321370003904 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 1321370003905 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 1321370003906 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 1321370003907 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 1321370003908 RNA binding surface [nucleotide binding]; other site 1321370003909 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1321370003910 active site 1321370003911 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 1321370003912 Nitrogen regulatory protein P-II; Region: P-II; pfam00543 1321370003913 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1321370003914 NAD synthetase; Provisional; Region: PRK13981 1321370003915 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 1321370003916 multimer interface [polypeptide binding]; other site 1321370003917 active site 1321370003918 catalytic triad [active] 1321370003919 protein interface 1 [polypeptide binding]; other site 1321370003920 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 1321370003921 homodimer interface [polypeptide binding]; other site 1321370003922 NAD binding pocket [chemical binding]; other site 1321370003923 ATP binding pocket [chemical binding]; other site 1321370003924 Mg binding site [ion binding]; other site 1321370003925 active-site loop [active] 1321370003926 flagellar biosynthesis protein FlhB; Reviewed; Region: flhB; PRK05702 1321370003927 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 1321370003928 flagellar biosynthesis protein FliR; Reviewed; Region: fliR; PRK05701 1321370003929 flagellar biosynthesis protein FliQ; Validated; Region: fliQ; PRK05700 1321370003930 flagellar biosynthesis protein FliP; Reviewed; Region: fliP; PRK05699 1321370003931 Flagellar biosynthesis protein, FliO; Region: FliO; pfam04347 1321370003932 flagellar motor switch protein; Validated; Region: fliN; PRK08983 1321370003933 flagellar motor switch protein FliM; Validated; Region: fliM; PRK06666 1321370003934 Surface presentation of antigens (SPOA); Region: SpoA; pfam01052 1321370003935 flagellar basal body-associated protein FliL; Reviewed; Region: fliL; PRK05696 1321370003936 Flagellar hook-length control protein [Cell motility and secretion]; Region: FliK; COG3144 1321370003937 Flagellar hook-length control protein FliK; Region: Flg_hook; pfam02120 1321370003938 Flagellar FliJ protein; Region: FliJ; pfam02050 1321370003939 flagellar biosynthesis chaperone; Validated; Region: fliJ; PRK05689 1321370003940 flagellum-specific ATP synthase; Validated; Region: fliI; PRK08972 1321370003941 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 1321370003942 Walker A motif/ATP binding site; other site 1321370003943 Walker B motif; other site 1321370003944 flagellar assembly protein H; Validated; Region: fliH; PRK05687 1321370003945 Essential protein Yae1, N terminal; Region: Yae1_N; pfam09811 1321370003946 Flagellar assembly protein FliH; Region: FliH; pfam02108 1321370003947 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 1321370003948 MgtE intracellular N domain; Region: MgtE_N; cl15244 1321370003949 FliG C-terminal domain; Region: FliG_C; pfam01706 1321370003950 flagellar MS-ring protein; Reviewed; Region: fliF; PRK06007 1321370003951 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 1321370003952 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 1321370003953 flagellar hook-basal body protein FliE; Reviewed; Region: fliE; PRK00253 1321370003954 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1321370003955 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370003956 active site 1321370003957 phosphorylation site [posttranslational modification] 1321370003958 intermolecular recognition site; other site 1321370003959 dimerization interface [polypeptide binding]; other site 1321370003960 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 1321370003961 Walker A motif; other site 1321370003962 ATP binding site [chemical binding]; other site 1321370003963 Walker B motif; other site 1321370003964 arginine finger; other site 1321370003965 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1321370003966 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1321370003967 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 1321370003968 putative active site [active] 1321370003969 heme pocket [chemical binding]; other site 1321370003970 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 1321370003971 dimer interface [polypeptide binding]; other site 1321370003972 phosphorylation site [posttranslational modification] 1321370003973 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 1321370003974 ATP binding site [chemical binding]; other site 1321370003975 Mg2+ binding site [ion binding]; other site 1321370003976 G-X-G motif; other site 1321370003977 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1321370003978 Flagellar regulatory protein FleQ; Region: FleQ; pfam06490 1321370003979 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 1321370003980 Walker A motif; other site 1321370003981 ATP binding site [chemical binding]; other site 1321370003982 Walker B motif; other site 1321370003983 arginine finger; other site 1321370003984 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1321370003985 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 1321370003986 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1321370003987 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370003988 active site 1321370003989 phosphorylation site [posttranslational modification] 1321370003990 intermolecular recognition site; other site 1321370003991 dimerization interface [polypeptide binding]; other site 1321370003992 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 1321370003993 DNA binding residues [nucleotide binding] 1321370003994 dimerization interface [polypeptide binding]; other site 1321370003995 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 1321370003996 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 1321370003997 active site 1321370003998 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1321370003999 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl17736 1321370004000 active site 1321370004001 phosphorylation site [posttranslational modification] 1321370004002 intermolecular recognition site; other site 1321370004003 Response regulator containing a CheY-like receiver domain and an HD-GYP domain [Transcription / Signal transduction mechanisms]; Region: COG3437 1321370004004 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 1321370004005 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1321370004006 Zn2+ binding site [ion binding]; other site 1321370004007 Mg2+ binding site [ion binding]; other site 1321370004008 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 1321370004009 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 1321370004010 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 1321370004011 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 1321370004012 6-phosphofructokinase; Provisional; Region: PRK03202 1321370004013 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 1321370004014 active site 1321370004015 ADP/pyrophosphate binding site [chemical binding]; other site 1321370004016 dimerization interface [polypeptide binding]; other site 1321370004017 allosteric effector site; other site 1321370004018 fructose-1,6-bisphosphate binding site; other site 1321370004019 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 1321370004020 agmatinase; Region: agmatinase; TIGR01230 1321370004021 putative active site [active] 1321370004022 Mn binding site [ion binding]; other site 1321370004023 arginine decarboxylase; Provisional; Region: PRK05354 1321370004024 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 1321370004025 dimer interface [polypeptide binding]; other site 1321370004026 active site 1321370004027 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1321370004028 catalytic residues [active] 1321370004029 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 1321370004030 Transposase; Region: HTH_Tnp_1; pfam01527 1321370004031 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1321370004032 putative transposase OrfB; Reviewed; Region: PHA02517 1321370004033 HTH-like domain; Region: HTH_21; pfam13276 1321370004034 Integrase core domain; Region: rve; pfam00665 1321370004035 Integrase core domain; Region: rve_3; cl15866 1321370004036 Predicted membrane protein [Function unknown]; Region: COG1422 1321370004037 Cupredoxin-like domain; Region: Cupredoxin_1; pfam13473 1321370004038 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1321370004039 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 1321370004040 metal-binding site [ion binding] 1321370004041 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1321370004042 Soluble P-type ATPase [General function prediction only]; Region: COG4087 1321370004043 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; cl00207 1321370004044 Nitrogen regulatory protein P-II; Region: P-II; cl00412 1321370004045 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1321370004046 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1321370004047 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 1321370004048 HlyD family secretion protein; Region: HlyD_3; pfam13437 1321370004049 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 1321370004050 Outer membrane efflux protein; Region: OEP; pfam02321 1321370004051 Outer membrane efflux protein; Region: OEP; pfam02321 1321370004052 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1321370004053 NADH:ubiquinone oxidoreductase, Na(+)-translocating, F subunit; Region: nqrF; TIGR01941 1321370004054 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 1321370004055 FAD binding pocket [chemical binding]; other site 1321370004056 FAD binding motif [chemical binding]; other site 1321370004057 phosphate binding motif [ion binding]; other site 1321370004058 beta-alpha-beta structure motif; other site 1321370004059 NAD binding pocket [chemical binding]; other site 1321370004060 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1321370004061 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1321370004062 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 1321370004063 N-terminal plug; other site 1321370004064 ligand-binding site [chemical binding]; other site 1321370004065 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 1321370004066 GSH binding site [chemical binding]; other site 1321370004067 catalytic residues [active] 1321370004068 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 1321370004069 SnoaL-like domain; Region: SnoaL_3; pfam13474 1321370004070 Copper resistance protein D; Region: CopD; cl00563 1321370004071 CopC domain; Region: CopC; pfam04234 1321370004072 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 1321370004073 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 1321370004074 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 1321370004075 Multicopper oxidase; Region: Cu-oxidase; pfam00394 1321370004076 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 1321370004077 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1321370004078 Protein of unknown function, DUF; Region: DUF411; cl01142 1321370004079 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 1321370004080 Transposase; Region: DDE_Tnp_ISL3; pfam01610 1321370004081 lipoprotein signal peptidase; Provisional; Region: PRK14776 1321370004082 Heavy-metal-associated domain; Region: HMA; pfam00403 1321370004083 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1321370004084 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1321370004085 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1321370004086 DNA binding residues [nucleotide binding] 1321370004087 dimer interface [polypeptide binding]; other site 1321370004088 putative metal binding site [ion binding]; other site 1321370004089 Protein of unknown function (DUF1318); Region: DUF1318; pfam07027 1321370004090 YnbE-like lipoprotein; Region: Lipoprotein_19; pfam13617 1321370004091 Dicarboxylate transport; Region: DctA-YdbH; pfam11739 1321370004092 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 1321370004093 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1321370004094 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1321370004095 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 1321370004096 Peptidase propeptide and YPEB domain; Region: PepSY_2; pfam13670 1321370004097 Lipid A 3-O-deacylase (PagL); Region: PagL; pfam09411 1321370004098 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1321370004099 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1321370004100 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 1321370004101 dimerization interface [polypeptide binding]; other site 1321370004102 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1321370004103 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 1321370004104 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1321370004105 Peptidase family M23; Region: Peptidase_M23; pfam01551 1321370004106 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 1321370004107 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 1321370004108 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 1321370004109 Flagellar protein YcgR; Region: YcgR_2; pfam12945 1321370004110 PilZ domain; Region: PilZ; pfam07238 1321370004111 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1321370004112 Histidine kinase; Region: His_kinase; pfam06580 1321370004113 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 1321370004114 ATP binding site [chemical binding]; other site 1321370004115 Mg2+ binding site [ion binding]; other site 1321370004116 G-X-G motif; other site 1321370004117 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 1321370004118 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370004119 active site 1321370004120 phosphorylation site [posttranslational modification] 1321370004121 intermolecular recognition site; other site 1321370004122 dimerization interface [polypeptide binding]; other site 1321370004123 LytTr DNA-binding domain; Region: LytTR; smart00850 1321370004124 pyruvate kinase; Provisional; Region: PRK05826 1321370004125 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 1321370004126 domain interfaces; other site 1321370004127 active site 1321370004128 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1321370004129 SelR domain; Region: SelR; pfam01641 1321370004130 Protein of unknown function (DUF2989); Region: DUF2989; pfam11207 1321370004131 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 1321370004132 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1321370004133 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1321370004134 Predicted carboxypeptidase [Amino acid transport and metabolism]; Region: COG2866 1321370004135 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_1; cd06234 1321370004136 putative active site [active] 1321370004137 Zn binding site [ion binding]; other site 1321370004138 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1321370004139 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1321370004140 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 1321370004141 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 1321370004142 Uncharacterized protein family UPF0547; Region: UPF0547; pfam10571 1321370004143 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 1321370004144 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 1321370004145 GAF domain; Region: GAF_2; pfam13185 1321370004146 ProP expression regulator; Provisional; Region: PRK04950 1321370004147 ProQ/FINO family; Region: ProQ; pfam04352 1321370004148 carboxy-terminal protease; Provisional; Region: PRK11186 1321370004149 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 1321370004150 protein binding site [polypeptide binding]; other site 1321370004151 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 1321370004152 Catalytic dyad [active] 1321370004153 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 1321370004154 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1321370004155 Na2 binding site [ion binding]; other site 1321370004156 putative substrate binding site 1 [chemical binding]; other site 1321370004157 Na binding site 1 [ion binding]; other site 1321370004158 putative substrate binding site 2 [chemical binding]; other site 1321370004159 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 1321370004160 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 1321370004161 aminopeptidase N; Provisional; Region: pepN; PRK14015 1321370004162 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 1321370004163 active site 1321370004164 Zn binding site [ion binding]; other site 1321370004165 Protein of unknown function (DUF2835); Region: DUF2835; pfam11197 1321370004166 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 1321370004167 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 1321370004168 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 1321370004169 quinone interaction residues [chemical binding]; other site 1321370004170 active site 1321370004171 catalytic residues [active] 1321370004172 FMN binding site [chemical binding]; other site 1321370004173 substrate binding site [chemical binding]; other site 1321370004174 Protein of unknown function (DUF1379); Region: DUF1379; pfam07126 1321370004175 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 1321370004176 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 1321370004177 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 1321370004178 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1321370004179 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 1321370004180 GSH binding site [chemical binding]; other site 1321370004181 catalytic residues [active] 1321370004182 ABC transporter ATPase component; Reviewed; Region: PRK11147 1321370004183 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1321370004184 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1321370004185 ABC transporter; Region: ABC_tran_2; pfam12848 1321370004186 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1321370004187 Protein of unknown function (DUF3466); Region: DUF3466; pfam11949 1321370004188 Ribosome modulation factor; Region: RMF; pfam04957 1321370004189 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 1321370004190 active site 1 [active] 1321370004191 dimer interface [polypeptide binding]; other site 1321370004192 active site 2 [active] 1321370004193 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 1321370004194 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 1321370004195 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 1321370004196 Predicted transcriptional regulator [Transcription]; Region: COG3905 1321370004197 LysR family transcriptional regulator; Provisional; Region: PRK14997 1321370004198 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1321370004199 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 1321370004200 putative effector binding pocket; other site 1321370004201 putative dimerization interface [polypeptide binding]; other site 1321370004202 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1321370004203 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1321370004204 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1321370004205 HlyD family secretion protein; Region: HlyD_3; pfam13437 1321370004206 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1321370004207 Protein export membrane protein; Region: SecD_SecF; cl14618 1321370004208 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 1321370004209 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 1321370004210 dimerization interface [polypeptide binding]; other site 1321370004211 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1321370004212 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1321370004213 dimer interface [polypeptide binding]; other site 1321370004214 putative CheW interface [polypeptide binding]; other site 1321370004215 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 1321370004216 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 1321370004217 Low-spin heme binding site [chemical binding]; other site 1321370004218 Putative water exit pathway; other site 1321370004219 Binuclear center (active site) [active] 1321370004220 Putative proton exit pathway; other site 1321370004221 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 1321370004222 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 1321370004223 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; cl00282 1321370004224 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 1321370004225 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 1321370004226 Cytochrome c; Region: Cytochrom_C; pfam00034 1321370004227 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3198 1321370004228 FixH; Region: FixH; pfam05751 1321370004229 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 1321370004230 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 1321370004231 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 1321370004232 metal-binding site [ion binding] 1321370004233 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 1321370004234 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 1321370004235 motif II; other site 1321370004236 Family description; Region: DsbD_2; pfam13386 1321370004237 universal stress protein UspE; Provisional; Region: PRK11175 1321370004238 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 1321370004239 Ligand Binding Site [chemical binding]; other site 1321370004240 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 1321370004241 Ligand Binding Site [chemical binding]; other site 1321370004242 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 1321370004243 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 1321370004244 Ligand Binding Site [chemical binding]; other site 1321370004245 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl17361 1321370004246 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 1321370004247 pseudouridine synthase; Region: TIGR00093 1321370004248 active site 1321370004249 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 1321370004250 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 1321370004251 putative lysogenization regulator; Reviewed; Region: PRK00218 1321370004252 adenylosuccinate lyase; Provisional; Region: PRK09285 1321370004253 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 1321370004254 tetramer interface [polypeptide binding]; other site 1321370004255 active site 1321370004256 Cupin superfamily protein; Region: Cupin_4; pfam08007 1321370004257 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1321370004258 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; pfam00208 1321370004259 NAD(P) binding domain of leucine dehydrogenase, phenylalanine dehydrogenase, and valine dehydrogenase; Region: NAD_bind_Leu_Phe_Val_DH; cd01075 1321370004260 NAD binding site [chemical binding]; other site 1321370004261 Phe binding site; other site 1321370004262 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 1321370004263 FAD binding domain; Region: FAD_binding_4; pfam01565 1321370004264 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 1321370004265 phosphoenolpyruvate synthase; Validated; Region: PRK06464 1321370004266 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 1321370004267 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 1321370004268 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 1321370004269 PEP synthetase regulatory protein; Provisional; Region: PRK05339 1321370004270 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 1321370004271 Class-II DAHP synthetase family; Region: DAHP_synth_2; pfam01474 1321370004272 heat shock protein HtpX; Provisional; Region: PRK05457 1321370004273 AAA domain; Region: AAA_26; pfam13500 1321370004274 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 1321370004275 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 1321370004276 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 1321370004277 S-adenosylmethionine binding site [chemical binding]; other site 1321370004278 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 1321370004279 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 1321370004280 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1321370004281 catalytic residue [active] 1321370004282 biotin synthase; Provisional; Region: PRK15108 1321370004283 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 1321370004284 FeS/SAM binding site; other site 1321370004285 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 1321370004286 adenosylmethionine--8-amino-7-oxononanoate transaminase; Validated; Region: PRK07986 1321370004287 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 1321370004288 inhibitor-cofactor binding pocket; inhibition site 1321370004289 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370004290 catalytic residue [active] 1321370004291 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 1321370004292 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 1321370004293 putative anticodon binding site; other site 1321370004294 putative dimer interface [polypeptide binding]; other site 1321370004295 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 1321370004296 homodimer interface [polypeptide binding]; other site 1321370004297 motif 1; other site 1321370004298 motif 2; other site 1321370004299 active site 1321370004300 motif 3; other site 1321370004301 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 1321370004302 putative FMN binding site [chemical binding]; other site 1321370004303 protease 4; Provisional; Region: PRK10949 1321370004304 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 1321370004305 tandem repeat interface [polypeptide binding]; other site 1321370004306 oligomer interface [polypeptide binding]; other site 1321370004307 active site residues [active] 1321370004308 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 1321370004309 tandem repeat interface [polypeptide binding]; other site 1321370004310 oligomer interface [polypeptide binding]; other site 1321370004311 active site residues [active] 1321370004312 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 1321370004313 active site 1321370004314 homodimer interface [polypeptide binding]; other site 1321370004315 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1321370004316 Na2 binding site [ion binding]; other site 1321370004317 putative substrate binding site 1 [chemical binding]; other site 1321370004318 Na binding site 1 [ion binding]; other site 1321370004319 putative substrate binding site 2 [chemical binding]; other site 1321370004320 2-methylcitrate dehydratase; Provisional; Region: prpD; PRK09425 1321370004321 2-methylcitrate dehydratase; Region: prpD; TIGR02330 1321370004322 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1321370004323 active site 1321370004324 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 1321370004325 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1321370004326 thymidylate kinase; Validated; Region: tmk; PRK00698 1321370004327 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 1321370004328 TMP-binding site; other site 1321370004329 ATP-binding site [chemical binding]; other site 1321370004330 YceG-like family; Region: YceG; pfam02618 1321370004331 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 1321370004332 dimerization interface [polypeptide binding]; other site 1321370004333 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 1321370004334 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370004335 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 1321370004336 catalytic residue [active] 1321370004337 acyl carrier protein; Provisional; Region: acpP; PRK00982 1321370004338 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 1321370004339 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 1321370004340 NAD(P) binding site [chemical binding]; other site 1321370004341 homotetramer interface [polypeptide binding]; other site 1321370004342 homodimer interface [polypeptide binding]; other site 1321370004343 active site 1321370004344 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 1321370004345 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 1321370004346 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 1321370004347 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 1321370004348 dimer interface [polypeptide binding]; other site 1321370004349 active site 1321370004350 CoA binding pocket [chemical binding]; other site 1321370004351 putative phosphate acyltransferase; Provisional; Region: PRK05331 1321370004352 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 1321370004353 hypothetical protein; Provisional; Region: PRK11193 1321370004354 Maf-like protein; Region: Maf; pfam02545 1321370004355 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 1321370004356 active site 1321370004357 dimer interface [polypeptide binding]; other site 1321370004358 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 1321370004359 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 1321370004360 motif II; other site 1321370004361 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 1321370004362 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 1321370004363 RNA binding surface [nucleotide binding]; other site 1321370004364 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1321370004365 active site 1321370004366 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 1321370004367 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 1321370004368 homodimer interface [polypeptide binding]; other site 1321370004369 oligonucleotide binding site [chemical binding]; other site 1321370004370 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 1321370004371 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 1321370004372 active site 1321370004373 dimer interface [polypeptide binding]; other site 1321370004374 tetratricopeptide repeat protein; Provisional; Region: PRK11788 1321370004375 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 1321370004376 TPR motif; other site 1321370004377 binding surface 1321370004378 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 1321370004379 binding surface 1321370004380 TPR motif; other site 1321370004381 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 1321370004382 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 1321370004383 IHF dimer interface [polypeptide binding]; other site 1321370004384 IHF - DNA interface [nucleotide binding]; other site 1321370004385 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 1321370004386 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 1321370004387 RNA binding site [nucleotide binding]; other site 1321370004388 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 1321370004389 RNA binding site [nucleotide binding]; other site 1321370004390 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 1321370004391 RNA binding site [nucleotide binding]; other site 1321370004392 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec4; cd05689 1321370004393 RNA binding site [nucleotide binding]; other site 1321370004394 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 1321370004395 RNA binding site [nucleotide binding]; other site 1321370004396 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 1321370004397 RNA binding site [nucleotide binding]; other site 1321370004398 cytidylate kinase; Provisional; Region: cmk; PRK00023 1321370004399 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 1321370004400 CMP-binding site; other site 1321370004401 The sites determining sugar specificity; other site 1321370004402 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 1321370004403 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 1321370004404 hinge; other site 1321370004405 active site 1321370004406 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 1321370004407 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 1321370004408 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370004409 homodimer interface [polypeptide binding]; other site 1321370004410 catalytic residue [active] 1321370004411 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 1321370004412 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 1321370004413 homodimer interface [polypeptide binding]; other site 1321370004414 substrate-cofactor binding pocket; other site 1321370004415 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370004416 catalytic residue [active] 1321370004417 DNA gyrase subunit A; Validated; Region: PRK05560 1321370004418 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 1321370004419 CAP-like domain; other site 1321370004420 active site 1321370004421 primary dimer interface [polypeptide binding]; other site 1321370004422 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1321370004423 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1321370004424 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1321370004425 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1321370004426 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1321370004427 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 1321370004428 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 1321370004429 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 1321370004430 S-adenosylmethionine binding site [chemical binding]; other site 1321370004431 phosphoglycolate phosphatase; Provisional; Region: PRK13222 1321370004432 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 1321370004433 motif II; other site 1321370004434 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09103 1321370004435 ATP cone domain; Region: ATP-cone; pfam03477 1321370004436 Class I ribonucleotide reductase; Region: RNR_I; cd01679 1321370004437 active site 1321370004438 dimer interface [polypeptide binding]; other site 1321370004439 catalytic residues [active] 1321370004440 effector binding site; other site 1321370004441 R2 peptide binding site; other site 1321370004442 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 1321370004443 dimer interface [polypeptide binding]; other site 1321370004444 putative radical transfer pathway; other site 1321370004445 diiron center [ion binding]; other site 1321370004446 tyrosyl radical; other site 1321370004447 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 1321370004448 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 1321370004449 catalytic loop [active] 1321370004450 iron binding site [ion binding]; other site 1321370004451 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 1321370004452 GSH binding site [chemical binding]; other site 1321370004453 catalytic residues [active] 1321370004454 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 1321370004455 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 1321370004456 ATP binding site [chemical binding]; other site 1321370004457 putative Mg++ binding site [ion binding]; other site 1321370004458 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 1321370004459 nucleotide binding region [chemical binding]; other site 1321370004460 Helicase associated domain (HA2); Region: HA2; pfam04408 1321370004461 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 1321370004462 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 1321370004463 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 1321370004464 catalytic nucleophile [active] 1321370004465 exonuclease I; Provisional; Region: sbcB; PRK11779 1321370004466 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 1321370004467 active site 1321370004468 catalytic site [active] 1321370004469 substrate binding site [chemical binding]; other site 1321370004470 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 1321370004471 choline dehydrogenase; Region: betA; TIGR01810 1321370004472 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 1321370004473 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 1321370004474 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 1321370004475 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 1321370004476 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 1321370004477 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 1321370004478 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 1321370004479 S-adenosylmethionine binding site [chemical binding]; other site 1321370004480 Uncharacterized conserved protein [Function unknown]; Region: COG0327 1321370004481 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 1321370004482 Protein of unknown function (DUF3833); Region: DUF3833; pfam12915 1321370004483 Protein of unknown function (DUF2878); Region: DUF2878; pfam11086 1321370004484 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 1321370004485 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 1321370004486 S-adenosylmethionine binding site [chemical binding]; other site 1321370004487 UAF complex subunit Rrn10; Region: UAF_Rrn10; pfam05234 1321370004488 Protein of unknown function (DUF1365); Region: DUF1365; pfam07103 1321370004489 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 1321370004490 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1321370004491 short chain dehydrogenase; Provisional; Region: PRK06101 1321370004492 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1321370004493 NAD(P) binding site [chemical binding]; other site 1321370004494 active site 1321370004495 SnoaL-like domain; Region: SnoaL_2; pfam12680 1321370004496 deoxyribodipyrimidine photolyase; Provisional; Region: PRK10674 1321370004497 DNA photolyase; Region: DNA_photolyase; pfam00875 1321370004498 Protein of unknown function (DUF523); Region: DUF523; pfam04463 1321370004499 Uncharacterized conserved protein [Function unknown]; Region: COG3272 1321370004500 Protein of unknown function (DUF1722); Region: DUF1722; pfam08349 1321370004501 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 1321370004502 HrpJ-like domain; Region: HrpJ; cl15454 1321370004503 RNA polymerase sigma factor; Provisional; Region: PRK11924 1321370004504 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1321370004505 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 1321370004506 DNA binding residues [nucleotide binding] 1321370004507 anti-sigma factor, putative, ChrR family; Region: anti_sig_ChrR; TIGR02451 1321370004508 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 1321370004509 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 1321370004510 IHF dimer interface [polypeptide binding]; other site 1321370004511 IHF - DNA interface [nucleotide binding]; other site 1321370004512 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 1321370004513 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 1321370004514 putative tRNA-binding site [nucleotide binding]; other site 1321370004515 B3/4 domain; Region: B3_4; pfam03483 1321370004516 tRNA synthetase B5 domain; Region: B5; smart00874 1321370004517 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 1321370004518 dimer interface [polypeptide binding]; other site 1321370004519 motif 1; other site 1321370004520 motif 3; other site 1321370004521 motif 2; other site 1321370004522 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 1321370004523 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 1321370004524 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 1321370004525 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 1321370004526 dimer interface [polypeptide binding]; other site 1321370004527 motif 1; other site 1321370004528 active site 1321370004529 motif 2; other site 1321370004530 motif 3; other site 1321370004531 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 1321370004532 23S rRNA binding site [nucleotide binding]; other site 1321370004533 L21 binding site [polypeptide binding]; other site 1321370004534 L13 binding site [polypeptide binding]; other site 1321370004535 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 1321370004536 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 1321370004537 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 1321370004538 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 1321370004539 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 1321370004540 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; pfam07973 1321370004541 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 1321370004542 active site 1321370004543 dimer interface [polypeptide binding]; other site 1321370004544 motif 1; other site 1321370004545 motif 2; other site 1321370004546 motif 3; other site 1321370004547 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 1321370004548 anticodon binding site; other site 1321370004549 EamA-like transporter family; Region: EamA; pfam00892 1321370004550 Cysteine-rich CPXCG; Region: Cys_rich_CPXG; pfam14255 1321370004551 riboflavin synthase subunit alpha; Provisional; Region: PRK13020 1321370004552 Lumazine binding domain; Region: Lum_binding; pfam00677 1321370004553 Lumazine binding domain; Region: Lum_binding; pfam00677 1321370004554 Protein of unknown function (DUF3080); Region: DUF3080; pfam11279 1321370004555 Uncharacterized protein conserved in bacteria (DUF2320); Region: DUF2320; pfam10082 1321370004556 Putative cyclase; Region: Cyclase; pfam04199 1321370004557 succinic semialdehyde dehydrogenase; Region: PLN02278 1321370004558 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1321370004559 tetramerization interface [polypeptide binding]; other site 1321370004560 NAD(P) binding site [chemical binding]; other site 1321370004561 catalytic residues [active] 1321370004562 PAS domain S-box; Region: sensory_box; TIGR00229 1321370004563 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 1321370004564 putative active site [active] 1321370004565 heme pocket [chemical binding]; other site 1321370004566 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1321370004567 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 1321370004568 Walker A motif; other site 1321370004569 ATP binding site [chemical binding]; other site 1321370004570 Walker B motif; other site 1321370004571 arginine finger; other site 1321370004572 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 1321370004573 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 1321370004574 active site 1321370004575 NAD binding site [chemical binding]; other site 1321370004576 metal binding site [ion binding]; metal-binding site 1321370004577 Gram-negative porin; Region: Porin_4; pfam13609 1321370004578 EamA-like transporter family; Region: EamA; cl17759 1321370004579 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1321370004580 EamA-like transporter family; Region: EamA; pfam00892 1321370004581 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 1321370004582 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 1321370004583 ATP binding site [chemical binding]; other site 1321370004584 Mg++ binding site [ion binding]; other site 1321370004585 motif III; other site 1321370004586 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 1321370004587 nucleotide binding region [chemical binding]; other site 1321370004588 ATP-binding site [chemical binding]; other site 1321370004589 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 1321370004590 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 1321370004591 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 1321370004592 dimer interface [polypeptide binding]; other site 1321370004593 active site 1321370004594 heme binding site [chemical binding]; other site 1321370004595 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 1321370004596 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 1321370004597 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 1321370004598 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 1321370004599 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1321370004600 Peptidase M14-like domain of ATP/GTP binding proteins and cytosolic carboxypeptidases; uncharacterized bacterial subgroup; Region: M14_Nna1_like_3; cd06237 1321370004601 putative active site [active] 1321370004602 Zn binding site [ion binding]; other site 1321370004603 sulfation-dependent quorum factor, Ax21 family; Region: Y_sulf_Ax21; TIGR04273 1321370004604 BCCT family transporter; Region: BCCT; pfam02028 1321370004605 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 1321370004606 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 1321370004607 ligand binding site [chemical binding]; other site 1321370004608 flexible hinge region; other site 1321370004609 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 1321370004610 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1321370004611 metal binding triad; other site 1321370004612 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1321370004613 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 1321370004614 active site 1321370004615 catalytic site [active] 1321370004616 substrate binding site [chemical binding]; other site 1321370004617 Nitrate and nitrite sensing; Region: NIT; pfam08376 1321370004618 HAMP domain; Region: HAMP; pfam00672 1321370004619 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1321370004620 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1321370004621 dimer interface [polypeptide binding]; other site 1321370004622 putative CheW interface [polypeptide binding]; other site 1321370004623 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 1321370004624 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 1321370004625 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1321370004626 substrate binding site [chemical binding]; other site 1321370004627 ligand binding site [chemical binding]; other site 1321370004628 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 1321370004629 substrate binding site [chemical binding]; other site 1321370004630 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1321370004631 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 1321370004632 dimer interface [polypeptide binding]; other site 1321370004633 active site 1321370004634 citrylCoA binding site [chemical binding]; other site 1321370004635 oxalacetate/citrate binding site [chemical binding]; other site 1321370004636 coenzyme A binding site [chemical binding]; other site 1321370004637 catalytic triad [active] 1321370004638 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 1321370004639 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 1321370004640 tetramer interface [polypeptide binding]; other site 1321370004641 active site 1321370004642 Mg2+/Mn2+ binding site [ion binding]; other site 1321370004643 Transcriptional regulators [Transcription]; Region: GntR; COG1802 1321370004644 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1321370004645 DNA-binding site [nucleotide binding]; DNA binding site 1321370004646 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 1321370004647 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 1321370004648 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 1321370004649 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 1321370004650 putative substrate translocation pore; other site 1321370004651 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 1321370004652 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 1321370004653 active site 1321370004654 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 1321370004655 CoenzymeA binding site [chemical binding]; other site 1321370004656 subunit interaction site [polypeptide binding]; other site 1321370004657 PHB binding site; other site 1321370004658 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 1321370004659 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 1321370004660 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1321370004661 dimer interface [polypeptide binding]; other site 1321370004662 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1321370004663 active site 1321370004664 metal binding site [ion binding]; metal-binding site 1321370004665 glutathione binding site [chemical binding]; other site 1321370004666 Protein of unknown function DUF45; Region: DUF45; pfam01863 1321370004667 Ion transport protein; Region: Ion_trans; pfam00520 1321370004668 Bacitracin resistance protein BacA; Region: BacA; pfam02673 1321370004669 aspartate kinase III; Validated; Region: PRK09084 1321370004670 AAK_AKiii-LysC-EC: Amino Acid Kinase Superfamily (AAK), AKiii-LysC-EC: this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKIII. AKIII is a monofunctional class enzyme (LysC) found in some...; Region: AAK_AKiii-LysC-EC; cd04258 1321370004671 nucleotide binding site [chemical binding]; other site 1321370004672 putative catalytic residues [active] 1321370004673 aspartate binding site [chemical binding]; other site 1321370004674 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 1321370004675 ACT domains located C-terminal to the catalytic domain of the lysine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-LysC-EC_2; cd04917 1321370004676 dimer interface [polypeptide binding]; other site 1321370004677 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 1321370004678 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 1321370004679 putative NAD(P) binding site [chemical binding]; other site 1321370004680 putative substrate binding site [chemical binding]; other site 1321370004681 catalytic Zn binding site [ion binding]; other site 1321370004682 structural Zn binding site [ion binding]; other site 1321370004683 dimer interface [polypeptide binding]; other site 1321370004684 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 1321370004685 Y_Y_Y domain; Region: Y_Y_Y; pfam07495 1321370004686 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370004687 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370004688 metal binding site [ion binding]; metal-binding site 1321370004689 active site 1321370004690 I-site; other site 1321370004691 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 1321370004692 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1321370004693 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 1321370004694 PLD-like domain; Region: PLDc_2; pfam13091 1321370004695 putative active site [active] 1321370004696 catalytic site [active] 1321370004697 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 1321370004698 PLD-like domain; Region: PLDc_2; pfam13091 1321370004699 putative active site [active] 1321370004700 catalytic site [active] 1321370004701 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 1321370004702 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 1321370004703 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 1321370004704 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 1321370004705 Walker A motif; other site 1321370004706 ATP binding site [chemical binding]; other site 1321370004707 Walker B motif; other site 1321370004708 arginine finger; other site 1321370004709 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 1321370004710 PAS domain; Region: PAS_9; pfam13426 1321370004711 putative active site [active] 1321370004712 heme pocket [chemical binding]; other site 1321370004713 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 1321370004714 putative active site [active] 1321370004715 PAS fold; Region: PAS_3; pfam08447 1321370004716 heme pocket [chemical binding]; other site 1321370004717 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1321370004718 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 1321370004719 dimer interface [polypeptide binding]; other site 1321370004720 phosphorylation site [posttranslational modification] 1321370004721 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 1321370004722 ATP binding site [chemical binding]; other site 1321370004723 Mg2+ binding site [ion binding]; other site 1321370004724 G-X-G motif; other site 1321370004725 Response regulator receiver domain; Region: Response_reg; pfam00072 1321370004726 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370004727 active site 1321370004728 phosphorylation site [posttranslational modification] 1321370004729 intermolecular recognition site; other site 1321370004730 dimerization interface [polypeptide binding]; other site 1321370004731 Protein of unknown function (DUF3392); Region: DUF3392; pfam11872 1321370004732 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 1321370004733 putative catalytic site [active] 1321370004734 putative phosphate binding site [ion binding]; other site 1321370004735 active site 1321370004736 metal binding site A [ion binding]; metal-binding site 1321370004737 DNA binding site [nucleotide binding] 1321370004738 putative AP binding site [nucleotide binding]; other site 1321370004739 putative metal binding site B [ion binding]; other site 1321370004740 Protein of unknown function, DUF412; Region: DUF412; cl01183 1321370004741 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 1321370004742 HPr interaction site; other site 1321370004743 glycerol kinase (GK) interaction site [polypeptide binding]; other site 1321370004744 active site 1321370004745 phosphorylation site [posttranslational modification] 1321370004746 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 1321370004747 ArsC family; Region: ArsC; pfam03960 1321370004748 putative catalytic residues [active] 1321370004749 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 1321370004750 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 1321370004751 metal binding site [ion binding]; metal-binding site 1321370004752 dimer interface [polypeptide binding]; other site 1321370004753 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 1321370004754 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 1321370004755 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 1321370004756 ATP binding site [chemical binding]; other site 1321370004757 active site 1321370004758 substrate binding site [chemical binding]; other site 1321370004759 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 1321370004760 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 1321370004761 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 1321370004762 dihydrodipicolinate synthase; Region: dapA; TIGR00674 1321370004763 dimer interface [polypeptide binding]; other site 1321370004764 active site 1321370004765 catalytic residue [active] 1321370004766 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 1321370004767 catalytic triad [active] 1321370004768 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1321370004769 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1321370004770 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 1321370004771 Peptidase family M48; Region: Peptidase_M48; pfam01435 1321370004772 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 1321370004773 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1321370004774 catalytic residues [active] 1321370004775 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 1321370004776 ArsC family; Region: ArsC; pfam03960 1321370004777 catalytic residues [active] 1321370004778 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1321370004779 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1321370004780 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 1321370004781 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 1321370004782 DnaA regulatory inactivator Hda; Region: DnaA_homol_Hda; TIGR03420 1321370004783 Walker A motif; other site 1321370004784 ATP binding site [chemical binding]; other site 1321370004785 Walker B motif; other site 1321370004786 arginine finger; other site 1321370004787 Uncharacterized protein conserved in bacteria (DUF2066); Region: DUF2066; pfam09839 1321370004788 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 1321370004789 putative substrate translocation pore; other site 1321370004790 phosphoglucomutase; Validated; Region: PRK07564 1321370004791 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 1321370004792 active site 1321370004793 substrate binding site [chemical binding]; other site 1321370004794 metal binding site [ion binding]; metal-binding site 1321370004795 SeqA protein; Region: SeqA; pfam03925 1321370004796 acyl-CoA esterase; Provisional; Region: PRK10673 1321370004797 PGAP1-like protein; Region: PGAP1; pfam07819 1321370004798 Protein of unknown function (DUF2788); Region: DUF2788; pfam10981 1321370004799 flavodoxin FldA; Validated; Region: PRK09267 1321370004800 ferric uptake regulator; Provisional; Region: fur; PRK09462 1321370004801 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1321370004802 metal binding site 2 [ion binding]; metal-binding site 1321370004803 putative DNA binding helix; other site 1321370004804 metal binding site 1 [ion binding]; metal-binding site 1321370004805 dimer interface [polypeptide binding]; other site 1321370004806 structural Zn2+ binding site [ion binding]; other site 1321370004807 Uncharacterized conserved protein [Function unknown]; Region: COG3268 1321370004808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1321370004809 NAD(P) binding site [chemical binding]; other site 1321370004810 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 1321370004811 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1321370004812 active site 1321370004813 HIGH motif; other site 1321370004814 nucleotide binding site [chemical binding]; other site 1321370004815 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 1321370004816 KMSKS motif; other site 1321370004817 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 1321370004818 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 1321370004819 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 1321370004820 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 1321370004821 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 1321370004822 putative active site [active] 1321370004823 short chain dehydrogenase; Provisional; Region: PRK08251 1321370004824 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1321370004825 NAD(P) binding site [chemical binding]; other site 1321370004826 active site 1321370004827 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 1321370004828 Phosphotransferase enzyme family; Region: APH; pfam01636 1321370004829 putative active site [active] 1321370004830 putative substrate binding site [chemical binding]; other site 1321370004831 ATP binding site [chemical binding]; other site 1321370004832 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 1321370004833 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1321370004834 active site 1321370004835 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 1321370004836 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 1321370004837 putative Mg++ binding site [ion binding]; other site 1321370004838 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 1321370004839 nucleotide binding region [chemical binding]; other site 1321370004840 ATP-binding site [chemical binding]; other site 1321370004841 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 1321370004842 PAS domain S-box; Region: sensory_box; TIGR00229 1321370004843 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 1321370004844 putative active site [active] 1321370004845 heme pocket [chemical binding]; other site 1321370004846 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370004847 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370004848 metal binding site [ion binding]; metal-binding site 1321370004849 active site 1321370004850 I-site; other site 1321370004851 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 1321370004852 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1321370004853 Golgi phosphoprotein 3 (GPP34); Region: GPP34; pfam05719 1321370004854 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1321370004855 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1321370004856 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1321370004857 DPS ferroxidase diiron center [ion binding]; other site 1321370004858 ion pore; other site 1321370004859 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 1321370004860 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1321370004861 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1321370004862 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 1321370004863 CoA binding domain; Region: CoA_binding; pfam02629 1321370004864 CoA-ligase; Region: Ligase_CoA; pfam00549 1321370004865 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 1321370004866 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 1321370004867 CoA-ligase; Region: Ligase_CoA; pfam00549 1321370004868 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 1321370004869 E3 interaction surface; other site 1321370004870 lipoyl attachment site [posttranslational modification]; other site 1321370004871 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 1321370004872 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 1321370004873 E3 interaction surface; other site 1321370004874 lipoyl attachment site [posttranslational modification]; other site 1321370004875 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1321370004876 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 1321370004877 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 1321370004878 TPP-binding site [chemical binding]; other site 1321370004879 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 1321370004880 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 1321370004881 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 1321370004882 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08958 1321370004883 L-aspartate oxidase; Provisional; Region: PRK06175 1321370004884 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 1321370004885 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 1321370004886 SdhC subunit interface [polypeptide binding]; other site 1321370004887 proximal heme binding site [chemical binding]; other site 1321370004888 cardiolipin binding site; other site 1321370004889 Iron-sulfur protein interface; other site 1321370004890 proximal quinone binding site [chemical binding]; other site 1321370004891 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 1321370004892 Iron-sulfur protein interface; other site 1321370004893 proximal quinone binding site [chemical binding]; other site 1321370004894 SdhD (CybS) interface [polypeptide binding]; other site 1321370004895 proximal heme binding site [chemical binding]; other site 1321370004896 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 1321370004897 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 1321370004898 dimer interface [polypeptide binding]; other site 1321370004899 active site 1321370004900 citrylCoA binding site [chemical binding]; other site 1321370004901 NADH binding [chemical binding]; other site 1321370004902 cationic pore residues; other site 1321370004903 oxalacetate/citrate binding site [chemical binding]; other site 1321370004904 coenzyme A binding site [chemical binding]; other site 1321370004905 catalytic triad [active] 1321370004906 Radical SAM superfamily. Enzymes of this family generate radicals by combining a 4Fe-4S cluster and S-adenosylmethionine (SAM) in close proximity. They are characterized by a conserved CxxxCxxC motif, which coordinates the conserved iron-sulfur cluster; Region: Radical_SAM; cl15377 1321370004907 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1321370004908 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 1321370004909 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 1321370004910 Ligand binding site; other site 1321370004911 oligomer interface; other site 1321370004912 Uncharacterized conserved protein [Function unknown]; Region: COG2835 1321370004913 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 1321370004914 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 1321370004915 lipid transporter ATP-binding/permease protein; Provisional; Region: PRK11176 1321370004916 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1321370004917 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1321370004918 Walker A/P-loop; other site 1321370004919 ATP binding site [chemical binding]; other site 1321370004920 Q-loop/lid; other site 1321370004921 ABC transporter signature motif; other site 1321370004922 Walker B; other site 1321370004923 D-loop; other site 1321370004924 H-loop/switch region; other site 1321370004925 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 1321370004926 DNA internalization-related competence protein ComEC/Rec2; Region: ComEC_Rec2; TIGR00361 1321370004927 Competence protein; Region: Competence; pfam03772 1321370004928 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 1321370004929 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 1321370004930 outer membrane-specific lipoprotein transporter subunit LolE; Provisional; Region: PRK11146 1321370004931 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1321370004932 FtsX-like permease family; Region: FtsX; pfam02687 1321370004933 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 1321370004934 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1321370004935 Walker A/P-loop; other site 1321370004936 ATP binding site [chemical binding]; other site 1321370004937 Q-loop/lid; other site 1321370004938 ABC transporter signature motif; other site 1321370004939 Walker B; other site 1321370004940 D-loop; other site 1321370004941 H-loop/switch region; other site 1321370004942 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 1321370004943 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1321370004944 FtsX-like permease family; Region: FtsX; pfam02687 1321370004945 PilZ domain; Region: PilZ; pfam07238 1321370004946 transcription-repair coupling factor; Provisional; Region: PRK10689 1321370004947 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 1321370004948 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 1321370004949 ATP binding site [chemical binding]; other site 1321370004950 putative Mg++ binding site [ion binding]; other site 1321370004951 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 1321370004952 nucleotide binding region [chemical binding]; other site 1321370004953 ATP-binding site [chemical binding]; other site 1321370004954 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 1321370004955 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1321370004956 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1321370004957 Protein of unknown function (DUF2803); Region: DUF2803; pfam10972 1321370004958 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 1321370004959 MarR family; Region: MarR; pfam01047 1321370004960 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 1321370004961 generic binding surface II; other site 1321370004962 generic binding surface I; other site 1321370004963 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 1321370004964 putative active site [active] 1321370004965 putative catalytic site [active] 1321370004966 putative Mg binding site IVb [ion binding]; other site 1321370004967 putative DNA binding site [nucleotide binding]; other site 1321370004968 putative phosphate binding site [ion binding]; other site 1321370004969 putative Mg binding site IVa [ion binding]; other site 1321370004970 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1321370004971 methionine sulfoxide reductase B; Provisional; Region: PRK00222 1321370004972 SelR domain; Region: SelR; pfam01641 1321370004973 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 1321370004974 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 1321370004975 active site 1321370004976 dimer interface [polypeptide binding]; other site 1321370004977 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 1321370004978 Ligand Binding Site [chemical binding]; other site 1321370004979 Molecular Tunnel; other site 1321370004980 Aspartate carbamoyltransferase, catalytic chain [Nucleotide transport and metabolism]; Region: PyrB; COG0540 1321370004981 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1321370004982 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1321370004983 Na(+)/urea-polyamine cotransporter DUR3, and related proteins; solute-binding domain; Region: SLC5sbd_DUR3; cd11476 1321370004984 Na binding site [ion binding]; other site 1321370004985 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; cl00233 1321370004986 catalytic center binding site [active] 1321370004987 ATP binding site [chemical binding]; other site 1321370004988 dihydromonapterin reductase; Provisional; Region: PRK06483 1321370004989 pteridine reductase (PR), classical (c) SDRs; Region: PR_SDR_c; cd05357 1321370004990 NADP binding site [chemical binding]; other site 1321370004991 substrate binding pocket [chemical binding]; other site 1321370004992 active site 1321370004993 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 1321370004994 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1321370004995 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1321370004996 aconitate hydratase; Validated; Region: PRK09277 1321370004997 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 1321370004998 substrate binding site [chemical binding]; other site 1321370004999 ligand binding site [chemical binding]; other site 1321370005000 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 1321370005001 substrate binding site [chemical binding]; other site 1321370005002 acyl-CoA thioesterase II; Provisional; Region: PRK10526 1321370005003 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 1321370005004 active site 1321370005005 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 1321370005006 catalytic triad [active] 1321370005007 dimer interface [polypeptide binding]; other site 1321370005008 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 1321370005009 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 1321370005010 Nucleoside recognition; Region: Gate; pfam07670 1321370005011 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 1321370005012 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 1321370005013 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 1321370005014 ATP-binding site [chemical binding]; other site 1321370005015 Sugar specificity; other site 1321370005016 Pyrimidine base specificity; other site 1321370005017 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1321370005018 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1321370005019 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1321370005020 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 1321370005021 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1321370005022 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1321370005023 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; cl17304 1321370005024 PAS domain; Region: PAS_9; pfam13426 1321370005025 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370005026 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370005027 metal binding site [ion binding]; metal-binding site 1321370005028 active site 1321370005029 I-site; other site 1321370005030 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 1321370005031 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1321370005032 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 1321370005033 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1321370005034 Beta-Casp domain; Region: Beta-Casp; smart01027 1321370005035 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 1321370005036 isovaleryl CoA dehydrogenase; Provisional; Region: PRK11561 1321370005037 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1321370005038 active site 1321370005039 Protein of unknown function (DUF2937); Region: DUF2937; pfam11157 1321370005040 PAS domain S-box; Region: sensory_box; TIGR00229 1321370005041 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 1321370005042 putative active site [active] 1321370005043 heme pocket [chemical binding]; other site 1321370005044 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370005045 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370005046 metal binding site [ion binding]; metal-binding site 1321370005047 active site 1321370005048 I-site; other site 1321370005049 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 1321370005050 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 1321370005051 ATP binding site [chemical binding]; other site 1321370005052 Mg++ binding site [ion binding]; other site 1321370005053 motif III; other site 1321370005054 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 1321370005055 nucleotide binding region [chemical binding]; other site 1321370005056 ATP-binding site [chemical binding]; other site 1321370005057 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_4; cd06231 1321370005058 putative active site [active] 1321370005059 Zn binding site [ion binding]; other site 1321370005060 YebG protein; Region: YebG; pfam07130 1321370005061 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1321370005062 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 1321370005063 putative substrate translocation pore; other site 1321370005064 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 1321370005065 hypothetical protein; Provisional; Region: PRK09256 1321370005066 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 1321370005067 Beta-lactamase; Region: Beta-lactamase; pfam00144 1321370005068 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1321370005069 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 1321370005070 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 1321370005071 homodimer interface [polypeptide binding]; other site 1321370005072 substrate-cofactor binding pocket; other site 1321370005073 catalytic residue [active] 1321370005074 Antibiotic biosynthesis monooxygenase; Region: ABM; pfam03992 1321370005075 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 1321370005076 BON domain; Region: BON; pfam04972 1321370005077 Bacterial PH domain; Region: DUF304; pfam03703 1321370005078 Predicted membrane protein [Function unknown]; Region: COG3428 1321370005079 Bacterial PH domain; Region: DUF304; pfam03703 1321370005080 Bacterial PH domain; Region: DUF304; pfam03703 1321370005081 Bacterial PH domain; Region: DUF304; pfam03703 1321370005082 Protein of unknown function (DUF938); Region: DUF938; pfam06080 1321370005083 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1321370005084 Glycine zipper; Region: Gly-zipper_Omp; cl17724 1321370005085 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1321370005086 ligand binding site [chemical binding]; other site 1321370005087 NAD-dependent deacetylase; Provisional; Region: PRK05333 1321370005088 SIRT4: Eukaryotic and prokaryotic group (class2) which includes human sirtuin SIRT4 and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein...; Region: SIRT4; cd01409 1321370005089 NAD+ binding site [chemical binding]; other site 1321370005090 substrate binding site [chemical binding]; other site 1321370005091 Zn binding site [ion binding]; other site 1321370005092 LemA family; Region: LemA; cl00742 1321370005093 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_4; cd12162 1321370005094 glycerate dehydrogenase; Provisional; Region: PRK06487 1321370005095 putative ligand binding site [chemical binding]; other site 1321370005096 putative NAD binding site [chemical binding]; other site 1321370005097 catalytic site [active] 1321370005098 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 1321370005099 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2849 1321370005100 benzoate transporter; Region: benE; TIGR00843 1321370005101 Protein of unknown function (DUF817); Region: DUF817; pfam05675 1321370005102 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 1321370005103 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 1321370005104 motif II; other site 1321370005105 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1321370005106 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 1321370005107 N-terminal plug; other site 1321370005108 ligand-binding site [chemical binding]; other site 1321370005109 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 1321370005110 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1321370005111 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1321370005112 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1321370005113 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1321370005114 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 1321370005115 N-terminal plug; other site 1321370005116 ligand-binding site [chemical binding]; other site 1321370005117 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 1321370005118 catalytic core [active] 1321370005119 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 1321370005120 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 1321370005121 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 1321370005122 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1321370005123 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 1321370005124 Domain of unknown function (DUF947); Region: DUF947; pfam06102 1321370005125 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1321370005126 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 1321370005127 active site 1321370005128 metal binding site [ion binding]; metal-binding site 1321370005129 Secretin and TonB N terminus short domain; Region: STN; smart00965 1321370005130 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1321370005131 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 1321370005132 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 1321370005133 ligand-binding site [chemical binding]; other site 1321370005134 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 1321370005135 FecR protein; Region: FecR; pfam04773 1321370005136 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1321370005137 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1321370005138 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 1321370005139 DNA binding residues [nucleotide binding] 1321370005140 PHP domain; Region: PHP; pfam02811 1321370005141 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 1321370005142 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 1321370005143 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 1321370005144 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1321370005145 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR7; cd08276 1321370005146 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 1321370005147 putative NAD(P) binding site [chemical binding]; other site 1321370005148 myosin-cross-reactive antigen; Provisional; Region: PRK13977 1321370005149 YjgH belongs 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 similarity and no...; Region: YjgH_like; cd02198 1321370005150 homotrimer interaction site [polypeptide binding]; other site 1321370005151 putative active site [active] 1321370005152 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1321370005153 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1321370005154 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1321370005155 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 1321370005156 S-adenosylmethionine binding site [chemical binding]; other site 1321370005157 Transcriptional regulator; Region: Rrf2; pfam02082 1321370005158 Rrf2 family protein; Region: rrf2_super; TIGR00738 1321370005159 Transcriptional regulator; Region: Rrf2; cl17282 1321370005160 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1321370005161 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1321370005162 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 1321370005163 CGNR zinc finger; Region: zf-CGNR; pfam11706 1321370005164 MFS transport protein AraJ; Provisional; Region: PRK10091 1321370005165 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 1321370005166 putative substrate translocation pore; other site 1321370005167 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 1321370005168 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1321370005169 NAD(P) binding site [chemical binding]; other site 1321370005170 active site 1321370005171 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1321370005172 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1321370005173 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 1321370005174 dimerization interface [polypeptide binding]; other site 1321370005175 substrate binding pocket [chemical binding]; other site 1321370005176 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1321370005177 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1321370005178 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1321370005179 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1321370005180 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 1321370005181 dimerization interface [polypeptide binding]; other site 1321370005182 Part of AAA domain; Region: AAA_19; pfam13245 1321370005183 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 1321370005184 AAA domain; Region: AAA_12; pfam13087 1321370005185 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 1321370005186 Transposase; Region: HTH_Tnp_1; pfam01527 1321370005187 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1321370005188 putative transposase OrfB; Reviewed; Region: PHA02517 1321370005189 HTH-like domain; Region: HTH_21; pfam13276 1321370005190 Integrase core domain; Region: rve; pfam00665 1321370005191 Integrase core domain; Region: rve_3; cl15866 1321370005192 Macro domain, Poa1p_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Poa1p_like; cd02901 1321370005193 ADP-ribose binding site [chemical binding]; other site 1321370005194 HsdM N-terminal domain; Region: HsdM_N; pfam12161 1321370005195 SEC-C motif; Region: SEC-C; pfam02810 1321370005196 Protein of unknown function (DUF3037); Region: DUF3037; pfam11236 1321370005197 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 1321370005198 putative active site [active] 1321370005199 metal binding site [ion binding]; metal-binding site 1321370005200 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 1321370005201 AAA domain; Region: AAA_13; pfam13166 1321370005202 potential frameshift: common BLAST hit: gi|24372299|ref|NP_716341.1| ISSod18 transposase TnpA_ISSod18 1321370005203 Transposase; Region: HTH_Tnp_1; pfam01527 1321370005204 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 1321370005205 Integrase core domain; Region: rve; pfam00665 1321370005206 Integrase core domain; Region: rve_2; pfam13333 1321370005207 LytTr DNA-binding domain; Region: LytTR; smart00850 1321370005208 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 1321370005209 active site 1321370005210 DNA binding site [nucleotide binding] 1321370005211 Int/Topo IB signature motif; other site 1321370005212 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 1321370005213 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 1321370005214 HlyD family secretion protein; Region: HlyD_3; pfam13437 1321370005215 Outer membrane efflux protein; Region: OEP; pfam02321 1321370005216 Outer membrane efflux protein; Region: OEP; pfam02321 1321370005217 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 1321370005218 lipoprotein signal peptidase; Provisional; Region: PRK14787 1321370005219 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1321370005220 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 1321370005221 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 1321370005222 DNA binding residues [nucleotide binding] 1321370005223 dimer interface [polypeptide binding]; other site 1321370005224 putative metal binding site [ion binding]; other site 1321370005225 Outer membrane efflux protein; Region: OEP; pfam02321 1321370005226 Outer membrane efflux protein; Region: OEP; pfam02321 1321370005227 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1321370005228 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 1321370005229 HlyD family secretion protein; Region: HlyD_3; pfam13437 1321370005230 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 1321370005231 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1321370005232 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1321370005233 hypothetical protein; Provisional; Region: PRK02237 1321370005234 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 1321370005235 Hg(II)-responsive transcriptional regulator; Region: MerR; TIGR02051 1321370005236 DNA binding residues [nucleotide binding] 1321370005237 dimer interface [polypeptide binding]; other site 1321370005238 mercury binding site [ion binding]; other site 1321370005239 putative mercuric transport protein; Provisional; Region: PRK13751 1321370005240 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 1321370005241 metal-binding site [ion binding] 1321370005242 putative mercuric reductase; Provisional; Region: PRK14694 1321370005243 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1321370005244 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1321370005245 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1321370005246 sensor protein QseC; Provisional; Region: PRK10337 1321370005247 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 1321370005248 dimer interface [polypeptide binding]; other site 1321370005249 phosphorylation site [posttranslational modification] 1321370005250 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 1321370005251 ATP binding site [chemical binding]; other site 1321370005252 Mg2+ binding site [ion binding]; other site 1321370005253 G-X-G motif; other site 1321370005254 DNA-binding transcriptional regulator BasR; Provisional; Region: PRK10643 1321370005255 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370005256 active site 1321370005257 phosphorylation site [posttranslational modification] 1321370005258 intermolecular recognition site; other site 1321370005259 dimerization interface [polypeptide binding]; other site 1321370005260 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 1321370005261 DNA binding site [nucleotide binding] 1321370005262 putative metal dependent hydrolase; Provisional; Region: PRK11598 1321370005263 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 1321370005264 Sulfatase; Region: Sulfatase; pfam00884 1321370005265 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 1321370005266 active site 1321370005267 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 1321370005268 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 1321370005269 Sulfatase; Region: Sulfatase; pfam00884 1321370005270 integrase; Provisional; Region: PRK09692 1321370005271 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 1321370005272 active site 1321370005273 Int/Topo IB signature motif; other site 1321370005274 isoprenoid biosynthesis protein with amidotransferase-like domain; Provisional; Region: PRK11780 1321370005275 Type 1 glutamine amidotransferase (GATase1)-like domain found in zebrafish ES1; Region: GATase1_ES1; cd03133 1321370005276 conserved cys residue [active] 1321370005277 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1321370005278 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_family; cd02803 1321370005279 active site 1321370005280 FMN binding site [chemical binding]; other site 1321370005281 substrate binding site [chemical binding]; other site 1321370005282 putative catalytic residue [active] 1321370005283 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1321370005284 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1321370005285 Coenzyme A binding pocket [chemical binding]; other site 1321370005286 Peptidase_C39 like family; Region: DUF3335; pfam11814 1321370005287 Cation transport protein; Region: TrkH; cl17365 1321370005288 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 1321370005289 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 1321370005290 dimer interface [polypeptide binding]; other site 1321370005291 phosphorylation site [posttranslational modification] 1321370005292 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 1321370005293 ATP binding site [chemical binding]; other site 1321370005294 Mg2+ binding site [ion binding]; other site 1321370005295 G-X-G motif; other site 1321370005296 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1321370005297 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370005298 active site 1321370005299 phosphorylation site [posttranslational modification] 1321370005300 intermolecular recognition site; other site 1321370005301 dimerization interface [polypeptide binding]; other site 1321370005302 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 1321370005303 DNA binding site [nucleotide binding] 1321370005304 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 1321370005305 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 1321370005306 dimerization interface [polypeptide binding]; other site 1321370005307 putative ATP binding site [chemical binding]; other site 1321370005308 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 1321370005309 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 1321370005310 active site 1321370005311 substrate binding site [chemical binding]; other site 1321370005312 cosubstrate binding site; other site 1321370005313 catalytic site [active] 1321370005314 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1321370005315 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1321370005316 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1321370005317 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 1321370005318 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 1321370005319 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 1321370005320 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 1321370005321 active site 1321370005322 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 1321370005323 AbgT putative transporter family; Region: ABG_transport; pfam03806 1321370005324 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 1321370005325 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 1321370005326 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 1321370005327 putative substrate translocation pore; other site 1321370005328 NAD pyrophosphatase/5'-nucleotidase NadN; Region: nadN; TIGR01530 1321370005329 CD73 ecto-5'-nucleotidase and related proteins, N-terminal metallophosphatase domain; Region: MPP_CD73_N; cd07409 1321370005330 active site 1321370005331 metal binding site [ion binding]; metal-binding site 1321370005332 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 1321370005333 Isopenicillin N synthase and related dioxygenases [General function prediction only]; Region: PcbC; COG3491 1321370005334 non-haem dioxygenase in morphine synthesis N-terminal; Region: DIOX_N; pfam14226 1321370005335 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; pfam03171 1321370005336 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 1321370005337 RNA/DNA hybrid binding site [nucleotide binding]; other site 1321370005338 active site 1321370005339 AbgT putative transporter family; Region: ABG_transport; cl17431 1321370005340 Putative p-aminobenzoyl-glutamate transporter [Coenzyme metabolism]; Region: AbgT; COG2978 1321370005341 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 1321370005342 PAS domain; Region: PAS_9; pfam13426 1321370005343 putative active site [active] 1321370005344 heme pocket [chemical binding]; other site 1321370005345 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 1321370005346 PAS domain; Region: PAS_9; pfam13426 1321370005347 putative active site [active] 1321370005348 heme pocket [chemical binding]; other site 1321370005349 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1321370005350 dimer interface [polypeptide binding]; other site 1321370005351 putative CheW interface [polypeptide binding]; other site 1321370005352 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1321370005353 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_10; cd07251 1321370005354 Protein of unknown function (DUF3293); Region: DUF3293; pfam11697 1321370005355 EamA-like transporter family; Region: EamA; pfam00892 1321370005356 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 1321370005357 EamA-like transporter family; Region: EamA; pfam00892 1321370005358 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 1321370005359 putative catalytic site [active] 1321370005360 putative phosphate binding site [ion binding]; other site 1321370005361 putative metal binding site [ion binding]; other site 1321370005362 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 1321370005363 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 1321370005364 E3 interaction surface; other site 1321370005365 lipoyl attachment site [posttranslational modification]; other site 1321370005366 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 1321370005367 E3 interaction surface; other site 1321370005368 lipoyl attachment site [posttranslational modification]; other site 1321370005369 e3 binding domain; Region: E3_binding; pfam02817 1321370005370 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 1321370005371 3-methyl-2-oxobutanate dehydrogenase; Provisional; Region: PTZ00182 1321370005372 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 1321370005373 alpha subunit interface [polypeptide binding]; other site 1321370005374 TPP binding site [chemical binding]; other site 1321370005375 heterodimer interface [polypeptide binding]; other site 1321370005376 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1321370005377 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 1321370005378 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 1321370005379 tetramer interface [polypeptide binding]; other site 1321370005380 TPP-binding site [chemical binding]; other site 1321370005381 heterodimer interface [polypeptide binding]; other site 1321370005382 phosphorylation loop region [posttranslational modification] 1321370005383 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 1321370005384 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 1321370005385 putative active site [active] 1321370005386 Zn binding site [ion binding]; other site 1321370005387 Protein of unknown function, DUF599; Region: DUF599; pfam04654 1321370005388 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1321370005389 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1321370005390 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1321370005391 HlyD family secretion protein; Region: HlyD_3; pfam13437 1321370005392 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1321370005393 putative cation:proton antiport protein; Provisional; Region: PRK10669 1321370005394 TrkA-N domain; Region: TrkA_N; pfam02254 1321370005395 TrkA-C domain; Region: TrkA_C; pfam02080 1321370005396 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370005397 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370005398 metal binding site [ion binding]; metal-binding site 1321370005399 active site 1321370005400 I-site; other site 1321370005401 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 1321370005402 TilS substrate binding domain; Region: TilS; pfam09179 1321370005403 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 1321370005404 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 1321370005405 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 1321370005406 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 1321370005407 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 1321370005408 putative active site [active] 1321370005409 putative PHP Thumb interface [polypeptide binding]; other site 1321370005410 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 1321370005411 generic binding surface I; other site 1321370005412 generic binding surface II; other site 1321370005413 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 1321370005414 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1321370005415 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 1321370005416 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1321370005417 active site 1321370005418 Zn binding site [ion binding]; other site 1321370005419 TIGR03503 family protein; Region: TIGR03503 1321370005420 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 1321370005421 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 1321370005422 active site 1321370005423 catalytic site [active] 1321370005424 substrate binding site [chemical binding]; other site 1321370005425 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 1321370005426 RNA/DNA hybrid binding site [nucleotide binding]; other site 1321370005427 active site 1321370005428 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 1321370005429 active site residue [active] 1321370005430 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1321370005431 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 1321370005432 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 1321370005433 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 1321370005434 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 1321370005435 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1321370005436 catalytic residue [active] 1321370005437 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1321370005438 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1321370005439 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1321370005440 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 1321370005441 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 1321370005442 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 1321370005443 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 1321370005444 nucleotide binding pocket [chemical binding]; other site 1321370005445 K-X-D-G motif; other site 1321370005446 catalytic site [active] 1321370005447 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 1321370005448 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 1321370005449 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 1321370005450 Dimer interface [polypeptide binding]; other site 1321370005451 BRCT sequence motif; other site 1321370005452 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 1321370005453 FtsZ protein binding site [polypeptide binding]; other site 1321370005454 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1321370005455 AAA domain; Region: AAA_23; pfam13476 1321370005456 Walker A/P-loop; other site 1321370005457 ATP binding site [chemical binding]; other site 1321370005458 Q-loop/lid; other site 1321370005459 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 1321370005460 ABC transporter signature motif; other site 1321370005461 Walker B; other site 1321370005462 D-loop; other site 1321370005463 H-loop/switch region; other site 1321370005464 putative sulfate transport protein CysZ; Validated; Region: PRK04949 1321370005465 RmuC family; Region: RmuC; pfam02646 1321370005466 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 1321370005467 Fumarase C-terminus; Region: Fumerase_C; pfam05683 1321370005468 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 1321370005469 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1321370005470 chorismate binding enzyme; Region: Chorismate_bind; cl10555 1321370005471 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 1321370005472 putative active site [active] 1321370005473 putative CoA binding site [chemical binding]; other site 1321370005474 nudix motif; other site 1321370005475 metal binding site [ion binding]; metal-binding site 1321370005476 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 1321370005477 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 1321370005478 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 1321370005479 transcriptional regulator CysB; Reviewed; Region: cysB; PRK12681 1321370005480 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1321370005481 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 1321370005482 substrate binding site [chemical binding]; other site 1321370005483 dimerization interface [polypeptide binding]; other site 1321370005484 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1321370005485 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 1321370005486 ATP binding site [chemical binding]; other site 1321370005487 G-X-G motif; other site 1321370005488 translation initiation factor Sui1; Validated; Region: PRK06824 1321370005489 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 1321370005490 putative rRNA binding site [nucleotide binding]; other site 1321370005491 Response regulator receiver domain; Region: Response_reg; pfam00072 1321370005492 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370005493 active site 1321370005494 phosphorylation site [posttranslational modification] 1321370005495 intermolecular recognition site; other site 1321370005496 dimerization interface [polypeptide binding]; other site 1321370005497 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 1321370005498 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 1321370005499 anti sigma factor interaction site; other site 1321370005500 regulatory phosphorylation site [posttranslational modification]; other site 1321370005501 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1321370005502 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370005503 active site 1321370005504 phosphorylation site [posttranslational modification] 1321370005505 intermolecular recognition site; other site 1321370005506 dimerization interface [polypeptide binding]; other site 1321370005507 chemotaxis regulatory protein CheY; Provisional; Region: PRK10610 1321370005508 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370005509 active site 1321370005510 phosphorylation site [posttranslational modification] 1321370005511 intermolecular recognition site; other site 1321370005512 dimerization interface [polypeptide binding]; other site 1321370005513 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1321370005514 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 1321370005515 active site 1321370005516 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 1321370005517 Amidohydrolase; Region: Amidohydro_4; pfam13147 1321370005518 active site 1321370005519 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1321370005520 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 1321370005521 active site 1321370005522 Cytochrome C' Region: Cytochrom_C_2; pfam01322 1321370005523 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 1321370005524 Response regulator receiver domain; Region: Response_reg; pfam00072 1321370005525 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370005526 active site 1321370005527 phosphorylation site [posttranslational modification] 1321370005528 intermolecular recognition site; other site 1321370005529 dimerization interface [polypeptide binding]; other site 1321370005530 bifunctional chorismate mutase/prephenate dehydrogenase; Provisional; Region: tyrA; PRK11199 1321370005531 Chorismate mutase type II; Region: CM_2; cl00693 1321370005532 prephenate dehydrogenase; Validated; Region: PRK08507 1321370005533 DNA-J related protein; Region: DNAJ_related; pfam12339 1321370005534 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 1321370005535 HSP70 interaction site [polypeptide binding]; other site 1321370005536 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 1321370005537 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 1321370005538 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 1321370005539 RimM N-terminal domain; Region: RimM; pfam01782 1321370005540 PRC-barrel domain; Region: PRC; pfam05239 1321370005541 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 1321370005542 signal recognition particle protein; Provisional; Region: PRK10867 1321370005543 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 1321370005544 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 1321370005545 P loop; other site 1321370005546 GTP binding site [chemical binding]; other site 1321370005547 Signal peptide binding domain; Region: SRP_SPB; pfam02978 1321370005548 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 1321370005549 hypothetical protein; Provisional; Region: PRK11573 1321370005550 Domain of unknown function DUF21; Region: DUF21; pfam01595 1321370005551 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 1321370005552 Transporter associated domain; Region: CorC_HlyC; smart01091 1321370005553 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 1321370005554 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1321370005555 catalytic residue [active] 1321370005556 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 1321370005557 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1321370005558 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 1321370005559 dimer interface [polypeptide binding]; other site 1321370005560 phosphorylation site [posttranslational modification] 1321370005561 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 1321370005562 ATP binding site [chemical binding]; other site 1321370005563 Mg2+ binding site [ion binding]; other site 1321370005564 G-X-G motif; other site 1321370005565 Response regulator receiver domain; Region: Response_reg; pfam00072 1321370005566 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370005567 active site 1321370005568 phosphorylation site [posttranslational modification] 1321370005569 intermolecular recognition site; other site 1321370005570 dimerization interface [polypeptide binding]; other site 1321370005571 Response regulator receiver domain; Region: Response_reg; pfam00072 1321370005572 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370005573 active site 1321370005574 phosphorylation site [posttranslational modification] 1321370005575 intermolecular recognition site; other site 1321370005576 dimerization interface [polypeptide binding]; other site 1321370005577 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 1321370005578 putative binding surface; other site 1321370005579 active site 1321370005580 Na+-transporting methylmalonyl-CoA/oxaloacetate decarboxylase, beta subunit [Energy production and conversion]; Region: OadB; COG1883 1321370005581 oxaloacetate decarboxylase; Provisional; Region: PRK14040 1321370005582 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 1321370005583 active site 1321370005584 catalytic residues [active] 1321370005585 metal binding site [ion binding]; metal-binding site 1321370005586 homodimer binding site [polypeptide binding]; other site 1321370005587 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 1321370005588 carboxyltransferase (CT) interaction site; other site 1321370005589 biotinylation site [posttranslational modification]; other site 1321370005590 oxaloacetate decarboxylase subunit gamma; Provisional; Region: PRK03814 1321370005591 carbon storage regulator; Provisional; Region: PRK01712 1321370005592 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 1321370005593 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 1321370005594 motif 1; other site 1321370005595 active site 1321370005596 motif 2; other site 1321370005597 motif 3; other site 1321370005598 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 1321370005599 DHHA1 domain; Region: DHHA1; pfam02272 1321370005600 recombination regulator RecX; Reviewed; Region: recX; PRK00117 1321370005601 Uncharacterized conserved protein [Function unknown]; Region: COG2968 1321370005602 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 1321370005603 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1321370005604 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 1321370005605 TPR motif; other site 1321370005606 binding surface 1321370005607 Tetratricopeptide repeat; Region: TPR_12; pfam13424 1321370005608 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370005609 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370005610 metal binding site [ion binding]; metal-binding site 1321370005611 active site 1321370005612 I-site; other site 1321370005613 Peptidylarginine deiminase and related enzymes [Amino acid transport and metabolism]; Region: COG2957; cl01113 1321370005614 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; pfam04371 1321370005615 23S rRNA pseudouridylate synthase B; Provisional; Region: PRK10700 1321370005616 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 1321370005617 RNA binding surface [nucleotide binding]; other site 1321370005618 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 1321370005619 probable active site [active] 1321370005620 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 1321370005621 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 1321370005622 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 1321370005623 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 1321370005624 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1321370005625 active site 1321370005626 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 1321370005627 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 1321370005628 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 1321370005629 active site 1321370005630 FMN binding site [chemical binding]; other site 1321370005631 2,4-decadienoyl-CoA binding site; other site 1321370005632 catalytic residue [active] 1321370005633 4Fe-4S cluster binding site [ion binding]; other site 1321370005634 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 1321370005635 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 1321370005636 Carboxypeptidase C (cathepsin A) [Amino acid transport and metabolism]; Region: COG2939 1321370005637 Serine carboxypeptidase; Region: Peptidase_S10; cl08270 1321370005638 anthranilate synthase component I; Provisional; Region: PRK13564 1321370005639 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 1321370005640 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 1321370005641 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1321370005642 Glutamine amidotransferase class-I; Region: GATase; pfam00117 1321370005643 glutamine binding [chemical binding]; other site 1321370005644 catalytic triad [active] 1321370005645 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 1321370005646 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1321370005647 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1321370005648 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 1321370005649 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 1321370005650 active site 1321370005651 ribulose/triose binding site [chemical binding]; other site 1321370005652 phosphate binding site [ion binding]; other site 1321370005653 substrate (anthranilate) binding pocket [chemical binding]; other site 1321370005654 product (indole) binding pocket [chemical binding]; other site 1321370005655 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 1321370005656 active site 1321370005657 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 1321370005658 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 1321370005659 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370005660 catalytic residue [active] 1321370005661 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 1321370005662 substrate binding site [chemical binding]; other site 1321370005663 active site 1321370005664 catalytic residues [active] 1321370005665 heterodimer interface [polypeptide binding]; other site 1321370005666 Intracellular septation protein A; Region: IspA; pfam04279 1321370005667 YciI-like protein; Reviewed; Region: PRK11370 1321370005668 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1321370005669 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 1321370005670 Predicted membrane protein [Function unknown]; Region: COG3174 1321370005671 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 1321370005672 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 1321370005673 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 1321370005674 dimer interface [polypeptide binding]; other site 1321370005675 active site 1321370005676 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1321370005677 substrate binding site [chemical binding]; other site 1321370005678 catalytic residue [active] 1321370005679 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 1321370005680 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 1321370005681 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 1321370005682 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 1321370005683 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 1321370005684 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 1321370005685 NAD(P) binding site [chemical binding]; other site 1321370005686 active site 1321370005687 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 1321370005688 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1321370005689 FtsX-like permease family; Region: FtsX; pfam02687 1321370005690 FtsX-like permease family; Region: FtsX; pfam02687 1321370005691 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 1321370005692 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1321370005693 Walker A/P-loop; other site 1321370005694 ATP binding site [chemical binding]; other site 1321370005695 Q-loop/lid; other site 1321370005696 ABC transporter signature motif; other site 1321370005697 Walker B; other site 1321370005698 D-loop; other site 1321370005699 H-loop/switch region; other site 1321370005700 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 1321370005701 active site 1321370005702 catalytic triad [active] 1321370005703 oxyanion hole [active] 1321370005704 switch loop; other site 1321370005705 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 1321370005706 active site clefts [active] 1321370005707 zinc binding site [ion binding]; other site 1321370005708 dimer interface [polypeptide binding]; other site 1321370005709 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 1321370005710 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1321370005711 active site 1321370005712 HIGH motif; other site 1321370005713 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 1321370005714 active site 1321370005715 KMSKS motif; other site 1321370005716 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1321370005717 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1321370005718 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 1321370005719 putative effector binding pocket; other site 1321370005720 putative dimerization interface [polypeptide binding]; other site 1321370005721 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 1321370005722 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 1321370005723 substrate binding site [chemical binding]; other site 1321370005724 catalytic Zn binding site [ion binding]; other site 1321370005725 NAD binding site [chemical binding]; other site 1321370005726 structural Zn binding site [ion binding]; other site 1321370005727 dimer interface [polypeptide binding]; other site 1321370005728 S-formylglutathione hydrolase; Region: PLN02442 1321370005729 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 1321370005730 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1321370005731 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1321370005732 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1321370005733 HAMP domain; Region: HAMP; pfam00672 1321370005734 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1321370005735 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1321370005736 dimer interface [polypeptide binding]; other site 1321370005737 putative CheW interface [polypeptide binding]; other site 1321370005738 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 1321370005739 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1321370005740 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1321370005741 Aspartate racemase [Cell envelope biogenesis, outer membrane]; Region: RacX; COG1794 1321370005742 aspartate racemase; Region: asp_race; TIGR00035 1321370005743 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 1321370005744 sulfation-dependent quorum factor, Ax21 family; Region: Y_sulf_Ax21; TIGR04273 1321370005745 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2859 1321370005746 Protein of unknown function (DUF502); Region: DUF502; cl01107 1321370005747 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 1321370005748 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370005749 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 1321370005750 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 1321370005751 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1321370005752 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1321370005753 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1321370005754 Protein of unknown function (DUF2919); Region: DUF2919; pfam11143 1321370005755 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 1321370005756 excinuclease ABC subunit B; Provisional; Region: PRK05298 1321370005757 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 1321370005758 ATP binding site [chemical binding]; other site 1321370005759 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 1321370005760 nucleotide binding region [chemical binding]; other site 1321370005761 ATP-binding site [chemical binding]; other site 1321370005762 Ultra-violet resistance protein B; Region: UvrB; pfam12344 1321370005763 UvrB/uvrC motif; Region: UVR; pfam02151 1321370005764 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_2; cd13149 1321370005765 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 1321370005766 aspartate aminotransferase; Provisional; Region: PRK05764 1321370005767 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 1321370005768 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370005769 homodimer interface [polypeptide binding]; other site 1321370005770 catalytic residue [active] 1321370005771 Glycosyl transferase family 1; Region: Glyco_trans_1_3; pfam13528 1321370005772 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 1321370005773 active site 1321370005774 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 1321370005775 electron transport complex protein RsxA; Provisional; Region: PRK05151 1321370005776 electron transport complex protein RnfB; Provisional; Region: PRK05113 1321370005777 Putative Fe-S cluster; Region: FeS; pfam04060 1321370005778 4Fe-4S binding domain; Region: Fer4; pfam00037 1321370005779 electron transport complex, RnfABCDGE type, C subunit; Region: rnfC; TIGR01945 1321370005780 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 1321370005781 lipoyl-biotinyl attachment site [posttranslational modification]; other site 1321370005782 SLBB domain; Region: SLBB; pfam10531 1321370005783 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 1321370005784 electron transport complex protein RnfD; Reviewed; Region: rnfD; PRK00816 1321370005785 electron transport complex protein RnfG; Validated; Region: PRK01908 1321370005786 electron transport complex RsxE subunit; Provisional; Region: PRK12405 1321370005787 endonuclease III; Provisional; Region: PRK10702 1321370005788 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1321370005789 minor groove reading motif; other site 1321370005790 helix-hairpin-helix signature motif; other site 1321370005791 substrate binding pocket [chemical binding]; other site 1321370005792 active site 1321370005793 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 1321370005794 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1321370005795 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1321370005796 ligand binding site [chemical binding]; other site 1321370005797 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 1321370005798 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 1321370005799 dimer interface [polypeptide binding]; other site 1321370005800 catalytic site [active] 1321370005801 putative active site [active] 1321370005802 putative substrate binding site [chemical binding]; other site 1321370005803 peroxidase; Provisional; Region: PRK15000 1321370005804 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 1321370005805 dimer interface [polypeptide binding]; other site 1321370005806 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1321370005807 catalytic triad [active] 1321370005808 peroxidatic and resolving cysteines [active] 1321370005809 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 1321370005810 putative GSH binding site [chemical binding]; other site 1321370005811 catalytic residues [active] 1321370005812 superoxide dismutase; Provisional; Region: PRK10543 1321370005813 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 1321370005814 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 1321370005815 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 1321370005816 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1321370005817 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1321370005818 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 1321370005819 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1321370005820 catalytic site [active] 1321370005821 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 1321370005822 Predicted periplasmic protein [Function unknown]; Region: COG3904 1321370005823 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1321370005824 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 1321370005825 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 1321370005826 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1321370005827 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1321370005828 Coenzyme A binding pocket [chemical binding]; other site 1321370005829 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1321370005830 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 1321370005831 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 1321370005832 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 1321370005833 Beta-lactamase; Region: Beta-lactamase; pfam00144 1321370005834 DNA-binding winged-HTH domains [Transcription]; Region: CadC; COG3710 1321370005835 DNA binding site [nucleotide binding] 1321370005836 Periplasmic component of the Tol biopolymer transport system [Intracellular trafficking and secretion]; Region: TolB; COG0823 1321370005837 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 1321370005838 fatty acid metabolism regulator; Provisional; Region: PRK04984 1321370005839 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1321370005840 DNA-binding site [nucleotide binding]; DNA binding site 1321370005841 FadR C-terminal domain; Region: FadR_C; pfam07840 1321370005842 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 1321370005843 hypothetical protein; Provisional; Region: PRK05170 1321370005844 Transglycosylase SLT domain; Region: SLT_2; pfam13406 1321370005845 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 1321370005846 N-acetyl-D-glucosamine binding site [chemical binding]; other site 1321370005847 YcgL domain; Region: YcgL; pfam05166 1321370005848 ribonuclease D; Provisional; Region: PRK10829 1321370005849 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 1321370005850 catalytic site [active] 1321370005851 putative active site [active] 1321370005852 putative substrate binding site [chemical binding]; other site 1321370005853 HRDC domain; Region: HRDC; pfam00570 1321370005854 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08974 1321370005855 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 1321370005856 acyl-activating enzyme (AAE) consensus motif; other site 1321370005857 putative AMP binding site [chemical binding]; other site 1321370005858 putative active site [active] 1321370005859 putative CoA binding site [chemical binding]; other site 1321370005860 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1321370005861 Outer membrane lipoprotein Slp family; Region: Slp; pfam03843 1321370005862 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1321370005863 Glycoprotease family; Region: Peptidase_M22; pfam00814 1321370005864 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 1321370005865 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 1321370005866 ATP binding site [chemical binding]; other site 1321370005867 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 1321370005868 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 1321370005869 ATP phosphoribosyltransferase; Region: hisG; TIGR00070 1321370005870 ATP phosphoribosyltransferase, C-terminal domain; Region: HisG_C-term; TIGR03455 1321370005871 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 1321370005872 histidinol dehydrogenase; Region: hisD; TIGR00069 1321370005873 NAD binding site [chemical binding]; other site 1321370005874 dimerization interface [polypeptide binding]; other site 1321370005875 product binding site; other site 1321370005876 substrate binding site [chemical binding]; other site 1321370005877 zinc binding site [ion binding]; other site 1321370005878 catalytic residues [active] 1321370005879 histidinol-phosphate aminotransferase; Provisional; Region: PRK01688 1321370005880 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 1321370005881 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370005882 homodimer interface [polypeptide binding]; other site 1321370005883 catalytic residue [active] 1321370005884 imidazole glycerol-phosphate dehydratase/histidinol phosphatase; Provisional; Region: PRK05446 1321370005885 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 1321370005886 active site 1321370005887 motif I; other site 1321370005888 motif II; other site 1321370005889 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 1321370005890 putative active site pocket [active] 1321370005891 4-fold oligomerization interface [polypeptide binding]; other site 1321370005892 metal binding residues [ion binding]; metal-binding site 1321370005893 3-fold/trimer interface [polypeptide binding]; other site 1321370005894 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13170 1321370005895 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 1321370005896 putative active site [active] 1321370005897 oxyanion strand; other site 1321370005898 catalytic triad [active] 1321370005899 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 1321370005900 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 1321370005901 catalytic residues [active] 1321370005902 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 1321370005903 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 1321370005904 substrate binding site [chemical binding]; other site 1321370005905 glutamase interaction surface [polypeptide binding]; other site 1321370005906 Phosphoribosyl-AMP cyclohydrolase [Amino acid transport and metabolism]; Region: HisI; COG0139 1321370005907 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 1321370005908 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 1321370005909 metal binding site [ion binding]; metal-binding site 1321370005910 multidrug efflux protein; Reviewed; Region: PRK01766 1321370005911 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 1321370005912 cation binding site [ion binding]; other site 1321370005913 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1321370005914 S-formylglutathione hydrolase; Region: PLN02442 1321370005915 MAPEG family; Region: MAPEG; cl09190 1321370005916 adenylate kinase; Reviewed; Region: adk; PRK00279 1321370005917 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 1321370005918 AMP-binding site [chemical binding]; other site 1321370005919 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 1321370005920 heat shock protein 90; Provisional; Region: PRK05218 1321370005921 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 1321370005922 ATP binding site [chemical binding]; other site 1321370005923 Mg2+ binding site [ion binding]; other site 1321370005924 G-X-G motif; other site 1321370005925 recombination protein RecR; Reviewed; Region: recR; PRK00076 1321370005926 RecR protein; Region: RecR; pfam02132 1321370005927 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 1321370005928 putative active site [active] 1321370005929 putative metal-binding site [ion binding]; other site 1321370005930 tetramer interface [polypeptide binding]; other site 1321370005931 hypothetical protein; Validated; Region: PRK00153 1321370005932 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07994 1321370005933 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 1321370005934 Walker A motif; other site 1321370005935 ATP binding site [chemical binding]; other site 1321370005936 Walker B motif; other site 1321370005937 DNA polymerase III subunit delta'; Validated; Region: PRK08485 1321370005938 arginine finger; other site 1321370005939 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 1321370005940 DNA polymerase III tau subunit V interacting with alpha; Region: DNA_pol3_tau_5; pfam12170 1321370005941 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1321370005942 active site 1321370005943 Response regulator receiver domain; Region: Response_reg; pfam00072 1321370005944 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370005945 active site 1321370005946 phosphorylation site [posttranslational modification] 1321370005947 intermolecular recognition site; other site 1321370005948 dimerization interface [polypeptide binding]; other site 1321370005949 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; cl01262 1321370005950 hypothetical protein; Provisional; Region: PRK05409 1321370005951 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 1321370005952 binding surface 1321370005953 TPR motif; other site 1321370005954 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 1321370005955 binding surface 1321370005956 TPR motif; other site 1321370005957 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1321370005958 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1321370005959 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1321370005960 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1321370005961 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1321370005962 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1321370005963 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 1321370005964 Primosomal replication protein priB and priC; Region: priB_priC; cl11483 1321370005965 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1321370005966 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 1321370005967 putative active site [active] 1321370005968 Zn binding site [ion binding]; other site 1321370005969 Late competence development protein ComFB; Region: ComFB; pfam10719 1321370005970 enoyl-CoA hydratase; Provisional; Region: PRK06688 1321370005971 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 1321370005972 substrate binding site [chemical binding]; other site 1321370005973 oxyanion hole (OAH) forming residues; other site 1321370005974 trimer interface [polypeptide binding]; other site 1321370005975 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK12879 1321370005976 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 1321370005977 dimer interface [polypeptide binding]; other site 1321370005978 active site 1321370005979 CoA binding pocket [chemical binding]; other site 1321370005980 Uncharacterized lipoprotein; Region: Lipoprotein_16; pfam03923 1321370005981 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 1321370005982 active site 1321370005983 muropeptide transporter; Reviewed; Region: ampG; PRK11902 1321370005984 muropeptide transporter; Validated; Region: ampG; cl17669 1321370005985 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 1321370005986 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 1321370005987 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 1321370005988 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 1321370005989 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 1321370005990 dimerization interface [polypeptide binding]; other site 1321370005991 active site 1321370005992 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 1321370005993 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 1321370005994 catalytic motif [active] 1321370005995 Zn binding site [ion binding]; other site 1321370005996 RibD C-terminal domain; Region: RibD_C; cl17279 1321370005997 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 1321370005998 ATP cone domain; Region: ATP-cone; pfam03477 1321370005999 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 1321370006000 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 1321370006001 dimer interface [polypeptide binding]; other site 1321370006002 active site 1321370006003 glycine-pyridoxal phosphate binding site [chemical binding]; other site 1321370006004 folate binding site [chemical binding]; other site 1321370006005 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 1321370006006 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1321370006007 Walker A/P-loop; other site 1321370006008 ATP binding site [chemical binding]; other site 1321370006009 Q-loop/lid; other site 1321370006010 ABC transporter signature motif; other site 1321370006011 Walker B; other site 1321370006012 D-loop; other site 1321370006013 H-loop/switch region; other site 1321370006014 ABC transporter; Region: ABC_tran_2; pfam12848 1321370006015 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1321370006016 DNA repair protein RadA; Provisional; Region: PRK11823 1321370006017 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 1321370006018 Walker A motif; other site 1321370006019 ATP binding site [chemical binding]; other site 1321370006020 Walker B motif; other site 1321370006021 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 1321370006022 PilZ domain; Region: PilZ; pfam07238 1321370006023 PilZ domain; Region: PilZ; pfam07238 1321370006024 phosphoserine phosphatase SerB; Region: serB; TIGR00338 1321370006025 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 1321370006026 motif II; other site 1321370006027 Bacterial virulence factor haemolysin; Region: SMP_2; cl11479 1321370006028 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1321370006029 active site 1321370006030 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 1321370006031 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 1321370006032 G1 box; other site 1321370006033 putative GEF interaction site [polypeptide binding]; other site 1321370006034 GTP/Mg2+ binding site [chemical binding]; other site 1321370006035 Switch I region; other site 1321370006036 G2 box; other site 1321370006037 G3 box; other site 1321370006038 Switch II region; other site 1321370006039 G4 box; other site 1321370006040 G5 box; other site 1321370006041 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 1321370006042 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 1321370006043 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1321370006044 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 1321370006045 dimerization interface [polypeptide binding]; other site 1321370006046 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1321370006047 dimer interface [polypeptide binding]; other site 1321370006048 putative CheW interface [polypeptide binding]; other site 1321370006049 phosphopentomutase; Provisional; Region: PRK05362 1321370006050 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 1321370006051 thymidine phosphorylase; Region: T_phosphoryl; TIGR02643 1321370006052 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 1321370006053 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 1321370006054 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 1321370006055 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 1321370006056 intersubunit interface [polypeptide binding]; other site 1321370006057 active site 1321370006058 catalytic residue [active] 1321370006059 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 1321370006060 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1321370006061 Coenzyme A binding pocket [chemical binding]; other site 1321370006062 HDOD domain; Region: HDOD; pfam08668 1321370006063 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 1321370006064 Surface antigen; Region: Bac_surface_Ag; pfam01103 1321370006065 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 1321370006066 Family of unknown function (DUF490); Region: DUF490; pfam04357 1321370006067 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 1321370006068 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 1321370006069 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 1321370006070 alphaNTD homodimer interface [polypeptide binding]; other site 1321370006071 alphaNTD - beta interaction site [polypeptide binding]; other site 1321370006072 alphaNTD - beta' interaction site [polypeptide binding]; other site 1321370006073 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 1321370006074 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 1321370006075 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 1321370006076 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 1321370006077 RNA binding surface [nucleotide binding]; other site 1321370006078 30S ribosomal protein S11; Validated; Region: PRK05309 1321370006079 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 1321370006080 30S ribosomal protein S13; Region: bact_S13; TIGR03631 1321370006081 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 1321370006082 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 1321370006083 SecY translocase; Region: SecY; pfam00344 1321370006084 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 1321370006085 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 1321370006086 23S rRNA binding site [nucleotide binding]; other site 1321370006087 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 1321370006088 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 1321370006089 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 1321370006090 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 1321370006091 5S rRNA interface [nucleotide binding]; other site 1321370006092 23S rRNA interface [nucleotide binding]; other site 1321370006093 L5 interface [polypeptide binding]; other site 1321370006094 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 1321370006095 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1321370006096 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 1321370006097 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 1321370006098 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 1321370006099 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 1321370006100 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 1321370006101 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 1321370006102 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 1321370006103 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 1321370006104 RNA binding site [nucleotide binding]; other site 1321370006105 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 1321370006106 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 1321370006107 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1321370006108 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 1321370006109 monovalent cation:proton antiporter; Region: 2a6301s02; TIGR00943 1321370006110 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 1321370006111 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 1321370006112 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 1321370006113 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 1321370006114 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK06161 1321370006115 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 1321370006116 Insertion element 4 transposase N-terminal; Region: Nterm_IS4; pfam13006 1321370006117 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 1321370006118 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 1321370006119 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 1321370006120 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 1321370006121 23S rRNA interface [nucleotide binding]; other site 1321370006122 putative translocon interaction site; other site 1321370006123 signal recognition particle (SRP54) interaction site; other site 1321370006124 L23 interface [polypeptide binding]; other site 1321370006125 trigger factor interaction site; other site 1321370006126 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 1321370006127 23S rRNA interface [nucleotide binding]; other site 1321370006128 5S rRNA interface [nucleotide binding]; other site 1321370006129 putative antibiotic binding site [chemical binding]; other site 1321370006130 L25 interface [polypeptide binding]; other site 1321370006131 L27 interface [polypeptide binding]; other site 1321370006132 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 1321370006133 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 1321370006134 G-X-X-G motif; other site 1321370006135 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 1321370006136 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 1321370006137 putative translocon binding site; other site 1321370006138 protein-rRNA interface [nucleotide binding]; other site 1321370006139 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 1321370006140 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 1321370006141 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 1321370006142 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 1321370006143 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 1321370006144 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 1321370006145 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 1321370006146 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 1321370006147 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 1321370006148 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 1321370006149 active site 1321370006150 dimer interface [polypeptide binding]; other site 1321370006151 Protein of unknown function (DUF3373); Region: DUF3373; pfam11853 1321370006152 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 1321370006153 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 1321370006154 FMN binding site [chemical binding]; other site 1321370006155 active site 1321370006156 catalytic residues [active] 1321370006157 substrate binding site [chemical binding]; other site 1321370006158 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 1321370006159 metal binding site 2 [ion binding]; metal-binding site 1321370006160 putative DNA binding helix; other site 1321370006161 metal binding site 1 [ion binding]; metal-binding site 1321370006162 dimer interface [polypeptide binding]; other site 1321370006163 structural Zn2+ binding site [ion binding]; other site 1321370006164 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 1321370006165 Zn binding site [ion binding]; other site 1321370006166 Predicted inhibitor of MCP methylation, homolog of CheC [Cell motility and secretion]; Region: COG1406 1321370006167 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 1321370006168 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 1321370006169 replicative DNA helicase; Region: DnaB; TIGR00665 1321370006170 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 1321370006171 Walker A motif; other site 1321370006172 ATP binding site [chemical binding]; other site 1321370006173 Walker B motif; other site 1321370006174 DNA binding loops [nucleotide binding] 1321370006175 Domain of unknown function (DUF4098); Region: DUF4098; pfam13345 1321370006176 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 1321370006177 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1321370006178 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 1321370006179 DNA binding residues [nucleotide binding] 1321370006180 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 1321370006181 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 1321370006182 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 1321370006183 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 1321370006184 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 1321370006185 dimer interface [polypeptide binding]; other site 1321370006186 ssDNA binding site [nucleotide binding]; other site 1321370006187 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1321370006188 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 1321370006189 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 1321370006190 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 1321370006191 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1321370006192 ribonuclease R; Region: RNase_R; TIGR02063 1321370006193 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 1321370006194 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 1321370006195 RNB domain; Region: RNB; pfam00773 1321370006196 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 1321370006197 RNA binding site [nucleotide binding]; other site 1321370006198 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 1321370006199 RDD family; Region: RDD; pfam06271 1321370006200 lipopolysaccharide ABC transporter permease; Provisional; Region: PRK15071 1321370006201 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1321370006202 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 1321370006203 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 1321370006204 multifunctional aminopeptidase A; Provisional; Region: PRK00913 1321370006205 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 1321370006206 interface (dimer of trimers) [polypeptide binding]; other site 1321370006207 Substrate-binding/catalytic site; other site 1321370006208 Zn-binding sites [ion binding]; other site 1321370006209 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 1321370006210 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 1321370006211 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1321370006212 HIGH motif; other site 1321370006213 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 1321370006214 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 1321370006215 active site 1321370006216 KMSKS motif; other site 1321370006217 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 1321370006218 tRNA binding surface [nucleotide binding]; other site 1321370006219 anticodon binding site; other site 1321370006220 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 1321370006221 RNase E inhibitor protein; Provisional; Region: PRK11191 1321370006222 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 1321370006223 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 1321370006224 putative acyl-acceptor binding pocket; other site 1321370006225 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 1321370006226 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 1321370006227 CAP-like domain; other site 1321370006228 active site 1321370006229 primary dimer interface [polypeptide binding]; other site 1321370006230 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 1321370006231 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 1321370006232 ATP binding site [chemical binding]; other site 1321370006233 Mg2+ binding site [ion binding]; other site 1321370006234 G-X-G motif; other site 1321370006235 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 1321370006236 anchoring element; other site 1321370006237 dimer interface [polypeptide binding]; other site 1321370006238 ATP binding site [chemical binding]; other site 1321370006239 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 1321370006240 active site 1321370006241 metal binding site [ion binding]; metal-binding site 1321370006242 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 1321370006243 Protein of unknown function (DUF1249); Region: DUF1249; pfam06853 1321370006244 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 1321370006245 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 1321370006246 dimer interface [polypeptide binding]; other site 1321370006247 ADP-ribose binding site [chemical binding]; other site 1321370006248 active site 1321370006249 nudix motif; other site 1321370006250 metal binding site [ion binding]; metal-binding site 1321370006251 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 1321370006252 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 1321370006253 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 1321370006254 putative acyl-acceptor binding pocket; other site 1321370006255 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 1321370006256 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1321370006257 metal binding triad; other site 1321370006258 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 1321370006259 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 1321370006260 metal binding triad; other site 1321370006261 Uncharacterized conserved protein [Function unknown]; Region: COG3025 1321370006262 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 1321370006263 putative active site [active] 1321370006264 putative metal binding residues [ion binding]; other site 1321370006265 signature motif; other site 1321370006266 putative triphosphate binding site [ion binding]; other site 1321370006267 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 1321370006268 Proline dehydrogenase; Region: Pro_dh; pfam01619 1321370006269 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 1321370006270 Glutamate binding site [chemical binding]; other site 1321370006271 NAD binding site [chemical binding]; other site 1321370006272 catalytic residues [active] 1321370006273 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 1321370006274 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 1321370006275 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 1321370006276 active site 1321370006277 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 1321370006278 type III secretion apparatus protein, YscD/HrpQ family; Region: type_III_yscD; TIGR02500 1321370006279 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 1321370006280 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 1321370006281 Walker A motif; other site 1321370006282 ATP binding site [chemical binding]; other site 1321370006283 Walker B motif; other site 1321370006284 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 1321370006285 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 1321370006286 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 1321370006287 active site 1321370006288 NTP binding site [chemical binding]; other site 1321370006289 metal binding triad [ion binding]; metal-binding site 1321370006290 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1321370006291 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 1321370006292 catalytic center binding site [active] 1321370006293 ATP binding site [chemical binding]; other site 1321370006294 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 1321370006295 homooctamer interface [polypeptide binding]; other site 1321370006296 active site 1321370006297 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 1321370006298 UGMP family protein; Validated; Region: PRK09604 1321370006299 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 1321370006300 amidase; Provisional; Region: PRK08137 1321370006301 Amidase; Region: Amidase; cl11426 1321370006302 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1321370006303 putative active site [active] 1321370006304 putative metal binding site [ion binding]; other site 1321370006305 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1321370006306 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 1321370006307 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 1321370006308 Walker A motif; other site 1321370006309 ATP binding site [chemical binding]; other site 1321370006310 Walker B motif; other site 1321370006311 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 1321370006312 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1321370006313 catalytic residue [active] 1321370006314 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 1321370006315 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 1321370006316 YGGT family; Region: YGGT; pfam02325 1321370006317 YGGT family; Region: YGGT; pfam02325 1321370006318 Domain of unknown function (DUF4426); Region: DUF4426; pfam14467 1321370006319 potassium/proton antiporter; Reviewed; Region: PRK05326 1321370006320 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 1321370006321 TrkA-C domain; Region: TrkA_C; pfam02080 1321370006322 Transporter associated domain; Region: CorC_HlyC; smart01091 1321370006323 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 1321370006324 active site 1321370006325 dimerization interface [polypeptide binding]; other site 1321370006326 HemN family oxidoreductase; Provisional; Region: PRK05660 1321370006327 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 1321370006328 FeS/SAM binding site; other site 1321370006329 HemN C-terminal domain; Region: HemN_C; pfam06969 1321370006330 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 1321370006331 S-adenosylmethionine binding site [chemical binding]; other site 1321370006332 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 1321370006333 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 1321370006334 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1321370006335 ligand binding site [chemical binding]; other site 1321370006336 adenine DNA glycosylase; Provisional; Region: PRK10880 1321370006337 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 1321370006338 minor groove reading motif; other site 1321370006339 helix-hairpin-helix signature motif; other site 1321370006340 substrate binding pocket [chemical binding]; other site 1321370006341 active site 1321370006342 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 1321370006343 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 1321370006344 DNA binding and oxoG recognition site [nucleotide binding] 1321370006345 oxidative damage protection protein; Provisional; Region: PRK05408 1321370006346 gamma-glutamyl kinase; Provisional; Region: PRK05429 1321370006347 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 1321370006348 nucleotide binding site [chemical binding]; other site 1321370006349 homotetrameric interface [polypeptide binding]; other site 1321370006350 putative phosphate binding site [ion binding]; other site 1321370006351 putative allosteric binding site; other site 1321370006352 PUA domain; Region: PUA; pfam01472 1321370006353 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 1321370006354 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 1321370006355 putative catalytic cysteine [active] 1321370006356 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 1321370006357 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 1321370006358 3-deoxy-D-manno-octulosonic-acid kinase; Reviewed; Region: PRK01723 1321370006359 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1321370006360 active site 1321370006361 ATP binding site [chemical binding]; other site 1321370006362 Deoxyribodipyrimidine photo-lyase-related protein; Region: DPRP; pfam04244 1321370006363 Uncharacterized protein related to deoxyribodipyrimidine photolyase [General function prediction only]; Region: COG3046 1321370006364 outer membrane lipoprotein Blc; Provisional; Region: PRK10477 1321370006365 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 1321370006366 helicase 45; Provisional; Region: PTZ00424 1321370006367 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 1321370006368 ATP binding site [chemical binding]; other site 1321370006369 Mg++ binding site [ion binding]; other site 1321370006370 motif III; other site 1321370006371 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 1321370006372 nucleotide binding region [chemical binding]; other site 1321370006373 ATP-binding site [chemical binding]; other site 1321370006374 RNA recognition motif in Escherichia coli cold-shock DEAD box protein A (CsdA) and similar proteins; Region: RRM_EcCsdA_like; cd12499 1321370006375 putative RNA binding site [nucleotide binding]; other site 1321370006376 succinic semialdehyde dehydrogenase; Region: PLN02278 1321370006377 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 1321370006378 tetramerization interface [polypeptide binding]; other site 1321370006379 NAD(P) binding site [chemical binding]; other site 1321370006380 catalytic residues [active] 1321370006381 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 1321370006382 ALDH subfamily: Coniferyl aldehyde dehydrogenase, ALDH families 3, 13, and 14, and other related proteins; Region: ALDH_F3-13-14_CALDH-like; cd07087 1321370006383 NAD(P) binding site [chemical binding]; other site 1321370006384 catalytic residues [active] 1321370006385 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 1321370006386 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 1321370006387 Predicted ATPase [General function prediction only]; Region: COG1485 1321370006388 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 1321370006389 Walker A motif; other site 1321370006390 ATP binding site [chemical binding]; other site 1321370006391 Walker B motif; other site 1321370006392 arginine finger; other site 1321370006393 solute carrier 6 subfamily, Fusobacterium nucleatum Tyt1-like; solute-binding domain; Region: SLC6sbd_Tyt1-Like; cd10336 1321370006394 Na2 binding site [ion binding]; other site 1321370006395 putative substrate binding site 1 [chemical binding]; other site 1321370006396 Na binding site 1 [ion binding]; other site 1321370006397 putative substrate binding site 2 [chemical binding]; other site 1321370006398 Domain of unknown function (DUF1726); Region: DUF1726; pfam08351 1321370006399 Predicted P-loop ATPase fused to an acetyltransferase [General function prediction only]; Region: COG1444 1321370006400 Mitochondrial ribosomal death-associated protein 3; Region: DAP3; pfam10236 1321370006401 Helicase; Region: Helicase_RecD; pfam05127 1321370006402 GNAT acetyltransferase 2; Region: GNAT_acetyltr_2; pfam13718 1321370006403 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 1321370006404 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1321370006405 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 1321370006406 carboxynorspermidine decarboxylase; Region: nspC; TIGR01047 1321370006407 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Carboxynorspermidine Decarboxylase; Region: PLPDE_III_CANSDC; cd06829 1321370006408 dimer interface [polypeptide binding]; other site 1321370006409 active site 1321370006410 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1321370006411 catalytic residues [active] 1321370006412 substrate binding site [chemical binding]; other site 1321370006413 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 1321370006414 Sel1-like repeats; Region: SEL1; smart00671 1321370006415 Type III pantothenate kinase; Region: Pan_kinase; pfam03309 1321370006416 Biotin operon repressor [Transcription]; Region: BirA; COG1654 1321370006417 bifunctional biotin--[acetyl-CoA-carboxylase] synthetase/biotin operon repressor; Provisional; Region: PRK11886 1321370006418 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 1321370006419 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 1321370006420 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 1321370006421 FAD binding domain; Region: FAD_binding_4; pfam01565 1321370006422 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 1321370006423 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1321370006424 Na binding site [ion binding]; other site 1321370006425 PAS fold; Region: PAS_7; pfam12860 1321370006426 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1321370006427 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 1321370006428 dimer interface [polypeptide binding]; other site 1321370006429 phosphorylation site [posttranslational modification] 1321370006430 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 1321370006431 ATP binding site [chemical binding]; other site 1321370006432 Mg2+ binding site [ion binding]; other site 1321370006433 G-X-G motif; other site 1321370006434 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1321370006435 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370006436 active site 1321370006437 phosphorylation site [posttranslational modification] 1321370006438 intermolecular recognition site; other site 1321370006439 dimerization interface [polypeptide binding]; other site 1321370006440 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 1321370006441 DNA binding residues [nucleotide binding] 1321370006442 dimerization interface [polypeptide binding]; other site 1321370006443 acetyl-CoA synthetase; Provisional; Region: PRK00174 1321370006444 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 1321370006445 active site 1321370006446 CoA binding site [chemical binding]; other site 1321370006447 acyl-activating enzyme (AAE) consensus motif; other site 1321370006448 AMP binding site [chemical binding]; other site 1321370006449 acetate binding site [chemical binding]; other site 1321370006450 Porin subfamily; Region: Porin_2; pfam02530 1321370006451 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 1321370006452 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1321370006453 polyphosphate kinase; Provisional; Region: PRK05443 1321370006454 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 1321370006455 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 1321370006456 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 1321370006457 domain interface [polypeptide binding]; other site 1321370006458 active site 1321370006459 catalytic site [active] 1321370006460 Catalytic C-terminal domain, second repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C2_like; cd09167 1321370006461 domain interface [polypeptide binding]; other site 1321370006462 active site 1321370006463 catalytic site [active] 1321370006464 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 1321370006465 dimer interface [polypeptide binding]; other site 1321370006466 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 1321370006467 active site 1321370006468 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 1321370006469 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 1321370006470 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 1321370006471 generic binding surface II; other site 1321370006472 generic binding surface I; other site 1321370006473 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 1321370006474 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1321370006475 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 1321370006476 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 1321370006477 homodimer interface [polypeptide binding]; other site 1321370006478 substrate-cofactor binding pocket; other site 1321370006479 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370006480 catalytic residue [active] 1321370006481 mechanosensitive channel MscS; Provisional; Region: PRK10334 1321370006482 Conserved TM helix; Region: TM_helix; pfam05552 1321370006483 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1321370006484 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 1321370006485 Type II secretion system (T2SS), protein M; Region: T2SM; pfam04612 1321370006486 type II secretion system protein L; Region: typeII_sec_gspL; TIGR01709 1321370006487 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 1321370006488 GspL periplasmic domain; Region: GspL_C; cl14909 1321370006489 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 1321370006490 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 1321370006491 type II secretion system protein J; Region: gspJ; TIGR01711 1321370006492 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 1321370006493 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 1321370006494 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1321370006495 Type II transport protein GspH; Region: GspH; pfam12019 1321370006496 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 1321370006497 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 1321370006498 type II secretion system protein F; Region: GspF; TIGR02120 1321370006499 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1321370006500 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 1321370006501 type II secretion system protein E; Region: type_II_gspE; TIGR02533 1321370006502 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 1321370006503 Walker A motif; other site 1321370006504 ATP binding site [chemical binding]; other site 1321370006505 Walker B motif; other site 1321370006506 type II secretion system protein D; Region: type_II_gspD; TIGR02517 1321370006507 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1321370006508 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1321370006509 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1321370006510 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1321370006511 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 1321370006512 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 1321370006513 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 1321370006514 RNA binding surface [nucleotide binding]; other site 1321370006515 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 1321370006516 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 1321370006517 dimerization interface [polypeptide binding]; other site 1321370006518 domain crossover interface; other site 1321370006519 redox-dependent activation switch; other site 1321370006520 GTP-binding protein Der; Reviewed; Region: PRK00093 1321370006521 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 1321370006522 G1 box; other site 1321370006523 GTP/Mg2+ binding site [chemical binding]; other site 1321370006524 Switch I region; other site 1321370006525 G2 box; other site 1321370006526 Switch II region; other site 1321370006527 G3 box; other site 1321370006528 G4 box; other site 1321370006529 G5 box; other site 1321370006530 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 1321370006531 G1 box; other site 1321370006532 GTP/Mg2+ binding site [chemical binding]; other site 1321370006533 Switch I region; other site 1321370006534 G2 box; other site 1321370006535 G3 box; other site 1321370006536 Switch II region; other site 1321370006537 G4 box; other site 1321370006538 G5 box; other site 1321370006539 outer membrane biogenesis protein BamB; Provisional; Region: PRK11138 1321370006540 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 1321370006541 Trp docking motif [polypeptide binding]; other site 1321370006542 active site 1321370006543 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 1321370006544 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 1321370006545 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 1321370006546 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 1321370006547 dimer interface [polypeptide binding]; other site 1321370006548 motif 1; other site 1321370006549 active site 1321370006550 motif 2; other site 1321370006551 motif 3; other site 1321370006552 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 1321370006553 anticodon binding site; other site 1321370006554 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 1321370006555 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 1321370006556 cytoskeletal protein RodZ; Provisional; Region: PRK10856 1321370006557 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 1321370006558 non-specific DNA binding site [nucleotide binding]; other site 1321370006559 salt bridge; other site 1321370006560 sequence-specific DNA binding site [nucleotide binding]; other site 1321370006561 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 1321370006562 TPR repeat; Region: TPR_11; pfam13414 1321370006563 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 1321370006564 binding surface 1321370006565 TPR motif; other site 1321370006566 TPR repeat; Region: TPR_11; pfam13414 1321370006567 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 1321370006568 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 1321370006569 FeS/SAM binding site; other site 1321370006570 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 1321370006571 active site 1321370006572 multimer interface [polypeptide binding]; other site 1321370006573 methionine sulfoxide reductase A; Provisional; Region: PRK14054 1321370006574 cysteine desulfurase; Provisional; Region: PRK14012 1321370006575 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 1321370006576 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1321370006577 catalytic residue [active] 1321370006578 Transcriptional regulator; Region: Rrf2; cl17282 1321370006579 Rrf2 family protein; Region: rrf2_super; TIGR00738 1321370006580 tRNA (cytidine/uridine-2'-O-)-methyltransferase TrmJ; Provisional; Region: PRK15114 1321370006581 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 1321370006582 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 1321370006583 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 1321370006584 active site 1321370006585 dimerization interface [polypeptide binding]; other site 1321370006586 Protein of unknown function (DUF3545); Region: DUF3545; pfam12065 1321370006587 Nuclease-related domain; Region: NERD; pfam08378 1321370006588 Virulence protein RhuM family; Region: Virulence_RhuM; pfam13310 1321370006589 Fic/DOC family; Region: Fic; pfam02661 1321370006590 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1321370006591 Protein of unknown function (DUF2805); Region: DUF2805; pfam10985 1321370006592 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1321370006593 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 1321370006594 putative heme binding pocket [chemical binding]; other site 1321370006595 Protein of unknown function, DUF393; Region: DUF393; pfam04134 1321370006596 DNA ligase; Provisional; Region: PRK09125 1321370006597 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 1321370006598 DNA binding site [nucleotide binding] 1321370006599 active site 1321370006600 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 1321370006601 DNA binding site [nucleotide binding] 1321370006602 Plasmid maintenance system killer protein; Region: Plasmid_killer; pfam05015 1321370006603 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1321370006604 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 1321370006605 sequence-specific DNA binding site [nucleotide binding]; other site 1321370006606 salt bridge; other site 1321370006607 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1321370006608 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1321370006609 HlyD family secretion protein; Region: HlyD_3; pfam13437 1321370006610 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1321370006611 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 1321370006612 Walker A/P-loop; other site 1321370006613 ATP binding site [chemical binding]; other site 1321370006614 Q-loop/lid; other site 1321370006615 ABC transporter signature motif; other site 1321370006616 Walker B; other site 1321370006617 D-loop; other site 1321370006618 H-loop/switch region; other site 1321370006619 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1321370006620 FtsX-like permease family; Region: FtsX; pfam02687 1321370006621 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1321370006622 FtsX-like permease family; Region: FtsX; pfam02687 1321370006623 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1321370006624 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370006625 active site 1321370006626 phosphorylation site [posttranslational modification] 1321370006627 intermolecular recognition site; other site 1321370006628 dimerization interface [polypeptide binding]; other site 1321370006629 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 1321370006630 Walker A motif; other site 1321370006631 ATP binding site [chemical binding]; other site 1321370006632 Walker B motif; other site 1321370006633 arginine finger; other site 1321370006634 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1321370006635 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 1321370006636 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 1321370006637 ATP binding site [chemical binding]; other site 1321370006638 Mg2+ binding site [ion binding]; other site 1321370006639 G-X-G motif; other site 1321370006640 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 1321370006641 PAS domain; Region: PAS_9; pfam13426 1321370006642 putative active site [active] 1321370006643 heme pocket [chemical binding]; other site 1321370006644 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 1321370006645 PAS domain; Region: PAS_9; pfam13426 1321370006646 putative active site [active] 1321370006647 heme pocket [chemical binding]; other site 1321370006648 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1321370006649 dimer interface [polypeptide binding]; other site 1321370006650 putative CheW interface [polypeptide binding]; other site 1321370006651 diguanylate cyclase; Provisional; Region: PRK09894 1321370006652 MCP-signal associated domain; Region: MCPsignal_assoc; pfam13682 1321370006653 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370006654 metal binding site [ion binding]; metal-binding site 1321370006655 active site 1321370006656 I-site; other site 1321370006657 Protein of unknown function (DUF3423); Region: DUF3423; pfam11903 1321370006658 Cupin domain; Region: Cupin_2; cl17218 1321370006659 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1321370006660 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1321370006661 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 1321370006662 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1321370006663 catalytic residues [active] 1321370006664 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 1321370006665 Domain of unknown function (DUF4269); Region: DUF4269; pfam14091 1321370006666 Protein of unknown function (DUF1706); Region: DUF1706; pfam08020 1321370006667 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 1321370006668 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1321370006669 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 1321370006670 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 1321370006671 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1321370006672 Walker A/P-loop; other site 1321370006673 ATP binding site [chemical binding]; other site 1321370006674 Q-loop/lid; other site 1321370006675 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1321370006676 ABC transporter; Region: ABC_tran_2; pfam12848 1321370006677 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 1321370006678 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 1321370006679 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 1321370006680 ligand binding site [chemical binding]; other site 1321370006681 flexible hinge region; other site 1321370006682 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 1321370006683 dimer interface [polypeptide binding]; other site 1321370006684 FMN binding site [chemical binding]; other site 1321370006685 Protein of unknown function, DUF606; Region: DUF606; pfam04657 1321370006686 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 1321370006687 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1321370006688 Coenzyme A binding pocket [chemical binding]; other site 1321370006689 Haemolytic domain; Region: Haemolytic; pfam01809 1321370006690 HipA N-terminal domain; Region: Couple_hipA; pfam13657 1321370006691 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 1321370006692 HipA-like N-terminal domain; Region: HipA_N; pfam07805 1321370006693 HipA-like C-terminal domain; Region: HipA_C; pfam07804 1321370006694 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 1321370006695 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 1321370006696 non-specific DNA binding site [nucleotide binding]; other site 1321370006697 salt bridge; other site 1321370006698 sequence-specific DNA binding site [nucleotide binding]; other site 1321370006699 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 1321370006700 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1321370006701 AAA domain; Region: AAA_21; pfam13304 1321370006702 glycine dehydrogenase; Provisional; Region: PRK05367 1321370006703 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 1321370006704 tetramer interface [polypeptide binding]; other site 1321370006705 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370006706 catalytic residue [active] 1321370006707 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 1321370006708 tetramer interface [polypeptide binding]; other site 1321370006709 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370006710 catalytic residue [active] 1321370006711 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 1321370006712 lipoyl attachment site [posttranslational modification]; other site 1321370006713 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 1321370006714 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 1321370006715 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1321370006716 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1321370006717 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 1321370006718 dimerization interface [polypeptide binding]; other site 1321370006719 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1321370006720 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 1321370006721 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 1321370006722 2-polyprenyl-6-methoxyphenol 4-hydroxylase; Region: UbiH; TIGR01984 1321370006723 proline aminopeptidase P II; Provisional; Region: PRK10879 1321370006724 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 1321370006725 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 1321370006726 active site 1321370006727 Uncharacterized protein family (UPF0149); Region: UPF0149; cl01173 1321370006728 Cell division protein ZapA; Region: ZapA; cl01146 1321370006729 Amidohydrolase; Region: Amidohydro_5; pfam13594 1321370006730 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 1321370006731 Amidohydrolase; Region: Amidohydro_4; pfam13147 1321370006732 active site 1321370006733 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 1321370006734 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 1321370006735 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 1321370006736 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 1321370006737 tetramer (dimer of dimers) interface [polypeptide binding]; other site 1321370006738 active site 1321370006739 dimer interface [polypeptide binding]; other site 1321370006740 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 1321370006741 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 1321370006742 ligand binding site [chemical binding]; other site 1321370006743 NAD binding site [chemical binding]; other site 1321370006744 tetramer interface [polypeptide binding]; other site 1321370006745 catalytic site [active] 1321370006746 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 1321370006747 L-serine binding site [chemical binding]; other site 1321370006748 ACT domain interface; other site 1321370006749 transcriptional regulator PhoU; Provisional; Region: PRK11115 1321370006750 PhoU domain; Region: PhoU; pfam01895 1321370006751 PhoU domain; Region: PhoU; pfam01895 1321370006752 phosphate transporter ATP-binding protein; Provisional; Region: PRK14236 1321370006753 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 1321370006754 Walker A/P-loop; other site 1321370006755 ATP binding site [chemical binding]; other site 1321370006756 Q-loop/lid; other site 1321370006757 ABC transporter signature motif; other site 1321370006758 Walker B; other site 1321370006759 D-loop; other site 1321370006760 H-loop/switch region; other site 1321370006761 ABC-type phosphate transport system, auxiliary component [Inorganic ion transport and metabolism]; Region: COG4985 1321370006762 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 1321370006763 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 1321370006764 dimer interface [polypeptide binding]; other site 1321370006765 conserved gate region; other site 1321370006766 putative PBP binding loops; other site 1321370006767 ABC-ATPase subunit interface; other site 1321370006768 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4590 1321370006769 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 1321370006770 dimer interface [polypeptide binding]; other site 1321370006771 conserved gate region; other site 1321370006772 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 1321370006773 ABC-ATPase subunit interface; other site 1321370006774 PBP superfamily domain; Region: PBP_like_2; cl17296 1321370006775 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 1321370006776 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 1321370006777 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 1321370006778 dimer interface [polypeptide binding]; other site 1321370006779 phosphorylation site [posttranslational modification] 1321370006780 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 1321370006781 ATP binding site [chemical binding]; other site 1321370006782 Mg2+ binding site [ion binding]; other site 1321370006783 G-X-G motif; other site 1321370006784 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 1321370006785 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370006786 active site 1321370006787 phosphorylation site [posttranslational modification] 1321370006788 intermolecular recognition site; other site 1321370006789 dimerization interface [polypeptide binding]; other site 1321370006790 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 1321370006791 DNA binding site [nucleotide binding] 1321370006792 Predicted permeases [General function prediction only]; Region: COG0679 1321370006793 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 1321370006794 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 1321370006795 trimer interface [polypeptide binding]; other site 1321370006796 eyelet of channel; other site 1321370006797 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 1321370006798 binding surface 1321370006799 TPR motif; other site 1321370006800 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 1321370006801 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 1321370006802 binding surface 1321370006803 TPR motif; other site 1321370006804 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 1321370006805 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 1321370006806 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 1321370006807 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 1321370006808 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1321370006809 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; pfam01618 1321370006810 Protein of unknown function (DUF3450); Region: DUF3450; pfam11932 1321370006811 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 1321370006812 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 1321370006813 ATP binding site [chemical binding]; other site 1321370006814 Mg2+ binding site [ion binding]; other site 1321370006815 G-X-G motif; other site 1321370006816 recombination associated protein; Reviewed; Region: rdgC; PRK00321 1321370006817 HDOD domain; Region: HDOD; pfam08668 1321370006818 Nudix hydrolase homolog; Region: PLN02791 1321370006819 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 1321370006820 Low molecular weight phosphatase family; Region: LMWPc; cd00115 1321370006821 active site 1321370006822 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 1321370006823 dimerization interface [polypeptide binding]; other site 1321370006824 putative DNA binding site [nucleotide binding]; other site 1321370006825 putative Zn2+ binding site [ion binding]; other site 1321370006826 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 1321370006827 Sodium Bile acid symporter family; Region: SBF; cl17470 1321370006828 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK08955 1321370006829 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1321370006830 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1321370006831 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1321370006832 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 1321370006833 Predicted flavoprotein [General function prediction only]; Region: COG0431 1321370006834 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1321370006835 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 1321370006836 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 1321370006837 Sulfate transporter family; Region: Sulfate_transp; pfam00916 1321370006838 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 1321370006839 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 1321370006840 Ligand Binding Site [chemical binding]; other site 1321370006841 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 1321370006842 Ligand Binding Site [chemical binding]; other site 1321370006843 helicase 45; Provisional; Region: PTZ00424 1321370006844 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 1321370006845 ATP binding site [chemical binding]; other site 1321370006846 putative Mg++ binding site [ion binding]; other site 1321370006847 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 1321370006848 nucleotide binding region [chemical binding]; other site 1321370006849 ATP-binding site [chemical binding]; other site 1321370006850 Predicted integral membrane protein [Function unknown]; Region: COG5652 1321370006851 tRNA s(4)U8 sulfurtransferase; Provisional; Region: PRK01269 1321370006852 THUMP domain of thiamine biosynthesis protein ThiI; Region: THUMP_ThiI; cd11716 1321370006853 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 1321370006854 Ligand Binding Site [chemical binding]; other site 1321370006855 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 1321370006856 active site residue [active] 1321370006857 Membrane MotB of proton-channel complex MotA/MotB; Region: MotB_plug; pfam13677 1321370006858 flagellar motor protein MotB; Reviewed; Region: motB; PRK08944 1321370006859 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 1321370006860 ligand binding site [chemical binding]; other site 1321370006861 flagellar motor protein PomA; Reviewed; Region: PRK08990 1321370006862 Flagellar motor component [Cell motility and secretion]; Region: MotA; COG1291 1321370006863 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 1321370006864 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 1321370006865 substrate binding pocket [chemical binding]; other site 1321370006866 chain length determination region; other site 1321370006867 substrate-Mg2+ binding site; other site 1321370006868 catalytic residues [active] 1321370006869 aspartate-rich region 1; other site 1321370006870 active site lid residues [active] 1321370006871 aspartate-rich region 2; other site 1321370006872 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 1321370006873 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 1321370006874 TPP-binding site; other site 1321370006875 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 1321370006876 PYR/PP interface [polypeptide binding]; other site 1321370006877 dimer interface [polypeptide binding]; other site 1321370006878 TPP binding site [chemical binding]; other site 1321370006879 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1321370006880 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 1321370006881 tetramer interfaces [polypeptide binding]; other site 1321370006882 binuclear metal-binding site [ion binding]; other site 1321370006883 thiamine monophosphate kinase; Provisional; Region: PRK05731 1321370006884 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 1321370006885 ATP binding site [chemical binding]; other site 1321370006886 dimerization interface [polypeptide binding]; other site 1321370006887 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 1321370006888 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 1321370006889 homopentamer interface [polypeptide binding]; other site 1321370006890 active site 1321370006891 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1321370006892 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 1321370006893 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1321370006894 putative acyl-acceptor binding pocket; other site 1321370006895 Protein of unknown function (DUF3014); Region: DUF3014; pfam11219 1321370006896 hypothetical protein; Validated; Region: PRK02101 1321370006897 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 1321370006898 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1321370006899 Protein export membrane protein; Region: SecD_SecF; pfam02355 1321370006900 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 1321370006901 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 1321370006902 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 1321370006903 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 1321370006904 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 1321370006905 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 1321370006906 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 1321370006907 Walker A motif; other site 1321370006908 ATP binding site [chemical binding]; other site 1321370006909 Walker B motif; other site 1321370006910 arginine finger; other site 1321370006911 Predicted membrane protein [Function unknown]; Region: COG2860 1321370006912 UPF0126 domain; Region: UPF0126; pfam03458 1321370006913 UPF0126 domain; Region: UPF0126; pfam03458 1321370006914 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 1321370006915 Na binding site [ion binding]; other site 1321370006916 PAS fold; Region: PAS_7; pfam12860 1321370006917 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1321370006918 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 1321370006919 dimer interface [polypeptide binding]; other site 1321370006920 phosphorylation site [posttranslational modification] 1321370006921 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 1321370006922 ATP binding site [chemical binding]; other site 1321370006923 Mg2+ binding site [ion binding]; other site 1321370006924 G-X-G motif; other site 1321370006925 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1321370006926 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370006927 active site 1321370006928 phosphorylation site [posttranslational modification] 1321370006929 intermolecular recognition site; other site 1321370006930 dimerization interface [polypeptide binding]; other site 1321370006931 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 1321370006932 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370006933 active site 1321370006934 phosphorylation site [posttranslational modification] 1321370006935 intermolecular recognition site; other site 1321370006936 dimerization interface [polypeptide binding]; other site 1321370006937 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 1321370006938 DNA binding residues [nucleotide binding] 1321370006939 dimerization interface [polypeptide binding]; other site 1321370006940 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1321370006941 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 1321370006942 N-terminal plug; other site 1321370006943 ligand-binding site [chemical binding]; other site 1321370006944 Citrate transporter; Region: CitMHS; pfam03600 1321370006945 fructuronate transporter; Provisional; Region: PRK10034; cl15264 1321370006946 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 1321370006947 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 1321370006948 dimer interface [polypeptide binding]; other site 1321370006949 acyl-activating enzyme (AAE) consensus motif; other site 1321370006950 putative active site [active] 1321370006951 AMP binding site [chemical binding]; other site 1321370006952 putative CoA binding site [chemical binding]; other site 1321370006953 homoserine O-acetyltransferase; Provisional; Region: PRK06765 1321370006954 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1321370006955 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 1321370006956 TIGR03545 family protein; Region: TIGR03545 1321370006957 TIGR03546 family protein; Region: TIGR03546 1321370006958 RimK-like ATPgrasp N-terminal domain; Region: RLAN; pfam14401 1321370006959 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 1321370006960 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1321370006961 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 1321370006962 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1321370006963 Coenzyme A binding pocket [chemical binding]; other site 1321370006964 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 1321370006965 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1321370006966 active site 1321370006967 catalytic site [active] 1321370006968 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 1321370006969 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 1321370006970 dimer interface [polypeptide binding]; other site 1321370006971 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370006972 catalytic residue [active] 1321370006973 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 1321370006974 Nitrogen regulatory protein P-II; Region: P-II; smart00938 1321370006975 probable ammonium transporter, marine subtype; Region: marine_trans_1; TIGR03644 1321370006976 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 1321370006977 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 1321370006978 S-adenosylmethionine binding site [chemical binding]; other site 1321370006979 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 1321370006980 Domain of unknown function DUF20; Region: UPF0118; pfam01594 1321370006981 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370006982 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 1321370006983 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 1321370006984 PAS fold; Region: PAS_3; pfam08447 1321370006985 putative active site [active] 1321370006986 heme pocket [chemical binding]; other site 1321370006987 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370006988 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370006989 metal binding site [ion binding]; metal-binding site 1321370006990 active site 1321370006991 I-site; other site 1321370006992 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 1321370006993 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 1321370006994 putative active site pocket [active] 1321370006995 dimerization interface [polypeptide binding]; other site 1321370006996 putative catalytic residue [active] 1321370006997 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1321370006998 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1321370006999 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1321370007000 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1321370007001 dimer interface [polypeptide binding]; other site 1321370007002 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 1321370007003 putative CheW interface [polypeptide binding]; other site 1321370007004 Protein of unknown function (DUF962); Region: DUF962; cl01879 1321370007005 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1321370007006 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1321370007007 PhoD-like phosphatase; Region: PhoD; pfam09423 1321370007008 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 1321370007009 putative active site [active] 1321370007010 putative metal binding site [ion binding]; other site 1321370007011 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 1321370007012 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1321370007013 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 1321370007014 N-terminal plug; other site 1321370007015 ligand-binding site [chemical binding]; other site 1321370007016 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1321370007017 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1321370007018 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 1321370007019 kynureninase; Region: kynureninase; TIGR01814 1321370007020 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1321370007021 catalytic residue [active] 1321370007022 Bacterial protein of unknown function (DUF945); Region: DUF945; pfam06097 1321370007023 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5339 1321370007024 YcaO domain protein; Region: TIGR03549 1321370007025 OsmC-like protein; Region: OsmC; pfam02566 1321370007026 YcaO-like family; Region: YcaO; pfam02624 1321370007027 chromosome segregation protein SMC, primarily archaeal type; Region: SMC_prok_A; TIGR02169 1321370007028 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 1321370007029 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 1321370007030 PEGA domain; Region: PEGA; pfam08308 1321370007031 PEGA domain; Region: PEGA; pfam08308 1321370007032 Uncharacterized conserved protein [Function unknown]; Region: COG1262 1321370007033 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 1321370007034 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 1321370007035 TPR motif; other site 1321370007036 binding surface 1321370007037 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1321370007038 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1321370007039 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 1321370007040 putative effector binding pocket; other site 1321370007041 dimerization interface [polypeptide binding]; other site 1321370007042 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 1321370007043 EamA-like transporter family; Region: EamA; pfam00892 1321370007044 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 1321370007045 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1321370007046 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1321370007047 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 1321370007048 substrate binding pocket [chemical binding]; other site 1321370007049 dimerization interface [polypeptide binding]; other site 1321370007050 Beta protein; Region: Beta_protein; pfam14350 1321370007051 Domain of unknown function (DUF955); Region: DUF955; pfam06114 1321370007052 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1321370007053 Histidine kinase-like ATPases; Region: HATPase_c; smart00387 1321370007054 ATP binding site [chemical binding]; other site 1321370007055 G-X-G motif; other site 1321370007056 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 1321370007057 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 1321370007058 active site 1321370007059 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 1321370007060 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 1321370007061 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 1321370007062 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 1321370007063 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1321370007064 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 1321370007065 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 1321370007066 DNA binding residues [nucleotide binding] 1321370007067 DNA primase; Validated; Region: dnaG; PRK05667 1321370007068 CHC2 zinc finger; Region: zf-CHC2; pfam01807 1321370007069 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 1321370007070 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 1321370007071 active site 1321370007072 metal binding site [ion binding]; metal-binding site 1321370007073 interdomain interaction site; other site 1321370007074 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 1321370007075 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; pfam08278 1321370007076 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 1321370007077 Tyrosine kinase, catalytic domain; Region: TyrKc; smart00219 1321370007078 Catalytic domain of Protein Kinases; Region: PKc; cd00180 1321370007079 active site 1321370007080 ATP binding site [chemical binding]; other site 1321370007081 substrate binding site [chemical binding]; other site 1321370007082 activation loop (A-loop); other site 1321370007083 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 1321370007084 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 1321370007085 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 1321370007086 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 1321370007087 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1321370007088 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 1321370007089 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 1321370007090 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 1321370007091 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1321370007092 dimer interface [polypeptide binding]; other site 1321370007093 putative CheW interface [polypeptide binding]; other site 1321370007094 Protein of unknown function, DUF481; Region: DUF481; pfam04338 1321370007095 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 1321370007096 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 1321370007097 intersubunit interface [polypeptide binding]; other site 1321370007098 active site 1321370007099 zinc binding site [ion binding]; other site 1321370007100 Na+ binding site [ion binding]; other site 1321370007101 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 1321370007102 Phosphoglycerate kinase; Region: PGK; pfam00162 1321370007103 substrate binding site [chemical binding]; other site 1321370007104 hinge regions; other site 1321370007105 ADP binding site [chemical binding]; other site 1321370007106 catalytic site [active] 1321370007107 erythrose 4-phosphate dehydrogenase; Provisional; Region: PRK13535 1321370007108 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 1321370007109 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 1321370007110 transketolase; Reviewed; Region: PRK12753 1321370007111 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 1321370007112 TPP-binding site [chemical binding]; other site 1321370007113 dimer interface [polypeptide binding]; other site 1321370007114 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 1321370007115 PYR/PP interface [polypeptide binding]; other site 1321370007116 dimer interface [polypeptide binding]; other site 1321370007117 TPP binding site [chemical binding]; other site 1321370007118 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 1321370007119 S-adenosylmethionine synthetase; Validated; Region: PRK05250 1321370007120 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 1321370007121 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 1321370007122 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 1321370007123 RNA methyltransferase, RsmE family; Region: TIGR00046 1321370007124 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 1321370007125 glutathione synthetase; Provisional; Region: PRK05246 1321370007126 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 1321370007127 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 1321370007128 hypothetical protein; Validated; Region: PRK00228 1321370007129 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 1321370007130 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 1321370007131 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 1321370007132 putative active site [active] 1321370007133 PhoH-like protein; Region: PhoH; pfam02562 1321370007134 ATP-dependent helicase HepA; Validated; Region: PRK04914 1321370007135 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 1321370007136 ATP binding site [chemical binding]; other site 1321370007137 putative Mg++ binding site [ion binding]; other site 1321370007138 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 1321370007139 nucleotide binding region [chemical binding]; other site 1321370007140 ATP-binding site [chemical binding]; other site 1321370007141 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 1321370007142 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 1321370007143 active site 1321370007144 Protein of unknown function (DUF3530); Region: DUF3530; pfam12048 1321370007145 Dna-J like membrane chaperone protein; Provisional; Region: djlA; PRK09430 1321370007146 N-terminal tellurium resistance protein terB-like domain of heat shock DnaJ-like proteins; Region: terB_like_DjlA; cd07316 1321370007147 putative metal binding site [ion binding]; other site 1321370007148 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 1321370007149 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 1321370007150 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 1321370007151 Substrate binding site; other site 1321370007152 metal-binding site 1321370007153 Phosphotransferase enzyme family; Region: APH; pfam01636 1321370007154 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1321370007155 substrate binding site [chemical binding]; other site 1321370007156 LPS assembly outer membrane complex protein LptD; Provisional; Region: PRK03761 1321370007157 Organic solvent tolerance protein; Region: OstA_C; pfam04453 1321370007158 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 1321370007159 SurA N-terminal domain; Region: SurA_N; pfam09312 1321370007160 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 1321370007161 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 1321370007162 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 1321370007163 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 1321370007164 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 1321370007165 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 1321370007166 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 1321370007167 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 1321370007168 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 1321370007169 active site 1321370007170 metal binding site [ion binding]; metal-binding site 1321370007171 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1321370007172 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 1321370007173 dimerization interface [polypeptide binding]; other site 1321370007174 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1321370007175 dimer interface [polypeptide binding]; other site 1321370007176 putative CheW interface [polypeptide binding]; other site 1321370007177 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 1321370007178 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 1321370007179 active site 1321370007180 HIGH motif; other site 1321370007181 dimer interface [polypeptide binding]; other site 1321370007182 KMSKS motif; other site 1321370007183 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 1321370007184 RNA binding surface [nucleotide binding]; other site 1321370007185 putative peptidase; Provisional; Region: PRK11649 1321370007186 Opacity-associated protein A LysM-like domain; Region: OapA; pfam04225 1321370007187 Peptidase family M23; Region: Peptidase_M23; pfam01551 1321370007188 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 1321370007189 proline dipeptidase; Provisional; Region: PRK13607 1321370007190 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 1321370007191 active site 1321370007192 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 1321370007193 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 1321370007194 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 1321370007195 Cl- selectivity filter; other site 1321370007196 Cl- binding residues [ion binding]; other site 1321370007197 pore gating glutamate residue; other site 1321370007198 dimer interface [polypeptide binding]; other site 1321370007199 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 1321370007200 aspartate carbamoyltransferase; Provisional; Region: PRK08192 1321370007201 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 1321370007202 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 1321370007203 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 1321370007204 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 1321370007205 inhibitor-cofactor binding pocket; inhibition site 1321370007206 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370007207 catalytic residue [active] 1321370007208 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 1321370007209 Transglycosylase; Region: Transgly; pfam00912 1321370007210 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1321370007211 ATP-dependent RNA helicase HrpB; Provisional; Region: PRK11664 1321370007212 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 1321370007213 ATP binding site [chemical binding]; other site 1321370007214 putative Mg++ binding site [ion binding]; other site 1321370007215 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 1321370007216 nucleotide binding region [chemical binding]; other site 1321370007217 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 1321370007218 aminopeptidase B; Provisional; Region: PRK05015 1321370007219 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 1321370007220 interface (dimer of trimers) [polypeptide binding]; other site 1321370007221 Substrate-binding/catalytic site; other site 1321370007222 Zn-binding sites [ion binding]; other site 1321370007223 putative DNA-binding transcriptional regulator; Reviewed; Region: PRK00347 1321370007224 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 1321370007225 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 1321370007226 active site 1321370007227 HIGH motif; other site 1321370007228 nucleotide binding site [chemical binding]; other site 1321370007229 active site 1321370007230 KMSKS motif; other site 1321370007231 Poly A polymerase head domain; Region: PolyA_pol; pfam01743 1321370007232 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 1321370007233 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 1321370007234 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 1321370007235 catalytic center binding site [active] 1321370007236 ATP binding site [chemical binding]; other site 1321370007237 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 1321370007238 oligomerization interface [polypeptide binding]; other site 1321370007239 active site 1321370007240 metal binding site [ion binding]; metal-binding site 1321370007241 pantoate--beta-alanine ligase; Region: panC; TIGR00018 1321370007242 Pantoate-beta-alanine ligase; Region: PanC; cd00560 1321370007243 active site 1321370007244 ATP-binding site [chemical binding]; other site 1321370007245 pantoate-binding site; other site 1321370007246 HXXH motif; other site 1321370007247 putative pyridoxal-dependent aspartate 1-decarboxylase; Region: NOD_PanD_pyr; TIGR03799 1321370007248 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1321370007249 catalytic residue [active] 1321370007250 Putative methyltransferase; Region: Methyltransf_4; cl17290 1321370007251 inner membrane transport permease; Provisional; Region: PRK15066 1321370007252 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1321370007253 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1321370007254 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1321370007255 Walker A/P-loop; other site 1321370007256 ATP binding site [chemical binding]; other site 1321370007257 Q-loop/lid; other site 1321370007258 ABC transporter signature motif; other site 1321370007259 Walker B; other site 1321370007260 D-loop; other site 1321370007261 H-loop/switch region; other site 1321370007262 aromatic acid decarboxylase; Validated; Region: PRK05920 1321370007263 Flavoprotein; Region: Flavoprotein; pfam02441 1321370007264 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 1321370007265 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 1321370007266 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1321370007267 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 1321370007268 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 1321370007269 AMP binding site [chemical binding]; other site 1321370007270 metal binding site [ion binding]; metal-binding site 1321370007271 active site 1321370007272 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 1321370007273 dimer interface [polypeptide binding]; other site 1321370007274 substrate binding site [chemical binding]; other site 1321370007275 metal binding sites [ion binding]; metal-binding site 1321370007276 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 1321370007277 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 1321370007278 Walker A/P-loop; other site 1321370007279 ATP binding site [chemical binding]; other site 1321370007280 Q-loop/lid; other site 1321370007281 ABC transporter signature motif; other site 1321370007282 Walker B; other site 1321370007283 D-loop; other site 1321370007284 H-loop/switch region; other site 1321370007285 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 1321370007286 FtsX-like permease family; Region: FtsX; pfam02687 1321370007287 Protein of unknown function (DUF3299); Region: DUF3299; pfam11736 1321370007288 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 1321370007289 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370007290 active site 1321370007291 phosphorylation site [posttranslational modification] 1321370007292 intermolecular recognition site; other site 1321370007293 Domain of unknown function (DUF3369); Region: DUF3369; pfam11849 1321370007294 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370007295 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370007296 metal binding site [ion binding]; metal-binding site 1321370007297 active site 1321370007298 I-site; other site 1321370007299 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 1321370007300 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 1321370007301 Protein of unknown function (DUF461); Region: DUF461; pfam04314 1321370007302 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 1321370007303 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 1321370007304 N-terminal plug; other site 1321370007305 ligand-binding site [chemical binding]; other site 1321370007306 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1321370007307 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1321370007308 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1321370007309 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 1321370007310 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 1321370007311 S-adenosylmethionine binding site [chemical binding]; other site 1321370007312 MerC mercury resistance protein; Region: MerC; pfam03203 1321370007313 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 1321370007314 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 1321370007315 motif 1; other site 1321370007316 dimer interface [polypeptide binding]; other site 1321370007317 active site 1321370007318 motif 2; other site 1321370007319 motif 3; other site 1321370007320 elongation factor P; Validated; Region: PRK00529 1321370007321 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 1321370007322 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 1321370007323 RNA binding site [nucleotide binding]; other site 1321370007324 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 1321370007325 RNA binding site [nucleotide binding]; other site 1321370007326 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 1321370007327 Radical SAM superfamily; Region: Radical_SAM; pfam04055 1321370007328 FeS/SAM binding site; other site 1321370007329 Protein of unknown function (DUF3016); Region: DUF3016; pfam11454 1321370007330 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 1321370007331 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 1321370007332 ring oligomerisation interface [polypeptide binding]; other site 1321370007333 ATP/Mg binding site [chemical binding]; other site 1321370007334 stacking interactions; other site 1321370007335 hinge regions; other site 1321370007336 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 1321370007337 oligomerisation interface [polypeptide binding]; other site 1321370007338 mobile loop; other site 1321370007339 roof hairpin; other site 1321370007340 CutA1 divalent ion tolerance protein; Region: CutA1; pfam03091 1321370007341 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 1321370007342 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 1321370007343 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 1321370007344 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 1321370007345 DsbD alpha interface [polypeptide binding]; other site 1321370007346 catalytic residues [active] 1321370007347 Dehydroquinase class II; Region: DHquinase_II; pfam01220 1321370007348 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 1321370007349 active site 1321370007350 trimer interface [polypeptide binding]; other site 1321370007351 dimer interface [polypeptide binding]; other site 1321370007352 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 1321370007353 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 1321370007354 carboxyltransferase (CT) interaction site; other site 1321370007355 biotinylation site [posttranslational modification]; other site 1321370007356 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 1321370007357 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 1321370007358 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 1321370007359 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 1321370007360 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 1321370007361 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 1321370007362 S-adenosylmethionine binding site [chemical binding]; other site 1321370007363 tRNA-dihydrouridine synthase B; Provisional; Region: PRK10415 1321370007364 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 1321370007365 FMN binding site [chemical binding]; other site 1321370007366 active site 1321370007367 catalytic residues [active] 1321370007368 substrate binding site [chemical binding]; other site 1321370007369 Factor for inversion stimulation Fis, transcriptional activator [Transcription / DNA replication, recombination, and repair]; Region: Fis; COG2901 1321370007370 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1321370007371 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 1321370007372 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 1321370007373 purine monophosphate binding site [chemical binding]; other site 1321370007374 dimer interface [polypeptide binding]; other site 1321370007375 putative catalytic residues [active] 1321370007376 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 1321370007377 Predicted methyltransferase [General function prediction only]; Region: COG4798 1321370007378 Methyltransferase domain; Region: Methyltransf_23; pfam13489 1321370007379 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 1321370007380 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 1321370007381 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 1321370007382 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 1321370007383 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 1321370007384 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the GGDEF (DiGuanylate-Cyclase (DGC)) domain. The GGDEF domain has been suggested to be homologous to the adenylyl cyclase catalytic domain and...; Region: CBS_pair_GGDEF_assoc; cd04598 1321370007385 FOG: CBS domain [General function prediction only]; Region: COG0517 1321370007386 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370007387 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370007388 metal binding site [ion binding]; metal-binding site 1321370007389 active site 1321370007390 I-site; other site 1321370007391 hypothetical protein; Provisional; Region: PRK11027 1321370007392 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 1321370007393 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 1321370007394 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 1321370007395 Acetyl-CoA hydrolase [Energy production and conversion]; Region: ACH1; COG0427 1321370007396 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 1321370007397 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 1321370007398 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1321370007399 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 1321370007400 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 1321370007401 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 1321370007402 putative active site [active] 1321370007403 Zn binding site [ion binding]; other site 1321370007404 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 1321370007405 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 1321370007406 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 1321370007407 catalytic site [active] 1321370007408 putative active site [active] 1321370007409 putative substrate binding site [chemical binding]; other site 1321370007410 dimer interface [polypeptide binding]; other site 1321370007411 GTPase RsgA; Reviewed; Region: PRK12288 1321370007412 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 1321370007413 RNA binding site [nucleotide binding]; other site 1321370007414 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 1321370007415 GTPase/Zn-binding domain interface [polypeptide binding]; other site 1321370007416 GTP/Mg2+ binding site [chemical binding]; other site 1321370007417 G4 box; other site 1321370007418 G5 box; other site 1321370007419 G1 box; other site 1321370007420 Switch I region; other site 1321370007421 G2 box; other site 1321370007422 G3 box; other site 1321370007423 Switch II region; other site 1321370007424 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 1321370007425 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 1321370007426 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 1321370007427 active site 1321370007428 catalytic site [active] 1321370007429 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 1321370007430 Protein export membrane protein; Region: SecD_SecF; cl14618 1321370007431 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 1321370007432 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1321370007433 HlyD family secretion protein; Region: HlyD_3; pfam13437 1321370007434 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 1321370007435 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 1321370007436 substrate binding site [chemical binding]; other site 1321370007437 active site 1321370007438 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 1321370007439 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 1321370007440 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 1321370007441 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 1321370007442 putative NADH binding site [chemical binding]; other site 1321370007443 putative active site [active] 1321370007444 nudix motif; other site 1321370007445 putative metal binding site [ion binding]; other site 1321370007446 Regulator of RNA polymerase sigma(70) subunit, Rsd/AlgQ; Region: Rsd_AlgQ; pfam04353 1321370007447 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 1321370007448 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 1321370007449 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 1321370007450 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 1321370007451 FOG: WD40 repeat [General function prediction only]; Region: COG2319 1321370007452 structural tetrad; other site 1321370007453 SlyX; Region: SlyX; pfam04102 1321370007454 phosphoribulokinase; Provisional; Region: PRK15453 1321370007455 active site 1321370007456 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 1321370007457 OsmC-like protein; Region: OsmC; cl00767 1321370007458 Protein of unknown function (DUF3802); Region: DUF3802; pfam12290 1321370007459 succinylglutamic semialdehyde dehydrogenase; Region: arg_catab_astD; TIGR03240 1321370007460 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 1321370007461 NAD(P) binding site [chemical binding]; other site 1321370007462 catalytic residues [active] 1321370007463 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 1321370007464 arginine N-succinyltransferase; Region: arg_catab_AstA; TIGR03244 1321370007465 bifunctional N-succinyldiaminopimelate-aminotransferase/acetylornithine transaminase protein; Reviewed; Region: argD; PRK05093 1321370007466 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 1321370007467 inhibitor-cofactor binding pocket; inhibition site 1321370007468 pyridoxal 5'-phosphate binding site [chemical binding]; other site 1321370007469 catalytic residue [active] 1321370007470 Flagellar protein YcgR; Region: YcgR_2; pfam12945 1321370007471 PilZ domain; Region: PilZ; pfam07238 1321370007472 HDOD domain; Region: HDOD; pfam08668 1321370007473 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; smart00471 1321370007474 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 1321370007475 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 1321370007476 glutamine binding [chemical binding]; other site 1321370007477 catalytic triad [active] 1321370007478 PAS domain; Region: PAS_9; pfam13426 1321370007479 PAS domain S-box; Region: sensory_box; TIGR00229 1321370007480 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 1321370007481 putative active site [active] 1321370007482 heme pocket [chemical binding]; other site 1321370007483 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370007484 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370007485 metal binding site [ion binding]; metal-binding site 1321370007486 active site 1321370007487 I-site; other site 1321370007488 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 1321370007489 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 1321370007490 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 1321370007491 active site 1321370007492 HIGH motif; other site 1321370007493 dimer interface [polypeptide binding]; other site 1321370007494 KMSKS motif; other site 1321370007495 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 1321370007496 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 1321370007497 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 1321370007498 substrate binding site [chemical binding]; other site 1321370007499 hexamer interface [polypeptide binding]; other site 1321370007500 metal binding site [ion binding]; metal-binding site 1321370007501 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 1321370007502 oligopeptidase A; Provisional; Region: PRK10911 1321370007503 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 1321370007504 active site 1321370007505 Zn binding site [ion binding]; other site 1321370007506 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 1321370007507 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1321370007508 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 1321370007509 glutathione reductase; Validated; Region: PRK06116 1321370007510 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 1321370007511 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 1321370007512 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 1321370007513 Pirin-related protein [General function prediction only]; Region: COG1741 1321370007514 Pirin; Region: Pirin; pfam02678 1321370007515 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 1321370007516 hypothetical protein; Provisional; Region: PRK02237 1321370007517 protease3; Provisional; Region: PRK15101 1321370007518 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 1321370007519 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1321370007520 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 1321370007521 Peptidase family M1; Region: Peptidase_M1; pfam01433 1321370007522 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 1321370007523 Zn binding site [ion binding]; other site 1321370007524 glutamate dehydrogenase; Provisional; Region: PRK09414 1321370007525 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 1321370007526 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 1321370007527 NAD(P) binding site [chemical binding]; other site 1321370007528 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 1321370007529 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 1321370007530 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370007531 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370007532 metal binding site [ion binding]; metal-binding site 1321370007533 active site 1321370007534 I-site; other site 1321370007535 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 1321370007536 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1321370007537 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 1321370007538 dimer interface [polypeptide binding]; other site 1321370007539 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1321370007540 catalytic triad [active] 1321370007541 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 1321370007542 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 1321370007543 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 1321370007544 dimerization interface [polypeptide binding]; other site 1321370007545 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 1321370007546 dimer interface [polypeptide binding]; other site 1321370007547 putative CheW interface [polypeptide binding]; other site 1321370007548 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1321370007549 GAF domain; Region: GAF; pfam01590 1321370007550 PAS domain S-box; Region: sensory_box; TIGR00229 1321370007551 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 1321370007552 putative active site [active] 1321370007553 heme pocket [chemical binding]; other site 1321370007554 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370007555 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370007556 metal binding site [ion binding]; metal-binding site 1321370007557 active site 1321370007558 I-site; other site 1321370007559 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 1321370007560 Protein of unknown function (DUF3121); Region: DUF3121; cl11879 1321370007561 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 1321370007562 catalytic motif [active] 1321370007563 Catalytic residue [active] 1321370007564 ferrochelatase; Reviewed; Region: hemH; PRK00035 1321370007565 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 1321370007566 C-terminal domain interface [polypeptide binding]; other site 1321370007567 active site 1321370007568 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 1321370007569 active site 1321370007570 N-terminal domain interface [polypeptide binding]; other site 1321370007571 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 1321370007572 Domain of unknown function DUF21; Region: DUF21; pfam01595 1321370007573 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 1321370007574 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 1321370007575 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 1321370007576 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 1321370007577 active site residue [active] 1321370007578 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 1321370007579 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 1321370007580 dimerization interface [polypeptide binding]; other site 1321370007581 DPS ferroxidase diiron center [ion binding]; other site 1321370007582 ion pore; other site 1321370007583 Protein of unknown function (DUF3185); Region: DUF3185; pfam11381 1321370007584 Phosphotransferase enzyme family; Region: APH; pfam01636 1321370007585 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs)...; Region: APH_ChoK_like; cd05120 1321370007586 active site 1321370007587 substrate binding site [chemical binding]; other site 1321370007588 ATP binding site [chemical binding]; other site 1321370007589 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 1321370007590 Domain of unknown function DUF77; Region: DUF77; cl00307 1321370007591 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1321370007592 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 1321370007593 FMN reductase; Validated; Region: fre; PRK08051 1321370007594 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 1321370007595 FAD binding pocket [chemical binding]; other site 1321370007596 FAD binding motif [chemical binding]; other site 1321370007597 phosphate binding motif [ion binding]; other site 1321370007598 beta-alpha-beta structure motif; other site 1321370007599 NAD binding pocket [chemical binding]; other site 1321370007600 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Region: UbiD; cl00311 1321370007601 transcription termination factor Rho; Provisional; Region: rho; PRK09376 1321370007602 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 1321370007603 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 1321370007604 RNA binding site [nucleotide binding]; other site 1321370007605 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 1321370007606 multimer interface [polypeptide binding]; other site 1321370007607 Walker A motif; other site 1321370007608 ATP binding site [chemical binding]; other site 1321370007609 Walker B motif; other site 1321370007610 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 1321370007611 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 1321370007612 catalytic residues [active] 1321370007613 ATP-dependent RNA helicase RhlB; Provisional; Region: PRK04837 1321370007614 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 1321370007615 ATP binding site [chemical binding]; other site 1321370007616 Mg++ binding site [ion binding]; other site 1321370007617 motif III; other site 1321370007618 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 1321370007619 nucleotide binding region [chemical binding]; other site 1321370007620 ATP-binding site [chemical binding]; other site 1321370007621 exopolyphosphatase; Region: exo_poly_only; TIGR03706 1321370007622 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 1321370007623 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 1321370007624 dimer interface [polypeptide binding]; other site 1321370007625 active site 1321370007626 aspartate-rich active site metal binding site; other site 1321370007627 allosteric magnesium binding site [ion binding]; other site 1321370007628 Schiff base residues; other site 1321370007629 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1321370007630 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 1321370007631 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 1321370007632 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370007633 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370007634 metal binding site [ion binding]; metal-binding site 1321370007635 active site 1321370007636 I-site; other site 1321370007637 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 1321370007638 active site 1321370007639 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 1321370007640 sec-independent translocase; Provisional; Region: PRK01770 1321370007641 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 1321370007642 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 1321370007643 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 1321370007644 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 1321370007645 SCP-2 sterol transfer family; Region: SCP2; pfam02036 1321370007646 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 1321370007647 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 1321370007648 S-adenosylmethionine binding site [chemical binding]; other site 1321370007649 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 1321370007650 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 1321370007651 ssDNA binding site; other site 1321370007652 generic binding surface II; other site 1321370007653 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 1321370007654 ATP binding site [chemical binding]; other site 1321370007655 putative Mg++ binding site [ion binding]; other site 1321370007656 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 1321370007657 nucleotide binding region [chemical binding]; other site 1321370007658 ATP-binding site [chemical binding]; other site 1321370007659 tRNA guanosine-2'-O-methyltransferase; Provisional; Region: PRK11081 1321370007660 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 1321370007661 SpoU, rRNA methylase, C-terminal; Region: SpoU_methylas_C; pfam12105 1321370007662 Predicted signal transduction protein containing EAL and modified HD-GYP domains [Signal transduction mechanisms]; Region: COG3434 1321370007663 EAL domain; Region: EAL; pfam00563 1321370007664 Predicted amidohydrolase [General function prediction only]; Region: COG0388 1321370007665 Uncharacterized subgroup of the nitrilase superfamily; some members of this subgroup have an N-terminal RimI domain (class 12 nitrilases); Region: nitrilase_Rim1_like; cd07574 1321370007666 putative active site [active] 1321370007667 catalytic triad [active] 1321370007668 putative dimer interface [polypeptide binding]; other site 1321370007669 Na+/H+ antiporter family; Region: Na_H_antiporter; pfam03553 1321370007670 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 1321370007671 homotrimer interaction site [polypeptide binding]; other site 1321370007672 putative active site [active] 1321370007673 bifunctional (p)ppGpp synthetase II/ guanosine-3',5'-bis pyrophosphate 3'-pyrophosphohydrolase; Provisional; Region: PRK11092 1321370007674 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1321370007675 Zn2+ binding site [ion binding]; other site 1321370007676 Mg2+ binding site [ion binding]; other site 1321370007677 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 1321370007678 synthetase active site [active] 1321370007679 NTP binding site [chemical binding]; other site 1321370007680 metal binding site [ion binding]; metal-binding site 1321370007681 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 1321370007682 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 1321370007683 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 1321370007684 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 1321370007685 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 1321370007686 catalytic site [active] 1321370007687 G-X2-G-X-G-K; other site 1321370007688 putative cyanate transporter; Provisional; Region: cynX; PRK09705 1321370007689 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 1321370007690 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 1321370007691 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1321370007692 PAS fold; Region: PAS; pfam00989 1321370007693 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 1321370007694 putative active site [active] 1321370007695 heme pocket [chemical binding]; other site 1321370007696 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1321370007697 acyl-activating enzyme (AAE) consensus motif; other site 1321370007698 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 1321370007699 AMP binding site [chemical binding]; other site 1321370007700 active site 1321370007701 acyl-activating enzyme (AAE) consensus motif; other site 1321370007702 CoA binding site [chemical binding]; other site 1321370007703 PAS domain S-box; Region: sensory_box; TIGR00229 1321370007704 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 1321370007705 putative active site [active] 1321370007706 heme pocket [chemical binding]; other site 1321370007707 PAS fold; Region: PAS_3; pfam08447 1321370007708 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370007709 metal binding site [ion binding]; metal-binding site 1321370007710 active site 1321370007711 I-site; other site 1321370007712 BCCT family transporter; Region: BCCT; pfam02028 1321370007713 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 1321370007714 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 1321370007715 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 1321370007716 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 1321370007717 active site 1321370007718 Transcriptional regulator; Region: Rrf2; cl17282 1321370007719 Rrf2 family protein; Region: rrf2_super; TIGR00738 1321370007720 Membrane-bound lysozyme-inhibitor of c-type lysozyme; Region: MliC; pfam09864 1321370007721 Predicted membrane protein [Function unknown]; Region: COG3650 1321370007722 META domain; Region: META; pfam03724 1321370007723 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1321370007724 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 1321370007725 N-terminal plug; other site 1321370007726 ligand-binding site [chemical binding]; other site 1321370007727 ATP-grasp domain; Region: ATP-grasp_4; cl17255 1321370007728 amino acid transporter; Region: 2A0306; TIGR00909 1321370007729 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1321370007730 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 1321370007731 transmembrane helices; other site 1321370007732 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 1321370007733 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 1321370007734 PhnA protein; Region: PhnA; pfam03831 1321370007735 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 1321370007736 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 1321370007737 Protein of unknown function (DUF4199); Region: DUF4199; pfam13858 1321370007738 poly-gamma-glutamate synthase PgsB/CapB; Region: poly_gGlu_PgsB; TIGR04012 1321370007739 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 1321370007740 Capsule biosynthesis CapC; Region: Caps_synth_CapC; cl14855 1321370007741 poly-gamma-glutamate system protein; Region: gamma_Glu_sys; TIGR04332 1321370007742 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 1321370007743 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 1321370007744 HlyD family secretion protein; Region: HlyD_3; pfam13437 1321370007745 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1321370007746 ABC transporter, ATP-binding subunit, PQQ-dependent alcohol dehydrogenase system; Region: PQQ_ABC_ATP; TIGR03864 1321370007747 Walker A/P-loop; other site 1321370007748 ATP binding site [chemical binding]; other site 1321370007749 Q-loop/lid; other site 1321370007750 ABC transporter signature motif; other site 1321370007751 Walker B; other site 1321370007752 D-loop; other site 1321370007753 H-loop/switch region; other site 1321370007754 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 1321370007755 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 1321370007756 Walker A/P-loop; other site 1321370007757 ATP binding site [chemical binding]; other site 1321370007758 Q-loop/lid; other site 1321370007759 ABC transporter signature motif; other site 1321370007760 Walker B; other site 1321370007761 D-loop; other site 1321370007762 H-loop/switch region; other site 1321370007763 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 1321370007764 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1321370007765 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1321370007766 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 1321370007767 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 1321370007768 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 1321370007769 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 1321370007770 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 1321370007771 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1321370007772 Coenzyme A binding pocket [chemical binding]; other site 1321370007773 Major Facilitator Superfamily; Region: MFS_1; pfam07690 1321370007774 Uncharacterized protein family UPF0047; Region: UPF0047; pfam01894 1321370007775 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 1321370007776 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 1321370007777 Uncharacterized protein conserved in bacteria (DUF2256); Region: DUF2256; pfam10013 1321370007778 PAS domain S-box; Region: sensory_box; TIGR00229 1321370007779 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 1321370007780 putative active site [active] 1321370007781 heme pocket [chemical binding]; other site 1321370007782 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370007783 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370007784 metal binding site [ion binding]; metal-binding site 1321370007785 active site 1321370007786 I-site; other site 1321370007787 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1321370007788 Fic family protein [Function unknown]; Region: COG3177 1321370007789 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 1321370007790 Fic/DOC family; Region: Fic; pfam02661 1321370007791 Lysine efflux permease [General function prediction only]; Region: COG1279 1321370007792 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 1321370007793 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 1321370007794 non-specific DNA binding site [nucleotide binding]; other site 1321370007795 salt bridge; other site 1321370007796 sequence-specific DNA binding site [nucleotide binding]; other site 1321370007797 Cupin domain; Region: Cupin_2; pfam07883 1321370007798 DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins; Region: ERI-1_3'hExo_like; cd06133 1321370007799 active site 1321370007800 catalytic site [active] 1321370007801 substrate binding site [chemical binding]; other site 1321370007802 hypothetical protein; Provisional; Region: PRK11820 1321370007803 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 1321370007804 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 1321370007805 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 1321370007806 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 1321370007807 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 1321370007808 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 1321370007809 DNA binding residues [nucleotide binding] 1321370007810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 1321370007811 Smr domain; Region: Smr; pfam01713 1321370007812 ribonuclease PH; Reviewed; Region: rph; PRK00173 1321370007813 Ribonuclease PH; Region: RNase_PH_bact; cd11362 1321370007814 hexamer interface [polypeptide binding]; other site 1321370007815 active site 1321370007816 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 1321370007817 active site 1321370007818 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1321370007819 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1321370007820 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1321370007821 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 1321370007822 proposed catalytic triad [active] 1321370007823 active site nucleophile [active] 1321370007824 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 1321370007825 Cation efflux family; Region: Cation_efflux; cl00316 1321370007826 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1321370007827 lysophospholipase L2; Provisional; Region: PRK10749 1321370007828 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 1321370007829 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1321370007830 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 1321370007831 dimerization interface [polypeptide binding]; other site 1321370007832 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 1321370007833 dimer interface [polypeptide binding]; other site 1321370007834 phosphorylation site [posttranslational modification] 1321370007835 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 1321370007836 ATP binding site [chemical binding]; other site 1321370007837 Mg2+ binding site [ion binding]; other site 1321370007838 G-X-G motif; other site 1321370007839 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 1321370007840 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370007841 active site 1321370007842 phosphorylation site [posttranslational modification] 1321370007843 intermolecular recognition site; other site 1321370007844 dimerization interface [polypeptide binding]; other site 1321370007845 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 1321370007846 DNA binding site [nucleotide binding] 1321370007847 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 1321370007848 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370007849 active site 1321370007850 phosphorylation site [posttranslational modification] 1321370007851 intermolecular recognition site; other site 1321370007852 dimerization interface [polypeptide binding]; other site 1321370007853 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 1321370007854 Walker A motif; other site 1321370007855 ATP binding site [chemical binding]; other site 1321370007856 Walker B motif; other site 1321370007857 arginine finger; other site 1321370007858 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 1321370007859 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 1321370007860 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 1321370007861 dimer interface [polypeptide binding]; other site 1321370007862 phosphorylation site [posttranslational modification] 1321370007863 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 1321370007864 ATP binding site [chemical binding]; other site 1321370007865 Mg2+ binding site [ion binding]; other site 1321370007866 G-X-G motif; other site 1321370007867 glutamine synthetase; Provisional; Region: glnA; PRK09469 1321370007868 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 1321370007869 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 1321370007870 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 1321370007871 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 1321370007872 G1 box; other site 1321370007873 putative GEF interaction site [polypeptide binding]; other site 1321370007874 GTP/Mg2+ binding site [chemical binding]; other site 1321370007875 Switch I region; other site 1321370007876 G2 box; other site 1321370007877 G3 box; other site 1321370007878 Switch II region; other site 1321370007879 G4 box; other site 1321370007880 G5 box; other site 1321370007881 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 1321370007882 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 1321370007883 Haemolysin-III related; Region: HlyIII; cl03831 1321370007884 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 1321370007885 Protein of unknown function (DUF3081); Region: DUF3081; pfam11280 1321370007886 DNA-binding transcriptional repressor AcrR; Provisional; Region: PRK10668 1321370007887 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 1321370007888 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 1321370007889 MgtC family; Region: MgtC; pfam02308 1321370007890 Predicted flavoprotein [General function prediction only]; Region: COG0431 1321370007891 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 1321370007892 Protein of unknown function (DUF2959); Region: DUF2959; pfam11172 1321370007893 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 1321370007894 NADP binding site [chemical binding]; other site 1321370007895 C factor cell-cell signaling protein; Provisional; Region: PRK09009 1321370007896 homodimer interface [polypeptide binding]; other site 1321370007897 active site 1321370007898 hypothetical protein; Reviewed; Region: PRK01637 1321370007899 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 1321370007900 putative active site [active] 1321370007901 dimerization interface [polypeptide binding]; other site 1321370007902 putative tRNAtyr binding site [nucleotide binding]; other site 1321370007903 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 1321370007904 Coenzyme A binding pocket [chemical binding]; other site 1321370007905 Putative thioesterase (yiiD_Cterm); Region: YiiD_Cterm; pfam09500 1321370007906 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 1321370007907 active sites [active] 1321370007908 tetramer interface [polypeptide binding]; other site 1321370007909 urocanate hydratase; Provisional; Region: PRK05414 1321370007910 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 1321370007911 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 1321370007912 DNA-binding site [nucleotide binding]; DNA binding site 1321370007913 UTRA domain; Region: UTRA; pfam07702 1321370007914 imidazolonepropionase; Validated; Region: PRK09356 1321370007915 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 1321370007916 active site 1321370007917 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 1321370007918 putative active site [active] 1321370007919 putative metal binding site [ion binding]; other site 1321370007920 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 1321370007921 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370007922 metal binding site [ion binding]; metal-binding site 1321370007923 active site 1321370007924 I-site; other site 1321370007925 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 1321370007926 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 1321370007927 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 1321370007928 Walker A motif; other site 1321370007929 ATP binding site [chemical binding]; other site 1321370007930 AAA domain (Cdc48 subfamily); Region: AAA_2; pfam07724 1321370007931 Walker B motif; other site 1321370007932 arginine finger; other site 1321370007933 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 1321370007934 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 1321370007935 active site 1321370007936 HslU subunit interaction site [polypeptide binding]; other site 1321370007937 Sporulation related domain; Region: SPOR; pfam05036 1321370007938 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 1321370007939 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 1321370007940 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 1321370007941 active site 1321370007942 HIGH motif; other site 1321370007943 KMSK motif region; other site 1321370007944 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 1321370007945 tRNA binding surface [nucleotide binding]; other site 1321370007946 anticodon binding site; other site 1321370007947 primosome assembly protein PriA; Validated; Region: PRK05580 1321370007948 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 1321370007949 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 1321370007950 ATP binding site [chemical binding]; other site 1321370007951 putative Mg++ binding site [ion binding]; other site 1321370007952 helicase superfamily c-terminal domain; Region: HELICc; smart00490 1321370007953 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 1321370007954 Malic enzyme, N-terminal domain; Region: malic; pfam00390 1321370007955 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 1321370007956 putative NAD(P) binding site [chemical binding]; other site 1321370007957 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1321370007958 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1321370007959 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1321370007960 transcriptional repressor protein MetJ; Provisional; Region: PRK05264 1321370007961 dimerization interface [polypeptide binding]; other site 1321370007962 DNA binding site [nucleotide binding] 1321370007963 corepressor binding sites; other site 1321370007964 bifunctional aspartate kinase II/homoserine dehydrogenase II; Provisional; Region: metL; PRK09466 1321370007965 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 1321370007966 putative catalytic residues [active] 1321370007967 putative nucleotide binding site [chemical binding]; other site 1321370007968 putative aspartate binding site [chemical binding]; other site 1321370007969 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 1321370007970 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 1321370007971 penicillin-binding protein 1a; Provisional; Region: mrcA; PRK11636 1321370007972 Transglycosylase; Region: Transgly; pfam00912 1321370007973 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 1321370007974 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 1321370007975 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 1321370007976 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 1321370007977 shikimate kinase; Reviewed; Region: aroK; PRK00131 1321370007978 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 1321370007979 ADP binding site [chemical binding]; other site 1321370007980 magnesium binding site [ion binding]; other site 1321370007981 putative shikimate binding site; other site 1321370007982 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 1321370007983 active site 1321370007984 dimer interface [polypeptide binding]; other site 1321370007985 metal binding site [ion binding]; metal-binding site 1321370007986 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 1321370007987 AAA domain; Region: AAA_22; pfam13401 1321370007988 Walker A motif; other site 1321370007989 ATP binding site [chemical binding]; other site 1321370007990 Walker B motif; other site 1321370007991 cell division protein DamX; Validated; Region: PRK10905 1321370007992 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 1321370007993 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 1321370007994 Coenzyme A binding pocket [chemical binding]; other site 1321370007995 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 1321370007996 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 1321370007997 catalytic triad [active] 1321370007998 dimer interface [polypeptide binding]; other site 1321370007999 Predicted flavoproteins [General function prediction only]; Region: COG2081 1321370008000 hydroxyglutarate oxidase; Provisional; Region: PRK11728 1321370008001 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1321370008002 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 1321370008003 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 1321370008004 AsnC family; Region: AsnC_trans_reg; pfam01037 1321370008005 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 1321370008006 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 1321370008007 putative substrate translocation pore; other site 1321370008008 Cytosine deaminase and related metal-dependent hydrolases [Nucleotide transport and metabolism / General function prediction only]; Region: SsnA; COG0402 1321370008009 Amidohydrolase; Region: Amidohydro_5; pfam13594 1321370008010 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 1321370008011 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 1321370008012 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1321370008013 Helix-turn-helix domain; Region: HTH_18; pfam12833 1321370008014 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 1321370008015 Uncharacterized conserved protein [Function unknown]; Region: COG2128 1321370008016 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 1321370008017 PAS fold; Region: PAS_4; pfam08448 1321370008018 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 1321370008019 putative active site [active] 1321370008020 heme pocket [chemical binding]; other site 1321370008021 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1321370008022 GAF domain; Region: GAF; pfam01590 1321370008023 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370008024 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370008025 metal binding site [ion binding]; metal-binding site 1321370008026 active site 1321370008027 I-site; other site 1321370008028 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 1321370008029 N-terminal plug; other site 1321370008030 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 1321370008031 ligand-binding site [chemical binding]; other site 1321370008032 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 1321370008033 dimerization interface [polypeptide binding]; other site 1321370008034 substrate binding site [chemical binding]; other site 1321370008035 active site 1321370008036 calcium binding site [ion binding]; other site 1321370008037 enterobactin receptor protein; Provisional; Region: PRK13483 1321370008038 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 1321370008039 N-terminal plug; other site 1321370008040 ligand-binding site [chemical binding]; other site 1321370008041 Transcriptional regulator [Transcription]; Region: LysR; COG0583 1321370008042 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1321370008043 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 1321370008044 putative effector binding pocket; other site 1321370008045 dimerization interface [polypeptide binding]; other site 1321370008046 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 1321370008047 NADH(P)-binding; Region: NAD_binding_10; pfam13460 1321370008048 NAD(P) binding site [chemical binding]; other site 1321370008049 putative active site [active] 1321370008050 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 1321370008051 DNA-binding site [nucleotide binding]; DNA binding site 1321370008052 RNA-binding motif; other site 1321370008053 PAS fold; Region: PAS_4; pfam08448 1321370008054 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 1321370008055 putative active site [active] 1321370008056 heme pocket [chemical binding]; other site 1321370008057 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1321370008058 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 1321370008059 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370008060 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370008061 metal binding site [ion binding]; metal-binding site 1321370008062 active site 1321370008063 I-site; other site 1321370008064 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 1321370008065 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 1321370008066 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1321370008067 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 1321370008068 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1321370008069 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 1321370008070 putative uracil binding site [chemical binding]; other site 1321370008071 putative active site [active] 1321370008072 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 1321370008073 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 1321370008074 active site 1321370008075 nucleophile elbow; other site 1321370008076 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 1321370008077 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 1321370008078 FAD binding pocket [chemical binding]; other site 1321370008079 FAD binding motif [chemical binding]; other site 1321370008080 phosphate binding motif [ion binding]; other site 1321370008081 beta-alpha-beta structure motif; other site 1321370008082 NAD binding pocket [chemical binding]; other site 1321370008083 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3295 1321370008084 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 1321370008085 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 1321370008086 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 1321370008087 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 1321370008088 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 1321370008089 transmembrane helices; other site 1321370008090 TrkA-C domain; Region: TrkA_C; pfam02080 1321370008091 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 1321370008092 TrkA-C domain; Region: TrkA_C; pfam02080 1321370008093 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 1321370008094 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 1321370008095 Protein of unknown function, DUF482; Region: DUF482; pfam04339 1321370008096 Protein of unknown function (DUF2442); Region: DUF2442; pfam10387 1321370008097 Domain of unknown function (DUF4160); Region: DUF4160; pfam13711 1321370008098 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 1321370008099 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 1321370008100 S-adenosylmethionine binding site [chemical binding]; other site 1321370008101 Peptidase S46; Region: Peptidase_S46; pfam10459 1321370008102 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 1321370008103 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 1321370008104 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 1321370008105 N-terminal plug; other site 1321370008106 ligand-binding site [chemical binding]; other site 1321370008107 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 1321370008108 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 1321370008109 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 1321370008110 ferrous iron transport protein B; Reviewed; Region: feoB; PRK09554 1321370008111 ferrichrome receptor precursor protein; Provisional; Region: PRK14050 1321370008112 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 1321370008113 N-terminal plug; other site 1321370008114 ligand-binding site [chemical binding]; other site 1321370008115 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 1321370008116 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 1321370008117 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 1321370008118 oligomeric interface; other site 1321370008119 putative active site [active] 1321370008120 homodimer interface [polypeptide binding]; other site 1321370008121 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 1321370008122 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK05318 1321370008123 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 1321370008124 Zn2+ binding site [ion binding]; other site 1321370008125 Mg2+ binding site [ion binding]; other site 1321370008126 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 1321370008127 Plasmid maintenance system killer protein [General function prediction only]; Region: HigB; COG3549 1321370008128 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 1321370008129 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 1321370008130 sequence-specific DNA binding site [nucleotide binding]; other site 1321370008131 salt bridge; other site 1321370008132 putative toxin YafO; Provisional; Region: PRK09885 1321370008133 putative antitoxin of the YafO-YafN toxin-antitoxin system; Provisional; Region: PRK09778 1321370008134 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 1321370008135 Very Short Patch Repair (Vsr) Endonuclease. Endonucleases in DNA repair that recognize damaged DNA and cleave the phosphodiester backbone. Vsr endonucleases have a common endonuclease topology that has been tailored for recognition of TG mismatches; Region: Vsr; cd00221 1321370008136 additional DNA contacts [nucleotide binding]; other site 1321370008137 mismatch recognition site; other site 1321370008138 active site 1321370008139 zinc binding site [ion binding]; other site 1321370008140 DNA intercalation site [nucleotide binding]; other site 1321370008141 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 1321370008142 non-specific DNA binding site [nucleotide binding]; other site 1321370008143 salt bridge; other site 1321370008144 sequence-specific DNA binding site [nucleotide binding]; other site 1321370008145 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 1321370008146 DNA-methyltransferase (dcm); Region: dcm; TIGR00675 1321370008147 cofactor binding site; other site 1321370008148 DNA binding site [nucleotide binding] 1321370008149 substrate interaction site [chemical binding]; other site 1321370008150 Restriction endonuclease MspI; Region: Endonuc-MspI; pfam09208 1321370008151 exonuclease V subunit alpha; Provisional; Region: recD; PRK10875 1321370008152 AAA domain; Region: AAA_30; pfam13604 1321370008153 Family description; Region: UvrD_C_2; pfam13538 1321370008154 exonuclease V subunit beta; Provisional; Region: recB; PRK10876 1321370008155 Part of AAA domain; Region: AAA_19; pfam13245 1321370008156 Family description; Region: UvrD_C_2; pfam13538 1321370008157 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 1321370008158 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 1321370008159 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 1321370008160 active site 1321370008161 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 1321370008162 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 1321370008163 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 1321370008164 GAF domain; Region: GAF; pfam01590 1321370008165 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370008166 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370008167 metal binding site [ion binding]; metal-binding site 1321370008168 active site 1321370008169 I-site; other site 1321370008170 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 1321370008171 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 1321370008172 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 1321370008173 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 1321370008174 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 1321370008175 catalytic residue [active] 1321370008176 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 1321370008177 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 1321370008178 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 1321370008179 Walker A/P-loop; other site 1321370008180 ATP binding site [chemical binding]; other site 1321370008181 Q-loop/lid; other site 1321370008182 ABC transporter signature motif; other site 1321370008183 Walker B; other site 1321370008184 D-loop; other site 1321370008185 H-loop/switch region; other site 1321370008186 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1321370008187 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1321370008188 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 1321370008189 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 1321370008190 putative dimer interface [polypeptide binding]; other site 1321370008191 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 1321370008192 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 1321370008193 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 1321370008194 metal binding site [ion binding]; metal-binding site 1321370008195 active site 1321370008196 I-site; other site 1321370008197 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 1321370008198 Protein of unknown function (DUF3630); Region: DUF3630; pfam12305 1321370008199 ATP-dependent DNA helicase RecQ; Provisional; Region: PRK11057 1321370008200 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 1321370008201 ATP binding site [chemical binding]; other site 1321370008202 putative Mg++ binding site [ion binding]; other site 1321370008203 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 1321370008204 nucleotide binding region [chemical binding]; other site 1321370008205 ATP-binding site [chemical binding]; other site 1321370008206 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 1321370008207 HRDC domain; Region: HRDC; pfam00570 1321370008208 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 1321370008209 CoenzymeA binding site [chemical binding]; other site 1321370008210 subunit interaction site [polypeptide binding]; other site 1321370008211 PHB binding site; other site 1321370008212 putative chloramphenical resistance permease RarD; Provisional; Region: PRK15430 1321370008213 peroxiredoxin, OsmC subfamily; Region: osmo_induc_OsmC; TIGR03562 1321370008214 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 1321370008215 Part of AAA domain; Region: AAA_19; pfam13245 1321370008216 Family description; Region: UvrD_C_2; pfam13538 1321370008217 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 1321370008218 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 1321370008219 motif II; other site 1321370008220 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 1321370008221 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 1321370008222 active site 1321370008223 DNA binding site [nucleotide binding] 1321370008224 Int/Topo IB signature motif; other site 1321370008225 Protein of unknown function, DUF484; Region: DUF484; cl17449 1321370008226 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 1321370008227 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1321370008228 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 1321370008229 diaminopimelate decarboxylase; Region: lysA; TIGR01048 1321370008230 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 1321370008231 active site 1321370008232 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 1321370008233 substrate binding site [chemical binding]; other site 1321370008234 catalytic residues [active] 1321370008235 dimer interface [polypeptide binding]; other site 1321370008236 Prokaryotic lipoprotein-attachment site; Region: LPAM_2; cl02361 1321370008237 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 1321370008238 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 1321370008239 domain interfaces; other site 1321370008240 active site 1321370008241 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 1321370008242 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 1321370008243 active site 1321370008244 putative uroporphyrinogen III C-methyltransferase; Provisional; Region: PRK10920 1321370008245 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 1321370008246 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 1321370008247 TPR motif; other site 1321370008248 binding surface 1321370008249 hypothetical protein; Provisional; Region: PRK03757 1321370008250 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 1321370008251 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 1321370008252 Transposase; Region: DEDD_Tnp_IS110; pfam01548 1321370008253 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 1321370008254 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 1321370008255 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 1321370008256 trimer interface [polypeptide binding]; other site 1321370008257 putative metal binding site [ion binding]; other site 1321370008258 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 1321370008259 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 1321370008260 putative active site [active] 1321370008261 putative PHP Thumb interface [polypeptide binding]; other site 1321370008262 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 1321370008263 generic binding surface II; other site 1321370008264 generic binding surface I; other site 1321370008265 DNA Polymerase Y-family; Region: PolY_like; cd03468 1321370008266 active site 1321370008267 DNA binding site [nucleotide binding] 1321370008268 Cell division inhibitor SulA; Region: SulA; cl01880 1321370008269 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 1321370008270 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 1321370008271 putative acyl-acceptor binding pocket; other site 1321370008272 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 1321370008273 Mechanosensitive ion channel; Region: MS_channel; pfam00924 1321370008274 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 1321370008275 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 1321370008276 catalytic residues [active] 1321370008277 hinge region; other site 1321370008278 alpha helical domain; other site 1321370008279 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 1321370008280 serine/threonine protein kinase; Provisional; Region: PRK11768 1321370008281 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 1321370008282 4Fe-4S binding domain; Region: Fer4_5; pfam12801 1321370008283 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 1321370008284 allantoate amidohydrolase; Reviewed; Region: PRK09290 1321370008285 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 1321370008286 active site 1321370008287 metal binding site [ion binding]; metal-binding site 1321370008288 dimer interface [polypeptide binding]; other site 1321370008289 alkylhydroperoxidase, AhpD family; Region: ahpD; TIGR00777 1321370008290 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 1321370008291 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 1321370008292 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 1321370008293 dimer interface [polypeptide binding]; other site 1321370008294 decamer (pentamer of dimers) interface [polypeptide binding]; other site 1321370008295 catalytic triad [active] 1321370008296 peroxidatic and resolving cysteines [active] 1321370008297 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 1321370008298 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 1321370008299 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 1321370008300 dimerization interface [polypeptide binding]; other site 1321370008301 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 1321370008302 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 1321370008303 active site 1321370008304 FMN binding site [chemical binding]; other site 1321370008305 substrate binding site [chemical binding]; other site 1321370008306 3Fe-4S cluster binding site [ion binding]; other site 1321370008307 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 1321370008308 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 1321370008309 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 1321370008310 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1321370008311 N-terminal plug; other site 1321370008312 ligand-binding site [chemical binding]; other site 1321370008313 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 1321370008314 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 1321370008315 potential catalytic triad [active] 1321370008316 conserved cys residue [active] 1321370008317 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 1321370008318 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 1321370008319 active site 1321370008320 phosphorylation site [posttranslational modification] 1321370008321 intermolecular recognition site; other site 1321370008322 dimerization interface [polypeptide binding]; other site 1321370008323 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 1321370008324 Walker A motif; other site 1321370008325 ATP binding site [chemical binding]; other site 1321370008326 Walker B motif; other site 1321370008327 arginine finger; other site 1321370008328 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 1321370008329 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1321370008330 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 1321370008331 dimerization interface [polypeptide binding]; other site 1321370008332 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 1321370008333 dimer interface [polypeptide binding]; other site 1321370008334 phosphorylation site [posttranslational modification] 1321370008335 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 1321370008336 ATP binding site [chemical binding]; other site 1321370008337 G-X-G motif; other site 1321370008338 Domain of unknown function (DUF4168); Region: DUF4168; pfam13767 1321370008339 acetolactate synthase; Reviewed; Region: PRK08322 1321370008340 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 1321370008341 PYR/PP interface [polypeptide binding]; other site 1321370008342 dimer interface [polypeptide binding]; other site 1321370008343 TPP binding site [chemical binding]; other site 1321370008344 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 1321370008345 Thiamine pyrophosphate (TPP) family, Acetolactate synthase (ALS) subfamily, TPP-binding module; composed of proteins similar to Klebsiella pneumoniae ALS, a catabolic enzyme required for butanediol fermentation. ALS catalyzes the conversion of 2...; Region: TPP_ALS; cd02010 1321370008346 TPP-binding site [chemical binding]; other site 1321370008347 dimer interface [polypeptide binding]; other site 1321370008348 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 1321370008349 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 1321370008350 C-terminal domain interface [polypeptide binding]; other site 1321370008351 GSH binding site (G-site) [chemical binding]; other site 1321370008352 dimer interface [polypeptide binding]; other site 1321370008353 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 1321370008354 N-terminal domain interface [polypeptide binding]; other site 1321370008355 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 1321370008356 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 1321370008357 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 1321370008358 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 1321370008359 N-terminal plug; other site 1321370008360 ligand-binding site [chemical binding]; other site 1321370008361 Predicted membrane protein [Function unknown]; Region: COG3503 1321370008362 MerC mercury resistance protein; Region: MerC; pfam03203 1321370008363 Predicted permease; Region: DUF318; cl17795 1321370008364 phosphoglycerate transporter family protein; Region: 2A0104; TIGR00881 1321370008365 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 1321370008366 DeoR-like helix-turn-helix domain; Region: HTH_DeoR; pfam08220 1321370008367 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 1321370008368 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 1321370008369 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 1321370008370 Phospholipase C [Cell envelope biogenesis, outer membrane]; Region: PlcC; COG3511 1321370008371 Phosphoesterase family; Region: Phosphoesterase; pfam04185 1321370008372 Domain of unknown function (DUF756); Region: DUF756; pfam05506 1321370008373 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 1321370008374 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 1321370008375 TM1410 hypothetical-related protein; Region: DUF297; pfam03537 1321370008376 Mu-like prophage protein Com; Region: Mu-like_Com; cl11540 1321370008377 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 1321370008378 Peptidase family M23; Region: Peptidase_M23; pfam01551 1321370008379 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 1321370008380 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 1321370008381 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 1321370008382 ATP binding site [chemical binding]; other site 1321370008383 Mg2+ binding site [ion binding]; other site 1321370008384 G-X-G motif; other site 1321370008385 Methyltransferase domain; Region: Methyltransf_26; pfam13659 1321370008386 TniQ; Region: TniQ; pfam06527 1321370008387 AAA ATPase domain; Region: AAA_16; pfam13191 1321370008388 AAA domain; Region: AAA_22; pfam13401 1321370008389 Walker A motif; other site 1321370008390 ATP binding site [chemical binding]; other site 1321370008391 Walker B motif; other site 1321370008392 Tn7 transposition regulator TnsC; Region: Tn7_TnsC_Int; pfam11426 1321370008393 Integrase core domain; Region: rve; pfam00665 1321370008394 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 1321370008395 TnsA endonuclease C terminal; Region: Tn7_Tnp_TnsA_C; pfam08721 1321370008396 Helix-turn-helix domain; Region: HTH_37; pfam13744 1321370008397 sequence-specific DNA binding site [nucleotide binding]; other site 1321370008398 salt bridge; other site 1321370008399 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 1321370008400 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 1321370008401 glutaminase active site [active] 1321370008402 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 1321370008403 dimer interface [polypeptide binding]; other site 1321370008404 active site 1321370008405 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 1321370008406 dimer interface [polypeptide binding]; other site 1321370008407 active site 1321370008408 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 1321370008409 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 1321370008410 Substrate binding site; other site 1321370008411 Mg++ binding site; other site 1321370008412 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 1321370008413 active site 1321370008414 substrate binding site [chemical binding]; other site 1321370008415 CoA binding site [chemical binding]; other site 1321370008416 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 1321370008417 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 1321370008418 gamma subunit interface [polypeptide binding]; other site 1321370008419 epsilon subunit interface [polypeptide binding]; other site 1321370008420 LBP interface [polypeptide binding]; other site 1321370008421 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 1321370008422 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1321370008423 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 1321370008424 alpha subunit interaction interface [polypeptide binding]; other site 1321370008425 Walker A motif; other site 1321370008426 ATP binding site [chemical binding]; other site 1321370008427 Walker B motif; other site 1321370008428 inhibitor binding site; inhibition site 1321370008429 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1321370008430 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 1321370008431 core domain interface [polypeptide binding]; other site 1321370008432 delta subunit interface [polypeptide binding]; other site 1321370008433 epsilon subunit interface [polypeptide binding]; other site 1321370008434 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 1321370008435 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 1321370008436 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 1321370008437 beta subunit interaction interface [polypeptide binding]; other site 1321370008438 Walker A motif; other site 1321370008439 ATP binding site [chemical binding]; other site 1321370008440 Walker B motif; other site 1321370008441 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 1321370008442 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 1321370008443 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 1321370008444 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 1321370008445 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 1321370008446 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 1321370008447 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 1321370008448 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 1321370008449 ATP synthase I chain; Region: ATP_synt_I; cl09170 1321370008450 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 1321370008451 ParB-like nuclease domain; Region: ParB; smart00470 1321370008452 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 1321370008453 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 1321370008454 P-loop; other site 1321370008455 Magnesium ion binding site [ion binding]; other site 1321370008456 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 1321370008457 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 1321370008458 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 1321370008459 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 1321370008460 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 1321370008461 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 1321370008462 Putative phosphatase (DUF442); Region: DUF442; cl17385 1321370008463 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 1321370008464 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 1321370008465 dimer interface [polypeptide binding]; other site 1321370008466 active site 1321370008467 metal binding site [ion binding]; metal-binding site 1321370008468 glutathione binding site [chemical binding]; other site 1321370008469 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 1321370008470 GIY-YIG motif/motif A; other site 1321370008471 putative active site [active] 1321370008472 putative metal binding site [ion binding]; other site 1321370008473 Fusaric acid resistance protein family; Region: FUSC; pfam04632 1321370008474 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 1321370008475 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 1321370008476 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 1321370008477 trmE is a tRNA modification GTPase; Region: trmE; cd04164 1321370008478 G1 box; other site 1321370008479 GTP/Mg2+ binding site [chemical binding]; other site 1321370008480 Switch I region; other site 1321370008481 G2 box; other site 1321370008482 Switch II region; other site 1321370008483 G3 box; other site 1321370008484 G4 box; other site 1321370008485 G5 box; other site 1321370008486 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 1321370008487 membrane protein insertase; Provisional; Region: PRK01318 1321370008488 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 1321370008489 Haemolytic domain; Region: Haemolytic; pfam01809 1321370008490 Ribonuclease P; Region: Ribonuclease_P; cl00457 1321370008491 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399