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NCBI: 10-JUN-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus COL
  • locus tag: SACOL1267 [new locus tag: SACOL_RS06470 ]
  • pan locus tag?: SAUPAN003548000
  • symbol: topA
  • pan gene symbol?: topA
  • synonym:
  • product: DNA topoisomerase I

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SACOL1267 [new locus tag: SACOL_RS06470 ]
  • symbol: topA
  • product: DNA topoisomerase I
  • replicon: chromosome
  • strand: +
  • coordinates: 1276590..1278659
  • length: 2070
  • 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
    TTGGCAGATAATTTAGTCATTGTTGAATCGCCTGCAAAAGCAAAAACCATTGAAAAGTAT
    TTAGGTAAGAAATATAAAGTTATAGCTTCAATGGGACACGTCAGAGACTTACCAAGAAGT
    CAAATGGGTGTCGACACTGAAGATAATTACGAACCAAAATATATAACAATACGCGGAAAA
    GGTCCTGTTGTAAAAGAATTGAAAAAACATGCAAAAAAAGCGAAAAACGTCTTTCTCGCA
    AGTGACCCCGACCGTGAAGGTGAAGCAATTGCTTGGCATTTATCAAAAATTTTAGAGCTT
    GAAGATTCTAAAGAAAATCGCGTTGTTTTCAACGAAATAACTAAAGACGCTGTTAAAGAA
    AGTTTTAAAAATCCTAGAGAAATTGAAATGAACTTAGTCGATGCACAACAAGCGCGTCGA
    ATATTAGATAGATTAGTTGGCTATAACATCTCGCCAGTTCTTTGGAAAAAAGTAAAAAAA
    GGGTTGTCAGCGGGTCGAGTTCAATCTGTTGCACTTCGTTTAGTCATTGACCGTGAAAAT
    GAAATTCGAAACTTTAAACCAGAAGAATATTGGACTATTGAAGGAGAATTTAGATACAAA
    AAATCAAAATTCAATGCTAAATTCCTTCATTATAAAAATAAACCTTTTAAACTAAAAACG
    AAAAAAGATGTTGAGAAAATTACAGCTGCATTAGATGGAGATCAATTCGAAATTACAAAC
    GTGACTAAAAAAGAAAAAACGCGTAATCCAGCAAACCCATTTACAACTTCTACATTACAA
    CAAGAGGCGGCACGTAAATTAAACTTTAAAGCAAGAAAAACAATGATGGTCGCACAACAA
    TTATATGAAGGTATAGATTTGAAAAAACAAGGTACGATTGGTTTAATAACATATATGAGA
    ACCGATTCTACACGTATTTCAGATACTGCCAAAGTTGAAGCAAAACAGTATATAACTGAT
    AAATACGGTGAATCTTACACTTCTAAACGTAAAGCATCAGGGAAACAAGGTGACCAAGAT
    GCCCATGAGGCTATTAGACCTTCAAGTACTATGCGTACGCCAGATGATATGAAGTCATTT
    TTGACGAAAGACCAATACCGATTATACAAATTAATTTGGGAACGATTTGTTGCTAGTCAA
    ATGGCTCCAGCAATACTTGATACAGTCTCATTAGACATAACACAAGGTGACATTAAATTT
    AGAGCGAATGGTCAAACAATCAAGTTTAAAGGATTTATGACACTTTATGTAGAAACTAAA
    GATGATAGTGATAGCGAAAAGGAAAATAAACTGCCTAAATTAGAGCAAGGTGATAAAGTC
    ACAGCAACTCAAATTGAACCAGCTCAACACTATACACAACCACCTCCAAGATATACTGAG
    GCGAGATTAGTAAAAACACTAGAAGAATTGAAAATTGGGCGACCATCAACTTATGCACCG
    ACAATAGATACGATTCAAAAGCGTAACTATGTCAAATTAGAAAGTAAGCGTTTTGTTCCT
    ACTGAGTTGGGAGAAATAGTTCATGAACAAGTGAAAGAATACTTCCCAGAGATTATTGAT
    GTGGAATTCACAGTGAATATGGAAACGTTACTTGATAAGATTGCAGAAGGCGACATTACA
    TGGAGGAAAGTAATCGACGGTTTCTTTAGTAGCTTTAAACAAGATGTTGAACGTGCTGAA
    GAAGAGATGGAAAAGATTGAAATCAAAGATGAGCCAGCCGGTGAAGACTGTGAAATTTGT
    GGTTCTCCTATGGTTATAAAAATGGGACGCTATGGTAAGTTCATGGCTTGCTCAAACTTC
    CCGGATTGTCGTAATACAAAAGCGATAGTTAAGTCTATTGGTGTTAAATGTCCAAAATGT
    AATGATGGTGACGTCGTAGAAAGAAAATCTAAAAAGAATCGTGTCTTTTATGGATGTTCG
    AAATATCCTGAATGCGACTTTATCTCTTGGGATAAGCCGATTGGAAGAGATTGTCCAAAA
    TGTAACCAATATCTTGTTGAAAATAAAAAAGGCAAGACAACACAAGTAATATGTTCAAAT
    TGCGATTATAAAGAGGCAGCGCAGAAATAA
    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
    2070

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SACOL1267 [new locus tag: SACOL_RS06470 ]
  • symbol: TopA
  • description: DNA topoisomerase I
  • length: 689
  • theoretical pI: 9.4884
  • theoretical MW: 79112.3
  • GRAVY: -0.725835

⊟Function[edit | edit source]

  • reaction:
    EC 5.99.1.2?  ExPASy
    DNA topoisomerase ATP-independent breakage of single-stranded DNA, followed by passage and rejoining
  • TIGRFAM:
    Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA topoisomerase I (TIGR01051; EC 5.99.1.2; HMM-score: 859.4)
    and 6 more
    Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA topoisomerase I (TIGR01057; EC 5.99.1.2; HMM-score: 312.1)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair reverse gyrase (TIGR01054; EC 3.6.4.12,5.99.1.3; HMM-score: 309.4)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA topoisomerase III (TIGR01056; EC 5.99.1.2; HMM-score: 211.2)
    Genetic information processing Transcription RNA processing ribonuclease M5 (TIGR00334; EC 3.1.26.8; HMM-score: 15.2)
    conserved hypothetical protein (TIGR02443; HMM-score: 5.8)
    Metabolism Energy metabolism Methanogenesis methyl coenzyme M reductase system, component A2 (TIGR03269; HMM-score: 5.6)
  • TheSEED  :
    • DNA topoisomerase I (EC 5.99.1.2)
    Conserved gene cluster associated with Met-tRNA formyltransferase  DNA topoisomerase I (EC 5.99.1.2)
  • PFAM:
    no clan defined Topoisom_bac; DNA topoisomerase (PF01131; HMM-score: 446.1)
    and 10 more
    Zn_Beta_Ribbon (CL0167) zf-C4_Topoisom; Topoisomerase DNA binding C4 zinc finger (PF01396; HMM-score: 108.3)
    Toprim-like (CL0413) Toprim; Toprim domain (PF01751; HMM-score: 106.5)
    Toprim_4; Toprim domain (PF13662; HMM-score: 18.5)
    Toprim_2; Toprim-like (PF13155; HMM-score: 15.5)
    Zn_Beta_Ribbon (CL0167) RNA_POL_M_15KD; RNA polymerases M/15 Kd subunit (PF02150; HMM-score: 14.8)
    Auto_anti-p27; Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27) (PF06677; HMM-score: 12.1)
    IHF-likeDNA-bdg (CL0548) Bac_DNA_binding; Bacterial DNA-binding protein (PF00216; HMM-score: 11.8)
    no clan defined HypA; Hydrogenase/urease nickel incorporation, metallochaperone, hypA (PF01155; HMM-score: 10)
    Zn_Beta_Ribbon (CL0167) zf-TFIIB; Transcription factor zinc-finger (PF13453; HMM-score: 9.5)
    RING (CL0229) IBR; IBR domain, a half RING-finger domain (PF01485; HMM-score: 7.1)

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

  • domains:
  • modifications:
  • cofactors: Mg2+
  • 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): 0.005724
    • TAT(Tat/SPI): 0.000361
    • LIPO(Sec/SPII): 0.000737
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MADNLVIVESPAKAKTIEKYLGKKYKVIASMGHVRDLPRSQMGVDTEDNYEPKYITIRGKGPVVKELKKHAKKAKNVFLASDPDREGEAIAWHLSKILELEDSKENRVVFNEITKDAVKESFKNPREIEMNLVDAQQARRILDRLVGYNISPVLWKKVKKGLSAGRVQSVALRLVIDRENEIRNFKPEEYWTIEGEFRYKKSKFNAKFLHYKNKPFKLKTKKDVEKITAALDGDQFEITNVTKKEKTRNPANPFTTSTLQQEAARKLNFKARKTMMVAQQLYEGIDLKKQGTIGLITYMRTDSTRISDTAKVEAKQYITDKYGESYTSKRKASGKQGDQDAHEAIRPSSTMRTPDDMKSFLTKDQYRLYKLIWERFVASQMAPAILDTVSLDITQGDIKFRANGQTIKFKGFMTLYVETKDDSDSEKENKLPKLEQGDKVTATQIEPAQHYTQPPPRYTEARLVKTLEELKIGRPSTYAPTIDTIQKRNYVKLESKRFVPTELGEIVHEQVKEYFPEIIDVEFTVNMETLLDKIAEGDITWRKVIDGFFSSFKQDVERAEEEMEKIEIKDEPAGEDCEICGSPMVIKMGRYGKFMACSNFPDCRNTKAIVKSIGVKCPKCNDGDVVERKSKKNRVFYGCSKYPECDFISWDKPIGRDCPKCNQYLVENKKGKTTQVICSNCDYKEAAQK

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas
  • protein localization: Cytoplasmic [1] [2]
  • quantitative data / protein copy number per cell: 176 [3]
  • 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. ↑ 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. ↑ 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)
  3. ↑ 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)

⊟Relevant publications[edit | edit source]

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