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NCBI: 03-AUG-2016

Summary[edit source | edit]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_00454
  • pan locus tag?: SAUPAN002219000
  • symbol: SAOUHSC_00454
  • pan gene symbol?: holB
  • synonym:
  • product: DNA polymerase III subunit delta'

Genome View[edit source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • type: CDS
  • locus tag: SAOUHSC_00454
  • symbol: SAOUHSC_00454
  • product: DNA polymerase III subunit delta'
  • replicon: chromosome
  • strand: +
  • coordinates: 457344..458183
  • length: 840
  • essential: yes [1] DEG other strains

Accession numbers[edit source | edit]

Phenotype[edit source | edit]

  • Share your knowledge and add information here. [edit]

DNA sequence[edit source | edit]

  • 1
    61
    121
    181
    241
    301
    361
    421
    481
    541
    601
    661
    721
    781
    ATGAAACAAGTTGCGATTAATTTTGCAAAGCTTATTTTATGTCAAACAGATAGTCAATGT
    GAAACAAAGGTTAGTACATATAATCATCCAGACTTTATGTATATATCAACAACTGAGAAT
    GCAATTAAGAAAGAACAAGTTGAACAACTTGTGCGTCATATGAATCAACTTCCTATAGAA
    AGCACAAATAAAGTGTACATCATTGAAGACTTTGAAAAGTTAACTGTTCAAGGGGAAAAC
    AGTATCTTGAAATTTCTTGAAGAACCACCGGACAATACGATTGCTATTTTATTGTCTACA
    AAACCTGAGCAAATTTTAGACACAATCCATTCAAGGTGTCAGCATGTATATTTCAAGCCT
    ATTGATAAAGAAAAGTTTATAAATAGATTAGTTGAACAAAACATGTCTAAGCCAGTAGCT
    GAAATGATTAGTACTTATACTACGCAAATAGATAATGCAATGGCTTTAAATGAAGAATTT
    GATTTATTAGCATTAAGGAAATCAGTTATACGTTGGTGTGAATTGTTGCTTACTAATAAG
    CCAATGGCACTTATAGGTATTATTGATTTATTGAAACAGGCTAAAAATAAAAAACTGCAA
    TCTTTAACTATTGCAGCTGTGAATGGTTTCTTCGAAGATATCATACATACAAAGGTAAAT
    GTAGAGGATAAACAAATATATAGTGATTTAAAAAATGATATTGATCAATATGCGCAAAAG
    TTGTCGTTTAATCAATTAATTTTGATGTTTGATCAACTGACGGAAGCACATAAGAAATTG
    AATCAAAATGTAAATCCAACGCTTGTATTTGAACAAATCGTAATTAAGGGTGTGAGTTAG
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840

Protein[edit source | edit]

General[edit source | edit]

  • locus tag: SAOUHSC_00454
  • symbol: SAOUHSC_00454
  • description: DNA polymerase III subunit delta'
  • length: 279
  • theoretical pI: 5.97825
  • theoretical MW: 32178.1
  • GRAVY: -0.227599

Function[edit source | edit]

  • reaction:
    EC 2.7.7.7?  ExPASy
    DNA-directed DNA polymeraseDeoxynucleoside triphosphate + DNA(n) = diphosphate + DNA(n+1)
  • TIGRFAM:
    Genetic information processingDNA metabolismDNA replication, recombination, and repairDNA polymerase III, delta' subunit (TIGR00678; EC 2.7.7.7; HMM-score: 127.4)
    Genetic information processingDNA metabolismDNA replication, recombination, and repairDNA polymerase III, subunit gamma and tau (TIGR02397; EC 2.7.7.7; HMM-score: 84.5)
    Cellular processesCellular processesSporulation and germinationATP-dependent protease, Lon family (TIGR02903; EC 3.4.21.-; HMM-score: 18.9)
    Genetic information processingProtein fateDegradation of proteins, peptides, and glycopeptidesATP-dependent protease, Lon family (TIGR02903; EC 3.4.21.-; HMM-score: 18.9)
    mutatrotase, YjhT family (TIGR03547; EC 5.1.-.-; HMM-score: 13.7)
    Cellular processesCellular processesSporulation and germinationATP-dependent protease LonB (TIGR02902; EC 3.4.21.-; HMM-score: 13.3)
    Genetic information processingProtein fateDegradation of proteins, peptides, and glycopeptidesATP-dependent protease LonB (TIGR02902; EC 3.4.21.-; HMM-score: 13.3)
    MetabolismBiosynthesis of cofactors, prosthetic groups, and carriersMenaquinone and ubiquinonenaphthoate synthase (TIGR01929; EC 4.1.3.36; HMM-score: 11.9)
  • TheSEED:  
    DNA MetabolismDNA replicationDNA-replication DNA polymerase III delta prime subunit (EC 2.7.7.7) 
    Stress ResponseHeat shockHeat shock dnaK gene cluster extended DNA polymerase III delta prime subunit (EC 2.7.7.7) 
  • PFAM:
    P-loop_NTPase (CL0023) DNA_pol3_delta2; DNA polymerase III, delta subunit (PF13177; HMM-score: 120.8)
    post-AAA (CL0604) DNApol3-delta_C; DNA polymerase III, delta subunit, C terminal (PF09115; HMM-score: 23)
    DNA_pol3_gamma3; DNA polymerase III subunits gamma and tau domain III (PF12169; HMM-score: 20.7)

Structure, modifications & interactions[edit source | edit]

  • domains:
  • modifications:
  • cofactors:
  • effectors:
  • protein partners:

Localization[edit source | edit]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.97
    • Cytoplasmic Membrane Score: 0
    • Cellwall Score: 0.01
    • Extracellular Score: 0.02
    • Internal Helices: 0
  • 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
    • Ymax: 0.279
    • Ymax_pos: 21
    • Cmax: 0.199
    • Cmax_pos: 21
    • Smax: 0.516
    • Smax_pos: 14
    • Smean: 0.34
    • D: 0.303
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit source | edit]

Protein sequence[edit source | edit]

  • MKQVAINFAKLILCQTDSQCETKVSTYNHPDFMYISTTENAIKKEQVEQLVRHMNQLPIESTNKVYIIEDFEKLTVQGENSILKFLEEPPDNTIAILLSTKPEQILDTIHSRCQHVYFKPIDKEKFINRLVEQNMSKPVAEMISTYTTQIDNAMALNEEFDLLALRKSVIRWCELLLTNKPMALIGIIDLLKQAKNKKLQSLTIAAVNGFFEDIIHTKVNVEDKQIYSDLKNDIDQYAQKLSFNQLILMFDQLTEAHKKLNQNVNPTLVFEQIVIKGVS

Experimental data[edit source | edit]

Expression & Regulation[edit source | edit]

Operon[edit source | edit]

Regulation[edit source | edit]

  • sigma factor:
  • regulator:

Transcription pattern[edit source | edit]

Protein synthesis (provided by Aureolib)[edit source | edit]

Protein stability[edit source | edit]

  • half-life: no data available

Biological Material[edit source | edit]

Mutants[edit source | edit]

Expression vector[edit source | edit]

lacZ fusion[edit source | edit]

GFP fusion[edit source | edit]

two-hybrid system[edit source | edit]

FLAG-tag construct[edit source | edit]

Antibody[edit source | edit]

Other Information[edit source | edit]

You are kindly invited to share additional interesting facts.

Literature[edit source | edit]

References[edit source | edit]

  1. Roy R Chaudhuri, Andrew G Allen, Paul J Owen, Gil Shalom, Karl Stone, Marcus Harrison, Timothy A Burgis, Michael Lockyer, Jorge Garcia-Lara, Simon J Foster, Stephen J Pleasance, Sarah E Peters, Duncan J Maskell, Ian G Charles
    Comprehensive identification of essential Staphylococcus aureus genes using Transposon-Mediated Differential Hybridisation (TMDH).
    BMC Genomics: 2009, 10;291
    [PubMed:19570206] [WorldCat.org] [DOI] (I e)
  2. Maren Depke, Stephan Michalik, Alexander Rabe, Kristin Surmann, Lars Brinkmann, Nico Jehmlich, Jörg Bernhardt, Michael Hecker, Bernd Wollscheid, Zhi Sun, Robert L Moritz, Uwe Völker, Frank Schmidt
    A peptide resource for the analysis of Staphylococcus aureus in host-pathogen interaction studies.
    Proteomics: 2015, 15(21);3648-3661
    [PubMed:26224020] [WorldCat.org] [DOI] (I p)
  3. Ulrike Mäder, Pierre Nicolas, Maren Depke, Jan Pané-Farré, Michel Debarbouille, Magdalena M van der Kooi-Pol, Cyprien Guérin, Sandra Dérozier, Aurelia Hiron, Hanne Jarmer, Aurélie Leduc, Stephan Michalik, Ewoud Reilman, Marc Schaffer, Frank Schmidt, Philippe Bessières, Philippe Noirot, Michael Hecker, Tarek Msadek, Uwe Völker, Jan Maarten van Dijl
    Staphylococcus aureus Transcriptome Architecture: From Laboratory to Infection-Mimicking Conditions.
    PLoS Genet.: 2016, 12(4);e1005962
    [PubMed:27035918] [WorldCat.org] [DOI] (I e)

Relevant publications[edit source | edit]