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NCBI: 06-JUL-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus Newman
  • locus tag: NWMN_1055 [new locus tag: NWMN_RS05960 ]
  • pan locus tag?: SAUPAN003381000
  • symbol: rpoD
  • pan gene symbol?: polX
  • synonym:
  • product: hypothetical protein

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: NWMN_1055 [new locus tag: NWMN_RS05960 ]
  • symbol: rpoD
  • product: hypothetical protein
  • replicon: chromosome
  • strand: +
  • coordinates: 1157536..1159248
  • length: 1713
  • 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
    ATGACAAAAAAAGATGTTATCAAACTATTAGAACAAATTGCTACTTATATGGAATTAAAA
    GGGGAAAATACTTTTAAAATATCAGCGTATCGAAAAGCAGCTCAAAGTCTTGAATTAGAT
    GAACGACCATTAGATGAAATATCTGATGTAACGGAGTTAAAAGGCATTGGTAAAGGTGTT
    GCAGAAGTAATCAATGATTACCGTGAGACCGGTGAATCTCAGTATTTACAGCAATTACAG
    GAAGAAGTTCCGGAAGGTCTTATTCCACTTTTGAAAATTCAAGGACTTGGAAGCAAGAAA
    ATTGCTAAGCTATATAAAGAGTTGAATATTGTTGATAAAGCGTCACTTCAAGTTGCTTGT
    GAAAATGGAAAAGTTAGTGAATTAAGCGGATTTGCTAAGAAAACGGAACAAAACATATTA
    GAAGCTGTGAAACAACTTGGTGCTAAGAAAGATAGATATCCAATTGATCAAATGAGAAGA
    CTTAATCAAGAAATCATTGATTATATAGATACATTAAATTATATCGATCAATATTCATCT
    GCAGGAAGCTTCCGTCGTTTTAAAGAAATGAGCAAAGATTTAGATTTCATAATAAGTACC
    GATAACCCAAAAGCAGTGCAGCAGCAATTATTAAATATTCCCAATAAAGTAAAAGAAGTT
    GCAGTGGGGAACACAAAAGTTTCATTAGAATTAGCGTATGATGATGAAACGATTGGTGTC
    GATTTTCGATTAATTGAACCAAGTGCTTTTTATCATACATTGCAGCATTTTACTGGGTCA
    AAAGAACATAATATAAGAATTCGACAACTTGCTAAAGCACGTGATGAAAAAGTAAGTGAA
    TATGGAATTGAACAAGCTGATGGTACATTAATTCAATATGATAGTGAAGCCAAGATATAT
    GAACATTTTAATGTGAATTTTATACCACCTGCTATGCGAGAAGATGGTAGCGAATTTGAT
    AAAGATCTAAGTAATATCATTACAATAGATGATATTAATGGTGATATTCATATGCATACA
    ACGTATAGTGATGGTGCGTTTTCTATTCGAGACATGGTAGAAGCAAATATCGCAAAAGGT
    TATAAATTCATGGTAATTACTGATCATTCACAAAGTTTACGTGTTGCTAATGGCTTACAA
    GTAGAAAGACTTTTAAGACAAAACGAAGAAATTAAGGCTTTAGATAAAGAATATAGTGAA
    ATTGATATTTATTCAGGTACAGAAATGGATATATTACCTGATGGCTCGCTGGATTATGAT
    GATGAAATTTTAGCACAACTTGATTATGTAATTGGAGCTATTCATCAAAGCTTTAACCAA
    TCAGAAGAACAAATTATGGAACGATTAGCTAATGCATGTCGCAATCCATACGTGCGACAT
    ATAGCGCATCCAACAGGGCGTATTATAGGTAGAAGAGATGGTTATAAACCGAATATTGAA
    CAATTAATGGCATTAGCTGAAGAAACGAATACAGTATTAGAAATTAATGCCAATCCACAT
    CGACTGGATCTGAGCGCTGATATCGTTCGTAAATATCCAAATGTGAAATTAACTATTAAC
    ACTGATGCGCATCATACAAATCATTTAGATTTTATGAATTATGGCGTAGCAACTGCGCAA
    AAAGGATTTGTAACAAAAGATAGAGTGATTAACGCATTATCGCGTGAAGCTTTTAAAGAC
    TTTATTGAAAATAATACAAAACTTAAGAAATAG
    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
    1713

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: NWMN_1055 [new locus tag: NWMN_RS05960 ]
  • symbol: RpoD
  • description: hypothetical protein
  • length: 570
  • theoretical pI: 5.01717
  • theoretical MW: 64869.8
  • GRAVY: -0.51807

⊟Function[edit | edit source]

  • TIGRFAM:
    histidinol phosphate phosphatase, HisJ family (TIGR01856; HMM-score: 37.9)
    and 2 more
    Cellular processes Cellular processes DNA transformation comEA protein (TIGR01259; HMM-score: 11.6)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair Holliday junction DNA helicase RuvA (TIGR00084; EC 3.6.4.12; HMM-score: 9.5)
  • TheSEED: data available for COL, N315, NCTC8325, USA300_FPR3757
  • PFAM:
    HHH (CL0198) HHH_8; Helix-hairpin-helix domain (PF14716; HMM-score: 72.6)
    no clan defined DNA_pol_B_thumb; DNA polymerase beta thumb (PF14791; HMM-score: 58.9)
    and 4 more
    Amidohydrolase (CL0034) PHP; PHP domain (PF02811; HMM-score: 33.3)
    HHH (CL0198) HHH_5; Helix-hairpin-helix domain (PF14520; HMM-score: 25)
    NTP_transf (CL0260) DNA_pol_B_palm; DNA polymerase beta palm (PF14792; HMM-score: 21.3)
    HHH (CL0198) HHH_3; Helix-hairpin-helix motif (PF12836; HMM-score: 15.8)

⊟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): 0.006631
    • TAT(Tat/SPI): 0.000422
    • LIPO(Sec/SPII): 0.000559
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MTKKDVIKLLEQIATYMELKGENTFKISAYRKAAQSLELDERPLDEISDVTELKGIGKGVAEVINDYRETGESQYLQQLQEEVPEGLIPLLKIQGLGSKKIAKLYKELNIVDKASLQVACENGKVSELSGFAKKTEQNILEAVKQLGAKKDRYPIDQMRRLNQEIIDYIDTLNYIDQYSSAGSFRRFKEMSKDLDFIISTDNPKAVQQQLLNIPNKVKEVAVGNTKVSLELAYDDETIGVDFRLIEPSAFYHTLQHFTGSKEHNIRIRQLAKARDEKVSEYGIEQADGTLIQYDSEAKIYEHFNVNFIPPAMREDGSEFDKDLSNIITIDDINGDIHMHTTYSDGAFSIRDMVEANIAKGYKFMVITDHSQSLRVANGLQVERLLRQNEEIKALDKEYSEIDIYSGTEMDILPDGSLDYDDEILAQLDYVIGAIHQSFNQSEEQIMERLANACRNPYVRHIAHPTGRIIGRRDGYKPNIEQLMALAEETNTVLEINANPHRLDLSADIVRKYPNVKLTINTDAHHTNHLDFMNYGVATAQKGFVTKDRVINALSREAFKDFIENNTKLKK

⊟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:

⊟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]

⊟Relevant publications[edit | edit source]

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