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NCBI: 03-AUG-2016

Summary[edit source | edit]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_02369
  • pan locus tag?: SAUPAN005422000
  • symbol: SAOUHSC_02369
  • pan gene symbol?: rpoE
  • synonym:
  • product: DNA-directed RNA polymerase subunit delta

Genome View[edit source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • type: CDS
  • locus tag: SAOUHSC_02369
  • symbol: SAOUHSC_02369
  • product: DNA-directed RNA polymerase subunit delta
  • replicon: chromosome
  • strand: -
  • coordinates: 2192005..2192535
  • length: 531
  • essential: no [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
    ATGAAAATTCAAGATTATACAAAACAAATGGTTGATGAAAAATCATTTATTGATATGGCT
    TATACATTATTGAATGATAAAGGCGAAACAATGAACTTATATGATATCATCGATGAATTT
    AGAGCGTTAGGTGATTATGAGTACGAAGAAATTGAAAATCGTGTTGTACAATTTTACACG
    GATTTAAACACAGATGGTCGTTTTTTAAATGTTGGAGAAAATTTATGGGGATTACGTGAT
    TGGTATTCGGTAGATGATATTGAAGAGAAAATCGCACCAACTATTCAAAAATTCGATATT
    CTGGATGCAGATGATGAAGAAGATCAAAACTTAAAATTATTGGGCGAAGATGAAATGGAT
    GACGACGATGATATTCCAGCTCAAACAGATGATCAAGAAGAACTAAATGATCCAGAAGAT
    GAGCAGGTTGAAGAAGAAATCAATCATTCGGATATAGTCATTGAAGAAGATGAAGATGAA
    CTAGACGAAGACGAAGAAGTGTTTGAAGACGAAGAAGACTTCAACGATTAA
    60
    120
    180
    240
    300
    360
    420
    480
    531

Protein[edit source | edit]

General[edit source | edit]

  • locus tag: SAOUHSC_02369
  • symbol: SAOUHSC_02369
  • description: DNA-directed RNA polymerase subunit delta
  • length: 176
  • theoretical pI: 3.36108
  • theoretical MW: 20881
  • GRAVY: -1.0483

Function[edit source | edit]

  • reaction:
    EC 2.7.7.6?  ExPASy
    DNA-directed RNA polymeraseNucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)
  • TIGRFAM:
    Genetic information processingTranscriptionDNA-dependent RNA polymeraseDNA-directed RNA polymerase delta subunit (TIGR04567; EC 2.7.7.6; HMM-score: 105.4)
  • TheSEED:  
    RNA MetabolismTranscriptionRNA polymerase bacterial DNA-directed RNA polymerase delta subunit (EC 2.7.7.6) 
  • PFAM:
    HTH (CL0123) HARE-HTH; HB1, ASXL, restriction endonuclease HTH domain (PF05066; HMM-score: 36.9)
    no clan definedTFIIA; Transcription factor IIA, alpha/beta subunit (PF03153; HMM-score: 6.7)

Structure, modifications & interactions[edit source | edit]

  • domains:
  • modifications:
  • cofactors:
  • effectors:
  • protein partners:
    SAOUHSC_01683(dnaK)molecular chaperone DnaK  [2] (data from MRSA252)
    SAOUHSC_02509(rplB)50S ribosomal protein L2  [2] (data from MRSA252)
    SAOUHSC_01784(rplT)50S ribosomal protein L20  [2] (data from MRSA252)
    SAOUHSC_01757(rplU)50S ribosomal protein L21  [2] (data from MRSA252)
    SAOUHSC_00524(rpoB)DNA-directed RNA polymerase subunit beta  [2] (data from MRSA252)
    SAOUHSC_01418(sucA)2-oxoglutarate dehydrogenase E1 component  [2] (data from MRSA252)
    SAOUHSC_00525DNA-directed RNA polymerase subunit beta'  [2] (data from MRSA252)
    SAOUHSC_01040pyruvate dehydrogenase complex, E1 component subunit alpha  [2] (data from MRSA252)
    SAOUHSC_01041pyruvate dehydrogenase complex, E1 component subunit beta  [2] (data from MRSA252)
    SAOUHSC_01042branched-chain alpha-keto acid dehydrogenase subunit E2  [2] (data from MRSA252)
    SAOUHSC_01043dihydrolipoamide dehydrogenase  [2] (data from MRSA252)
    SAOUHSC_01416dihydrolipoamide succinyltransferase  [2] (data from MRSA252)

Localization[edit source | edit]

  • 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
    • Ymax: 0.093
    • Ymax_pos: 46
    • Cmax: 0.101
    • Cmax_pos: 30
    • Smax: 0.107
    • Smax_pos: 38
    • Smean: 0.077
    • D: 0.086
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit source | edit]

Protein sequence[edit source | edit]

  • MKIQDYTKQMVDEKSFIDMAYTLLNDKGETMNLYDIIDEFRALGDYEYEEIENRVVQFYTDLNTDGRFLNVGENLWGLRDWYSVDDIEEKIAPTIQKFDILDADDEEDQNLKLLGEDEMDDDDDIPAQTDDQEELNDPEDEQVEEEINHSDIVIEEDEDELDEDEEVFEDEEDFND

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. 2.00 2.01 2.02 2.03 2.04 2.05 2.06 2.07 2.08 2.09 2.10 2.11 Artem Cherkasov, Michael Hsing, Roya Zoraghi, Leonard J Foster, Raymond H See, Nikolay Stoynov, Jihong Jiang, Sukhbir Kaur, Tian Lian, Linda Jackson, Huansheng Gong, Rick Swayze, Emily Amandoron, Farhad Hormozdiari, Phuong Dao, Cenk Sahinalp, Osvaldo Santos-Filho, Peter Axerio-Cilies, Kendall Byler, William R McMaster, Robert C Brunham, B Brett Finlay, Neil E Reiner
    Mapping the protein interaction network in methicillin-resistant Staphylococcus aureus.
    J. Proteome Res.: 2011, 10(3);1139-50
    [PubMed:21166474] [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. 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)
  5. 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]