From AureoWiki
Jump to navigation Jump to search

NCBI: 26-AUG-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus N315
  • locus tag: SA0500 [new locus tag: SA_RS02930 ]
  • 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: SA0500 [new locus tag: SA_RS02930 ]
  • symbol: rpoB
  • product: DNA-directed RNA polymerase subunit beta
  • replicon: chromosome
  • strand: +
  • coordinates: 579620..583171
  • length: 3552
  • essential: yes 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
    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
    TTCTCAAGTGACCAAGAAATTGTTGACCTTTTAGGTGACAATGAATATTTACGTAATACT
    TTAGAGAAAGACGGCACTGAAAACACTGAACAAGCGTTATTAGAAATCTATGAACGTTTA
    CGTCCAGGTGAACCACCAACTGTTGAAAATGCTAAAAGTCTATTGTATTCACGTTTCTTT
    GATCCAAAACGCTATGACTTAGCAAGCGTGGGTCGTTATAAAACAAACAAAAAATTACAT
    TTAAAACATCGTTTATTTAATCAAAAATTAGCTGAGCCAATTGTAAATACTGAAACTGGT
    GAAATTGTAGTTGAAGAAGGTACAGTGCTTGATCGTCGTAAAATCGACGAAATCATGGAT
    GTACTTGAATCAAATGCAAACAGCGAAGTGTTTGAATTGCATGGTAGCGTTATAGACGAG
    CCAGTAGAAATTCAATCAATTAAAGTATATGTTCCTAACGATGATGAAGGTCGTACGACA
    ACTGTAATTGGTAATGCTTTCCCTGACTCAGAAGTTAAATGCATTACACCAGCAGATATC
    ATTGCTTCAATGAGTTACTTCTTTAACTTATTAAGCGGTATTGGATATACAGATGATATT
    GACCATTTAGGTAACCGTCGTTTACGTTCTGTAGGTGAATTACTACAAAACCAATTCCGT
    ATCGGTTTATCAAGAATGGAAAGAGTTGTACGTGAAAGAATGTCAATTCAAGATACTGAG
    TCTATCACACCTCAACAATTAATTAATATTCGACCTGTTATTGCATCTATTAAAGAATTC
    TTTGGTAGCTCTCAATTATCACAATTCATGGACCAAGCAAACCCATTAGCTGAGTTAACG
    CATAAACGTCGTCTATCAGCATTAGGACCTGGTGGTTTAACACGTGAACGTGCTCAAATG
    GAAGTACGTGACGTTCACTACTCTCACTATGGCCGTATGTGTCCAATTGAAACACCTGAG
    GGACCAAACATTGGATTGATTAACTCATTATCAAGTTATGCACGTGTAAATGAATTCGGC
    TTTATTGAAACACCATATCGTAAAGTTGATTTAGATACACATGCTATCACTGATCAAATT
    GACTATTTAACAGCTGACGAAGAAGATAGCTATGTTGTAGCACAAGCAAACTCTAAATTA
    GATGAAAATGGTCGTTTCATGGATGATGAAGTTGTATGTCGTTTCCGTGGTAACAATACA
    GTTATGGCTAAAGAAAAAATGGATTATATGGATGTATCGCCGAAGCAAGTTGTTTCAGCA
    GCGACAGCATGTATTCCATTCTTAGAAAACGATGACTCAAACCGTGCATTGATGGGTGCG
    AACATGCAACGTCAAGCAGTGCCTTTGATGAATCCAGAAGCACCATTTGTTGGAACAGGT
    ATGGAACACGTTGCAGCACGTGATTCTGGTGCAGCTATTACAGCTAAGCACAGAGGTCGT
    GTTGAACATGTTGAATCTAATGAAATTCTTGTACGTCGTCTAGTTGAAGAGAACGGCGTT
    GAGCATGAAGGTGAATTAGATCGCTATCCATTAGCTAAATTTAAACGTTCAAACTCAGGT
    ACATGTTACAACCAACGTCCAATCGTTGCAGTTGGAGATGTTGTTGAGTATAACGAGATT
    TTAGCAGATGGACCATCTATGGAATTAGGAGAAATGGCATTAGGTAGAAACGTAGTAGTT
    GGTTTCATGACTTGGGACGGTTACAACTATGAGGATGCCGTTATCATGAGTGAAAGACTT
    GTGAAAGATGACGTGTATACTTCTATTCATATTGAAGAGTATGAATCAGAAGCACGTGAT
    ACTAAGTTAGGACCTGAAGAAATCACAAGAGATATTCCTAATGTTTCTGAAAGTGCACTT
    AAGAACTTAGACGATCGTGGTATCGTTTATATTGGTGCAGAAGTAAAAGATGGAGATATT
    TTAGTTGGTAAAGTAACGCCTAAAGGTGTAACTGAGTTAACTGCCGAAGAAAGATTGTTA
    CATGCAATCTTTGGTGAAAAAGCACGTGAAGTTAGAGATACTTCATTACGTGTACCTCAC
    GGCGCTGGCGGTATCGTTCTTGATGTAAAAGTATTCAATCGTGAAGAAGGCGACGATACA
    TTATCACCTGGTGTAAACCAATTAGTACGTGTATATATCGTTCAAAAACGTAAAATTCAT
    GTTGGTGATAAGATGTGTGGTCGACATGGTAACAAAGGTGTCATTTCTAAGATTGTTCCT
    GAAGAAGATATGCCTTACTTACCAGATGGACGTCCGATCGATATCATGTTAAATCCTCTT
    GGTGTACCATCTCGTATGAACATCGGACAAGTATTAGAGCTACACTTAGGTATGGCTGCT
    AAAAATCTTGGTATTCACGTTGCATCACCAGTATTTGACGGTGCAAACGATGACGATGTA
    TGGTCAACAATTGAAGAAGCTGGTATGGCTCGTGATGGTAAAACTGTACTTTATGATGGA
    CGTACAGGTGAACCATTCGATAACCGTATTTCAGTAGGTGTAATGTACATGTTGAAACTT
    GCGCACATGGTTGATGATAAATTACATGCGCGTTCAACAGGACCATATTCACTTGTTACA
    CAACAACCACTTGGCGGTAAAGCGCAATTCGGTGGACAACGTTTCGGTGAGATGGAGGTA
    TGGGCACTTGAAGCATATGGTGCTGCATACACATTACAAGAAATCTTAACTTACAAATCC
    GATGATACAGTAGGACGTGTGAAAACATACGAGGCTATTGTTAAAGGTGAAAACATCTCT
    AGACCAAGTGTTCCAGAATCATTCCGAGTATTGATGAAAGAATTACAAAGTTTAGGTTTA
    GATGTAAAAGTTATGGATGAGCAAGATAATGAAATCGAAATGACAGACGTTGATGACGAT
    GATGTTGTAGAACGCAAAGTAGATTTACAACAAAATGATGCTCCTGAAACACAAAAAGAA
    GTTACTGATTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1380
    1440
    1500
    1560
    1620
    1680
    1740
    1800
    1860
    1920
    1980
    2040
    2100
    2160
    2220
    2280
    2340
    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: SA0500 [new locus tag: SA_RS02930 ]
  • symbol: RpoB
  • description: DNA-directed RNA polymerase subunit beta
  • length: 1183
  • theoretical pI: 4.6446
  • theoretical MW: 133219
  • GRAVY: -0.43432

⊟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: 1809.2)
    and 1 more
    DNA-directed RNA polymerase subunit B (TIGR03670; EC 2.7.7.6; HMM-score: 300.5)
  • 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: 551.6)
    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]

  • MAGQVVQYGRHRKRRNYARISEVLELPNLIEIQTKSYEWFLREGLIEMFRDISPIEDFTGNLSLEFVDYRLGEPKYDLEESKNRDATYAAPLRVKVRLIIKETGEVKEQEVFMGDFPLMTDTGTFVINGAERVIVSQLVRSPSVYFNEKIDKNGRENYDATIIPNRGAWLEYETDAKDVVYVRIDRTRKLPLTVLLRALGFSSDQEIVDLLGDNEYLRNTLEKDGTENTEQALLEIYERLRPGEPPTVENAKSLLYSRFFDPKRYDLASVGRYKTNKKLHLKHRLFNQKLAEPIVNTETGEIVVEEGTVLDRRKIDEIMDVLESNANSEVFELHGSVIDEPVEIQSIKVYVPNDDEGRTTTVIGNAFPDSEVKCITPADIIASMSYFFNLLSGIGYTDDIDHLGNRRLRSVGELLQNQFRIGLSRMERVVRERMSIQDTESITPQQLINIRPVIASIKEFFGSSQLSQFMDQANPLAELTHKRRLSALGPGGLTRERAQMEVRDVHYSHYGRMCPIETPEGPNIGLINSLSSYARVNEFGFIETPYRKVDLDTHAITDQIDYLTADEEDSYVVAQANSKLDENGRFMDDEVVCRFRGNNTVMAKEKMDYMDVSPKQVVSAATACIPFLENDDSNRALMGANMQRQAVPLMNPEAPFVGTGMEHVAARDSGAAITAKHRGRVEHVESNEILVRRLVEENGVEHEGELDRYPLAKFKRSNSGTCYNQRPIVAVGDVVEYNEILADGPSMELGEMALGRNVVVGFMTWDGYNYEDAVIMSERLVKDDVYTSIHIEEYESEARDTKLGPEEITRDIPNVSESALKNLDDRGIVYIGAEVKDGDILVGKVTPKGVTELTAEERLLHAIFGEKAREVRDTSLRVPHGAGGIVLDVKVFNREEGDDTLSPGVNQLVRVYIVQKRKIHVGDKMCGRHGNKGVISKIVPEEDMPYLPDGRPIDIMLNPLGVPSRMNIGQVLELHLGMAAKNLGIHVASPVFDGANDDDVWSTIEEAGMARDGKTVLYDGRTGEPFDNRISVGVMYMLKLAHMVDDKLHARSTGPYSLVTQQPLGGKAQFGGQRFGEMEVWALEAYGAAYTLQEILTYKSDDTVGRVKTYEAIVKGENISRPSVPESFRVLMKELQSLGLDVKVMDEQDNEIEMTDVDDDDVVERKVDLQQNDAPETQKEVTD

⊟Experimental data[edit | edit source]

  • experimentally validated: data available for COL, NCTC8325
  • protein localization: data available for COL
  • quantitative data / protein copy number per cell: data available for COL
  • interaction partners:
    SA0218(pflB)formate acetyltransferase  [1] (data from MRSA252)
    SA2031(rpsE)30S ribosomal protein S5  [1] (data from MRSA252)
    SA0506(tuf)elongation factor Tu  [1] (data from MRSA252)
    SA0481hypothetical protein  [1] (data from MRSA252)
    SA0482ATP:guanido phosphotransferase  [1] (data from MRSA252)
    SA1532hypothetical protein  [1] (data from MRSA252)
    SA1534hypothetical protein  [1] (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: 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. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 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)

⊟Relevant publications[edit | edit source]

Longzhu Cui, Taisuke Isii, Minoru Fukuda, Tomonori Ochiai, Hui-Min Neoh, Ilana Lopes Baratella da Cunha Camargo, Yukiko Watanabe, Mitsutaka Shoji, Tomomi Hishinuma, Keiichi Hiramatsu
An RpoB mutation confers dual heteroresistance to daptomycin and vancomycin in Staphylococcus aureus.
Antimicrob Agents Chemother: 2010, 54(12);5222-33
[PubMed:20837752] [WorldCat.org] [DOI] (I p)

Retrieved from "http://fungenwikiserver.biologie.uni-greifswald.de/aureowiki/index.php?title=SA0500&oldid=77930"