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NCBI: 10-JUN-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus COL
  • locus tag: SACOL0588 [new locus tag: SACOL_RS03050 ]
  • pan locus tag?: SAUPAN002314000
  • symbol: rpoB
  • pan gene symbol?: rpoB
  • synonym:
  • product: DNA-directed RNA polymerase subunit beta

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SACOL0588 [new locus tag: SACOL_RS03050 ]
  • symbol: rpoB
  • product: DNA-directed RNA polymerase subunit beta
  • replicon: chromosome
  • strand: +
  • coordinates: 606988..610539
  • length: 3552
  • essential: unknown 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
    1021
    1081
    1141
    1201
    1261
    1321
    1381
    1441
    1501
    1561
    1621
    1681
    1741
    1801
    1861
    1921
    1981
    2041
    2101
    2161
    2221
    2281
    2341
    2401
    2461
    2521
    2581
    2641
    2701
    2761
    2821
    2881
    2941
    3001
    3061
    3121
    3181
    3241
    3301
    3361
    3421
    3481
    3541
    TTGGCAGGTCAAGTTGTCCAATATGGAAGACATCGTAAACGTAGAAACTACGCGAGAATT
    TCAGAAGTATTAGAATTACCAAACTTAATAGAAATTCAAACTAAATCTTACGAGTGGTTC
    CTAAGAGAAGGTTTAATCGAAATGTTTAGAGACATTTCTCCAATTGAAGATTTTACTGGT
    AATTTGTCATTAGAGTTTGTGGATTACCGTTTAGGAGAACCAAAATATGATTTAGAAGAA
    TCTAAAAACCGTGACGCTACTTATGCTGCACCTCTTCGTGTAAAAGTGCGTCTAATCATT
    AAAGAAACAGGAGAAGTTAAAGAACAAGAAGTCTTTATGGGTGATTTCCCATTAATGACT
    GATACAGGTACGTTCGTTATCAATGGTGCAGAACGTGTAATCGTATCTCAATTAGTTCGT
    TCACCATCCGTTTATTTCAATGAAAAAATCGACAAAAATGGTCGTGAAAACTATGATGCA
    ACAATTATTCCAAACCGTGGTGCATGGTTAGAATATGAAACAGATGCTAAAGATGTTGTA
    TACGTACGTATTGATAGAACACGTAAACTACCATTAACAGTATTGTTACGTGCATTAGGT
    TTCTCAAGCGACCAAGAAATTGTTGACCTTTTAGGTGACAATGAATATTTACGTAATACT
    TTAGAGAAAGACGGCACTGAAAACACTGAACAAGCGTTATTAGAAATCTATGAACGTTTA
    CGTCCAGGTGAACCACCAACTGTTGAAAATGCTAAAAGTCTATTGTATTCACGTTTCTTT
    GATCCAAAACGCTATGACTTAGCAAGCGTGGGTCGTTATAAAACAAACAAAAAATTACAT
    TTAAAACATCGTTTATTTAATCAAAAATTAGCTGAGCCAATTGTAAATACTGAAACTGGT
    GAAATTGTAGTTGAAGAAGGTACAGTGCTTGATCGTCGTAAAATCGACGAAATCATGGAT
    GTACTTGAATCAAATGCAAACAGCGAAGTGTTTGAATTGCATGGTAGCGTTATAGACGAG
    CCAGTAGAAATTCAATCAATTAAAGTATATGTTCCTAACGATGATGAAGGTCGTACGACA
    ACTGTAATTGGTAATGCTTTCCCTGACTCAGAAGTTAAATGCATTACACCAGCAGATATC
    ATTGCTTCAATGAGTTACTTCTTTAACTTATTAAGCGGTATTGGATATACAGATGATATT
    GACCATTTAGGTAACCGTCGTTTACGTTCTGTAGGTGAATTACTACAAAACCAATTCCGT
    ATCGGTTTATCAAGAATGGAAAGAGTTGTACGTGAAAGAATGTCAATTCAAGATACTGAG
    TCTATCACACCTCAACAATTAATTAATATTCGACCTGTTATTGCATCTATTAAAGAATTC
    TTTGGTAGCTCTCAATTATCACAATTCATGGACCAAGCAAACCCATTAGCTGAGTTAACG
    CATAAACGTCGTCTATCAGCATTAGGACCTGGTGGTTTAACACGTGAACGTGCTCAAATG
    GAAGTACGTGACGTTCACTACTCTCACTATGGCCGTATGTGTCCAATTGAAACACCTGAG
    GGACCAAACATTGGATTGATTAACTCATTATCAAGTTATGCACGTGTAAATGAATTCGGC
    TTTATTGAAACACCATATCGTAAAGTTGATTTAGATACACATGCTATCACTGATCAAATT
    GACTATTTAACAGCTGACGAAGAAGATAGCTATGTTGTAGCACAAGCAAACTCTAAATTA
    GATGAAAATGGTCGTTTCATGGATGATGAAGTTGTATGTCGTTTCCGTGGTAACAATACA
    GTTATGGCTAAAGAAAAAATGGATTATATGGATGTATCGCCGAAGCAAGTTGTTTCAGCA
    GCGACAGCATGTATTCCATTCTTAGAAAATGATGACTCAAACCGTGCATTGATGGGTGCG
    AACATGCAACGTCAAGCAGTGCCTTTGATGAATCCAGAAGCACCATTTGTTGGTACAGGT
    ATGGAACACGTTGCAGCACGTGATTCTGGTGCGGCTATTACAGCTAAGCACAGAGGTCGT
    GTTGAACATGTTGAATCTAATGAAATTCTTGTTCGTCGTCTAGTTGAAGAGAACGGCGTT
    GAGCATGAAGGTGAATTAGATCGCTATCCATTAGCTAAATTTAAACGTTCAAACTCAGGT
    ACATGTTACAACCAACGTCCAATCGTTGCAGTTGGAGATGTTGTTGAGTATAACGAGATT
    TTAGCAGATGGACCATCTATGGAATTAGGAGAAATGGCATTAGGTAGAAACGTAGTAGTT
    GGTTTCATGACTTGGGACGGTTACAACTATGAGGATGCCGTTATCATGAGTGAAAGACTT
    GTGAAAGATGACGTGTATACTTCTATTCATATTGAAGAGTATGAATCAGAAGTACGTGAT
    ACTAAGTTAGGACCTGAAGAAATCACAAGAGATATTCCTAATGTTTCTGAAAGTGCACTT
    AAGAACTTAGACGATCGTGGTATCGTTTATATTGGTGCAGAAGTAAAAGATGGAGATATT
    TTAGTTGGTAAAGTAACGCCTAAAGGTGTAACTGAGTTAACTGCCGAAGAAAGATTGTTA
    CATGCAATCTTTGGTGAAAAAGCACGTGAAGTTAGAGATACTTTATTACGTGTACCTCAC
    GGCGCTGGCGGTATCGTTCTTGATGTAAAAGTATTCAATCGTGAAGAAGGCGACGATACA
    TTATCACCTGGTGTAAACCAATTAGTACGTGTATATATCGTTCAAAAACGTAAAATTCAT
    GTTGGTGATAAGATGTGTGGTCGACATGGTAACAAAGGTGTCATTTCTAAGATTGTTCCT
    GAAGAAGATATGCCTTACTTACCAGATGGACGTCCGATCGATATCATGTTAAATCCTCTT
    GGTGTACCATCTCGTATGAACATCGGACAAGTATTAGAGCTACACTTAGGTATGGCTGCT
    AAAAATCTTGGTATTCACGTTGCATCACCAGTATTTGACGGTGCAAACGATGACGATGTA
    TGGTCAACAATTGAAGAAGCTGGTATGGCTCGTGATGGTAAAACTGTACTTTATGATGGA
    CGTACAGGTGAACCATTCGATAACCGTATTTCAGTAGGTGTAATGTACATGTTGAAACTT
    GCGCACATGGTTGATGATAAATTACATGCGCGTTCAACAGGACCATATTCACTTGTTACA
    CAACAACCACTTGGCGGTAAAGCGCAATTCGGTGGACAACGTTTTGGTGAGATGGAGGTA
    TGGGCACTTGAAGCATATGGTGCTGCATACACATTACAAGAAATCTTAACTTACAAATCC
    GATGATACAGTAGGACGTGTGAAAACATACGAGGCTATTGTTAAAGGTGAAAACATCTCT
    AGACCAAGTGTTCCAGAATCATTCCGAGTATTGATGAAAGAATTACAAAGTTTAGGTTTA
    GATGTAAAAGTTATGGATGAGCAAGATAATGAAATCGAAATGACAGACGTTGATGACGAT
    GATGTTGTAGAACGCAAAGTAGATTTACAACAAAATGATGCTCCTGAAACACAAAAAGAA
    GTTACTGATTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
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    660
    720
    780
    840
    900
    960
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    1080
    1140
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    1260
    1320
    1380
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    1560
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    1920
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    2040
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    2160
    2220
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    2400
    2460
    2520
    2580
    2640
    2700
    2760
    2820
    2880
    2940
    3000
    3060
    3120
    3180
    3240
    3300
    3360
    3420
    3480
    3540
    3552

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SACOL0588 [new locus tag: SACOL_RS03050 ]
  • symbol: RpoB
  • description: DNA-directed RNA polymerase subunit beta
  • length: 1183
  • theoretical pI: 4.6446
  • theoretical MW: 133273
  • GRAVY: -0.428402

⊟Function[edit | edit source]

  • reaction:
    EC 2.7.7.6?  ExPASy
    DNA-directed RNA polymerase Nucleoside triphosphate + RNA(n) = diphosphate + RNA(n+1)
  • TIGRFAM:
    Genetic information processing Transcription DNA-dependent RNA polymerase DNA-directed RNA polymerase, beta subunit (TIGR02013; EC 2.7.7.6; HMM-score: 1804.1)
    and 1 more
    DNA-directed RNA polymerase subunit B (TIGR03670; EC 2.7.7.6; HMM-score: 295.2)
  • TheSEED  :
    • DNA-directed RNA polymerase beta subunit (EC 2.7.7.6)
    RNA Metabolism Transcription RNA polymerase bacterial  DNA-directed RNA polymerase beta subunit (EC 2.7.7.6)
    and 1 more
    Virulence Virulence - no subcategory Mycobacterium virulence operon involved in DNA transcription  DNA-directed RNA polymerase beta subunit (EC 2.7.7.6)
  • PFAM:
    LEF-8-like (CL0410) RNA_pol_Rpb2_6; RNA polymerase Rpb2, domain 6 (PF00562; HMM-score: 547.8)
    and 5 more
    no clan defined RNA_pol_Rpb2_2; RNA polymerase Rpb2, domain 2 (PF04561; HMM-score: 124.8)
    RNA_pol_Rpb2_3; RNA polymerase Rpb2, domain 3 (PF04565; HMM-score: 104.2)
    RNA_pol_Rpb2_1; RNA polymerase beta subunit (PF04563; HMM-score: 103.4)
    RNA_pol_Rpb2_45; RNA polymerase beta subunit external 1 domain (PF10385; HMM-score: 91.7)
    RNA_pol_Rpb2_7; RNA polymerase Rpb2, domain 7 (PF04560; HMM-score: 91.6)

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

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

⊟Localization[edit | edit source]

  • 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
    • SP(Sec/SPI): 0.001131
    • TAT(Tat/SPI): 0.000126
    • LIPO(Sec/SPII): 0.000187
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MAGQVVQYGRHRKRRNYARISEVLELPNLIEIQTKSYEWFLREGLIEMFRDISPIEDFTGNLSLEFVDYRLGEPKYDLEESKNRDATYAAPLRVKVRLIIKETGEVKEQEVFMGDFPLMTDTGTFVINGAERVIVSQLVRSPSVYFNEKIDKNGRENYDATIIPNRGAWLEYETDAKDVVYVRIDRTRKLPLTVLLRALGFSSDQEIVDLLGDNEYLRNTLEKDGTENTEQALLEIYERLRPGEPPTVENAKSLLYSRFFDPKRYDLASVGRYKTNKKLHLKHRLFNQKLAEPIVNTETGEIVVEEGTVLDRRKIDEIMDVLESNANSEVFELHGSVIDEPVEIQSIKVYVPNDDEGRTTTVIGNAFPDSEVKCITPADIIASMSYFFNLLSGIGYTDDIDHLGNRRLRSVGELLQNQFRIGLSRMERVVRERMSIQDTESITPQQLINIRPVIASIKEFFGSSQLSQFMDQANPLAELTHKRRLSALGPGGLTRERAQMEVRDVHYSHYGRMCPIETPEGPNIGLINSLSSYARVNEFGFIETPYRKVDLDTHAITDQIDYLTADEEDSYVVAQANSKLDENGRFMDDEVVCRFRGNNTVMAKEKMDYMDVSPKQVVSAATACIPFLENDDSNRALMGANMQRQAVPLMNPEAPFVGTGMEHVAARDSGAAITAKHRGRVEHVESNEILVRRLVEENGVEHEGELDRYPLAKFKRSNSGTCYNQRPIVAVGDVVEYNEILADGPSMELGEMALGRNVVVGFMTWDGYNYEDAVIMSERLVKDDVYTSIHIEEYESEVRDTKLGPEEITRDIPNVSESALKNLDDRGIVYIGAEVKDGDILVGKVTPKGVTELTAEERLLHAIFGEKAREVRDTLLRVPHGAGGIVLDVKVFNREEGDDTLSPGVNQLVRVYIVQKRKIHVGDKMCGRHGNKGVISKIVPEEDMPYLPDGRPIDIMLNPLGVPSRMNIGQVLELHLGMAAKNLGIHVASPVFDGANDDDVWSTIEEAGMARDGKTVLYDGRTGEPFDNRISVGVMYMLKLAHMVDDKLHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEILTYKSDDTVGRVKTYEAIVKGENISRPSVPESFRVLMKELQSLGLDVKVMDEQDNEIEMTDVDDDDVVERKVDLQQNDAPETQKEVTD

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas
  • protein localization: Cytoplasmic [1] [2] [3] [4]
  • quantitative data / protein copy number per cell: 2266 [5]
  • interaction partners:
    SACOL0204(pflB)formate acetyltransferase  [6] (data from MRSA252)
    SACOL2222(rpsE)30S ribosomal protein S5  [6] (data from MRSA252)
    SACOL0594(tuf)elongation factor Tu  [6] (data from MRSA252)
    SACOL0568hypothetical protein  [6] (data from MRSA252)
    SACOL0569ATP:guanido phosphotransferase  [6] (data from MRSA252)
    SACOL1759universal stress protein  [6] (data from MRSA252)
    SACOL1761hypothetical protein  [6] (data from MRSA252)

⊟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: 55.15 h [7]

⊟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. ↑ Dörte Becher, Kristina Hempel, Susanne Sievers, Daniela Zühlke, Jan Pané-Farré, Andreas Otto, Stephan Fuchs, Dirk Albrecht, Jörg Bernhardt, Susanne Engelmann, Uwe Völker, Jan Maarten van Dijl, Michael Hecker
    A proteomic view of an important human pathogen--towards the quantification of the entire Staphylococcus aureus proteome.
    PLoS One: 2009, 4(12);e8176
    [PubMed:19997597] [WorldCat.org] [DOI] (I e)
  2. ↑ Kristina Hempel, Jan Pané-Farré, Andreas Otto, Susanne Sievers, Michael Hecker, Dörte Becher
    Quantitative cell surface proteome profiling for SigB-dependent protein expression in the human pathogen Staphylococcus aureus via biotinylation approach.
    J Proteome Res: 2010, 9(3);1579-90
    [PubMed:20108986] [WorldCat.org] [DOI] (I p)
  3. ↑ Kristina Hempel, Florian-Alexander Herbst, Martin Moche, Michael Hecker, Dörte Becher
    Quantitative proteomic view on secreted, cell surface-associated, and cytoplasmic proteins of the methicillin-resistant human pathogen Staphylococcus aureus under iron-limited conditions.
    J Proteome Res: 2011, 10(4);1657-66
    [PubMed:21323324] [WorldCat.org] [DOI] (I p)
  4. ↑ Andreas Otto, Jan Maarten van Dijl, Michael Hecker, Dörte Becher
    The Staphylococcus aureus proteome.
    Int J Med Microbiol: 2014, 304(2);110-20
    [PubMed:24439828] [WorldCat.org] [DOI] (I p)
  5. ↑ Daniela Zühlke, Kirsten Dörries, Jörg Bernhardt, Sandra Maaß, Jan Muntel, Volkmar Liebscher, Jan Pané-Farré, Katharina Riedel, Michael Lalk, Uwe Völker, Susanne Engelmann, Dörte Becher, Stephan Fuchs, Michael Hecker
    Costs of life - Dynamics of the protein inventory of Staphylococcus aureus during anaerobiosis.
    Sci Rep: 2016, 6;28172
    [PubMed:27344979] [WorldCat.org] [DOI] (I e)
  6. ↑ 6.0 6.1 6.2 6.3 6.4 6.5 6.6 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)
  7. ↑ Stephan Michalik, Jörg Bernhardt, Andreas Otto, Martin Moche, Dörte Becher, Hanna Meyer, Michael Lalk, Claudia Schurmann, Rabea Schlüter, Holger Kock, Ulf Gerth, Michael Hecker
    Life and death of proteins: a case study of glucose-starved Staphylococcus aureus.
    Mol Cell Proteomics: 2012, 11(9);558-70
    [PubMed:22556279] [WorldCat.org] [DOI] (I p)

⊟Relevant publications[edit | edit source]

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