PangenomeCOLN315NCTC8325NewmanUSA300_FPR375704-0298108BA0217611819-97685071193ECT-R 2ED133ED98HO 5096 0412JH1JH9JKD6008JKD6159JSNZLGA251M013MRSA252MSHR1132MSSA476MW2Mu3Mu50RF122ST398T0131TCH60TW20USA300_TCH1516VC40

NCBI: 06-JUL-2013

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⊟Summary

• organism: Staphylococcus aureus Newman
locus tag: NWMN_2326 [new locus tag: NWMN_RS13385 ]
pan locus tag^?: SAUPAN005967000
symbol: bioD
pan gene symbol^?: bioD
• synonym:
• product: dethiobiotin synthase

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: NWMN_2326 [new locus tag: NWMN_RS13385 ]
• symbol: bioD
• product: dethiobiotin synthase
• replicon: chromosome
• strand: -
• coordinates: 2555155..2555841
• length: 687
• essential: unknown other strains

⊟Accession numbers

• Gene ID: 5331774 NCBI
• RefSeq: YP_001333360 NCBI
• BioCyc:
• MicrobesOnline: 3707928 MicrobesOnline

⊟Phenotype

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⊟DNA sequence

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  ATGAGGATTTTTATTACAAGTACGAATACTGATGTAGGCAAAACCTATGTTACAAAGCAT
  TTATACCATGCTTTGAAAACACGTGGTCATCGAGTTTGTATTTTTAAACCATTTCAAACT
  GAGGAACGCCAAGACGGGACGTTTCCAGATTTAGAAGTATTTAAAAATGAATGTGATTTA
  AGCTATGACATAACGTCACTTTATACTTTTAAGCAACCTGTATCACCACACCTTGCATTT
  AAAATGACAGATCAAATTTTTCTAAATAAGCAGCGTGTATTAGATAAGGTAAAAGTTTTA
  GATAAGGAATTTGATTTTATCTTAATTGAGGGTGCTGGGGGAATTGCCGTACCAATATAT
  GAAGGTACAGATGATTTCTACATGACTAAAGATCTAATCAATGATTGTGCAGATTGTGTC
  ATCAGTGTGTTGCCATCAAAATTAGGTGCTATTAGCGATGCCATTGTTCACCAAGATTAT
  GTTAATCAGAATGTATCGGCGAGTAATTTTTTAATAATGAATCGCTATACAGACAGCTAT
  ATTGAAAAAGACAATCAAATGACGATTGGAAAATTAACAAATAAAACAGTCTATACATTT
  GAAGAACATGCCACGTATGAAAATTTCTCAGAAGCATTTTTAAAACAATTAATAGGAGTT
  AAAAATGAATTACACACAACAACTTAA
  60
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  687
  

⊟Protein

⊟General

• locus tag: NWMN_2326 [new locus tag: NWMN_RS13385 ]
• symbol: BioD
• description: dethiobiotin synthase
• length: 228
• theoretical pI: 5.59134
• theoretical MW: 26158.6
• GRAVY: -0.272368

⊟Function

• ⊞reaction:
  EC 6.3.3.3?  ExPASy
  Dethiobiotin synthase ATP + 7,8-diaminononanoate + CO₂ = ADP + phosphate + dethiobiotin
• ⊞TIGRFAM:
  Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Biotin dethiobiotin synthase (TIGR00347; EC 6.3.3.3; HMM-score: 103.8)
  and 5 more
  Cellular processes Cellular processes Cell division septum site-determining protein MinD (TIGR01968; HMM-score: 31.6)
  Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Heme, porphyrin, and cobalamin cobyric acid synthase CobQ (TIGR00313; EC 6.3.5.10; HMM-score: 20.6)
  Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Molybdopterin molybdopterin-guanine dinucleotide biosynthesis protein B (TIGR00176; HMM-score: 13.7)
  cell division ATPase MinD (TIGR01969; HMM-score: 12.5)
  Cell structure Cell envelope Biosynthesis and degradation of surface polysaccharides and lipopolysaccharides cellulose synthase operon protein YhjQ (TIGR03371; HMM-score: 11.8)
• TheSEED  :
  • Dethiobiotin synthetase (EC 6.3.3.3)
  Cofactors, Vitamins, Prosthetic Groups, Pigments Biotin Biotin biosynthesis  Dethiobiotin synthetase (EC 6.3.3.3)
• ⊞PFAM:
  P-loop_NTPase (CL0023) AAA_26; AAA domain (PF13500; HMM-score: 83.1)
  and 4 more
  CbiA; CobQ/CobB/MinD/ParA nucleotide binding domain (PF01656; HMM-score: 26.8)
  DUF1611; Domain of unknown function (DUF1611_C) P-loop domain (PF07755; HMM-score: 20.1)
  MobB; Molybdopterin guanine dinucleotide synthesis protein B (PF03205; HMM-score: 16.3)
  NADP_Rossmann (CL0063) Rimk_N; RimK PreATP-grasp domain (PF18030; HMM-score: 12.9)

⊟Structure, modifications & cofactors

• domains:
• modifications:
• cofactors: Mg²⁺
• effectors:

⊟Localization

• ⊞PSORTb: Cytoplasmic
  • Cytoplasmic Score: 9.97
  • Cytoplasmic Membrane Score: 0
  • Cellwall Score: 0.01
  • Extracellular Score: 0.02
  • Internal Helices: 0
• ⊞DeepLocPro: Cytoplasmic
  • Cytoplasmic Score: 0.9704
  • Cytoplasmic Membrane Score: 0.0194
  • Cell wall & surface Score: 0.0001
  • Extracellular Score: 0.0102
• ⊞LocateP: Intracellular
  • Prediction by SwissProt Classification: Cytoplasmic
  • Pathway Prediction: No pathway
  • Intracellular possibility: 1
  • Signal peptide possibility: -1
  • N-terminally Anchored Score: 1
  • Predicted Cleavage Site: No CleavageSite
• ⊞SignalP: no predicted signal peptide
  • SP(Sec/SPI): 0.00819
  • TAT(Tat/SPI): 0.000251
  • LIPO(Sec/SPII): 0.001262
• predicted transmembrane helices (TMHMM): 0

⊟Accession numbers

• GI: 151222538 NCBI
• RefSeq: YP_001333360 NCBI
• UniProt: A0A0H3KIM7 UniProt

⊟Protein sequence

• MRIFITSTNTDVGKTYVTKHLYHALKTRGHRVCIFKPFQTEERQDGTFPDLEVFKNECDLSYDITSLYTFKQPVSPHLAFKMTDQIFLNKQRVLDKVKVLDKEFDFILIEGAGGIAVPIYEGTDDFYMTKDLINDCADCVISVLPSKLGAISDAIVHQDYVNQNVSASNFLIMNRYTDSYIEKDNQMTIGKLTNKTVYTFEEHATYENFSEAFLKQLIGVKNELHTTT

⊟Experimental data

• experimentally validated: data available for COL, NCTC8325
• protein localization: data available for COL
• quantitative data / protein copy number per cell:
• interaction partners:

⊟Expression & Regulation

⊟Operon

• MicrobesOnline: bioX < bioW < bioF < bioB < bioA < bioD

⊟Regulation

• ⊞regulator: BirA (repression) regulon

  BirA

  (TF)

  important in Biotin biosynthesis; RegPrecise

⊟Transcription pattern

• S.aureus Expression Data Browser: data available for NCTC8325

⊟Protein synthesis (provided by Aureolib)

• Aureolib: no data available

⊟Protein stability

• half-life: no data available

⊞Biological Material

⊟Mutants

⊟Expression vector

⊟lacZ fusion

⊟GFP fusion

⊟two-hybrid system

⊟FLAG-tag construct

⊟Antibody

⊞Other Information

You are kindly invited to share additional interesting facts.

⊟Literature

⊟References

⊟Relevant publications