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NCBI: 03-AUG-2016

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_01690
  • pan locus tag?: SAUPAN004173000
  • symbol: holA
  • pan gene symbol?: holA
  • synonym:
  • product: DNA polymerase III subunit delta

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SAOUHSC_01690
  • symbol: holA
  • product: DNA polymerase III subunit delta
  • replicon: chromosome
  • strand: -
  • coordinates: 1600402..1601376
  • length: 975
  • essential: yes [1] DEG other strains

⊟Accession numbers[edit | edit source]

⊟Phenotype[edit | edit source]

Share your knowledge and add information here. [edit]

⊟DNA sequence[edit | edit source]

  • 1
    61
    121
    181
    241
    301
    361
    421
    481
    541
    601
    661
    721
    781
    841
    901
    961
    ATGAGCGACAATATTGTAGCTATTTATGGAGATGTGCCTGAATTGGTTGAAAAACAAAGT
    GCAGAAATCATATCACAATTTTTGAAAAGTGATAGAGATGACTTTAACTTTGTGAAATAT
    AATTTATACGAAACAGAGATTGCACCAATTGTTGAAGAAACATTAACATTGCCTTTCTTT
    TCAGATAAAAAAGCAATTTTGGTTAAAAATGCATATATATTTACAGGTGAAAAAGCGCCA
    AAAGATATGGCTCATAATGTAGATCAATTAATAGAATTTATTGAAAAATATGATGGCGAA
    AATTTGATTGTCTTTGAGATATATCAAAATAAACTTGATGAAAGAAAAAAGTTAACTAAA
    ACTCTAAAAAAGCATGCAAGGCTTAAAAAAATAGAGCAAATGTCTGAAGAAGAAATAAAA
    AAATGGATTCAAAGTAAATTAAATGAGAATTTCAAAGATATCAAAAGAGATGCATTAGAT
    TTATTTATTGAGTTGACAGGTATTAACTTTAATATTGTCTCACAAGAGATAGAAAAGTTG
    ATTTTATTTTTAGGCGATAGACCAACAATTAATAAGCAGGATGTTAACCAAATTATTAAT
    AGAAGTTTAGAGCAAAATGTATTTTTACTGACTGAATACATTCAGAAAAGAAAGAAAGAA
    CAAGCAATTCATTTAGTAAAAGATTTAATAACTATGAAAGAAGAACCAATTAAATTACTT
    GCACTAATTACAAGTAATTACCGATTATTTTATCAATGTAAGATTCTGAGTCAAAAAGGA
    TATAGTGGACAGCAAATTGCTAAAACAATAGGAGTACATCCATACAGAGTAAAATTAGCG
    TTAGGACAAGTAAGACATTATCAACTTGATGAATTATTGAATATTATAGATGCTTGTGCG
    GAAACTGATTATAAACTTAAATCATCATATATGGATAAACAGTTAATACTGGAATTATTC
    ATTCTATCTTTATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    975

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SAOUHSC_01690
  • symbol: HolA
  • description: DNA polymerase III subunit delta
  • length: 324
  • theoretical pI: 6.69588
  • theoretical MW: 37935.8
  • GRAVY: -0.300309

⊟Function[edit | edit source]

  • TIGRFAM:
    Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA polymerase III, delta subunit (TIGR01128; EC 2.7.7.7; HMM-score: 300.7)
    and 1 more
    Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA polymerase III, subunit gamma and tau (TIGR02397; EC 2.7.7.7; HMM-score: 15.2)
  • TheSEED  :
    • DNA polymerase III delta subunit (EC 2.7.7.7)
    DNA Metabolism DNA replication DNA-replication  DNA polymerase III delta subunit (EC 2.7.7.7)
  • PFAM:
    P-loop_NTPase (CL0023) DNA_pol3_delta; DNA polymerase III, delta subunit (PF06144; HMM-score: 170.1)
    and 7 more
    no clan defined DUF2018; Domain of unknown function (DUF2018) (PF09442; HMM-score: 17.2)
    DUF3781; Protein of unknown function (DUF3781) (PF12636; HMM-score: 15.6)
    DisA-linker; DisA bacterial checkpoint controller linker region (PF10635; HMM-score: 14.5)
    HTH (CL0123) HTH_38; Helix-turn-helix domain (PF13936; HMM-score: 12.3)
    no clan defined DUF3819; Domain of unknown function (DUF3819) (PF12842; HMM-score: 12)
    P-loop_NTPase (CL0023) Sigma54_activ_2; Sigma-54 interaction domain (PF14532; HMM-score: 9.3)
    no clan defined DUF4163; Domain of unknown function (DUF4163) (PF13739; HMM-score: 8.2)

⊟Structure, modifications & cofactors[edit | edit source]

  • domains:
  • modifications:
  • cofactors:
  • effectors:

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 7.5
    • Cytoplasmic Membrane Score: 1.15
    • Cellwall Score: 0.62
    • Extracellular Score: 0.73
    • 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
    • SP(Sec/SPI): 0.001604
    • TAT(Tat/SPI): 0.000156
    • LIPO(Sec/SPII): 0.000284
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MSDNIVAIYGDVPELVEKQSAEIISQFLKSDRDDFNFVKYNLYETEIAPIVEETLTLPFFSDKKAILVKNAYIFTGEKAPKDMAHNVDQLIEFIEKYDGENLIVFEIYQNKLDERKKLTKTLKKHARLKKIEQMSEEEIKKWIQSKLNENFKDIKRDALDLFIELTGINFNIVSQEIEKLILFLGDRPTINKQDVNQIINRSLEQNVFLLTEYIQKRKKEQAIHLVKDLITMKEEPIKLLALITSNYRLFYQCKILSQKGYSGQQIAKTIGVHPYRVKLALGQVRHYQLDELLNIIDACAETDYKLKSSYMDKQLILELFILSL

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas [2] [3]
  • protein localization: data available for COL
  • quantitative data / protein copy number per cell:
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator:

⊟Transcription pattern[edit | edit source]

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

⊟Protein stability[edit | edit source]

  • half-life: no data available

⊟Biological Material[edit | edit source]

⊟Mutants[edit | edit source]

⊟Expression vector[edit | edit source]

⊟lacZ fusion[edit | edit source]

⊟GFP fusion[edit | edit source]

⊟two-hybrid system[edit | edit source]

⊟FLAG-tag construct[edit | edit source]

⊟Antibody[edit | edit source]

⊟Other Information[edit | edit source]

You are kindly invited to share additional interesting facts.

⊟Literature[edit | edit source]

⊟References[edit | edit source]

  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);3648-61
    [PubMed:26224020] [WorldCat.org] [DOI] (I p)
  3. ↑ Stephan Michalik, Maren Depke, Annette Murr, Manuela Gesell Salazar, Ulrike Kusebauch, Zhi Sun, Tanja C Meyer, Kristin Surmann, Henrike Pförtner, Petra Hildebrandt, Stefan Weiss, Laura Marcela Palma Medina, Melanie Gutjahr, Elke Hammer, Dörte Becher, Thomas Pribyl, Sven Hammerschmidt, Eric W Deutsch, Samuel L Bader, Michael Hecker, Robert L Moritz, Ulrike Mäder, Uwe Völker, Frank Schmidt
    A global Staphylococcus aureus proteome resource applied to the in vivo characterization of host-pathogen interactions.
    Sci Rep: 2017, 7(1);9718
    [PubMed:28887440] [WorldCat.org] [DOI] (I e)
  4. ↑ 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 | edit source]

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