From AureoWiki
Jump to navigation Jump to search

NCBI: 26-AUG-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus N315
  • locus tag: SA1188 [new locus tag: SA_RS06750 ]
  • pan locus tag?: SAUPAN003741000
  • symbol: parE
  • pan gene symbol?: parE
  • synonym:
  • product: DNA topoisomerase IV subunit B

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SA1188 [new locus tag: SA_RS06750 ]
  • symbol: parE
  • product: DNA topoisomerase IV subunit B
  • replicon: chromosome
  • strand: +
  • coordinates: 1354328..1356325
  • length: 1998
  • essential: yes [1] 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
    TTGGCAATGAATAAACAAAATAATTATTCAGATGATTCAATACAGGTTTTAGAGGGGTTA
    GAAGCAGTTCGTAAAAGACCTGGTATGTATATTGGATCAACTGATAAACGGGGATTACAT
    CATCTAGTATATGAAATTGTCGATAACTCCGTCGATGAAGTATTGAATGGTTACGGTAAC
    GAAATAGATGTAACAATTAATAAAGATGGTAGTATTTCTATAGAAGATAATGGACGTGGT
    ATGCCAACAGGTATACATAAATCAGGTAAACCGACAGTCGAAGTTATCTTTACTGTTTTA
    CATGCAGGAGGTAAATTTGGACAAGGCGGCTATAAAACTTCAGGTGGTCTTCACGGTGTT
    GGTGCTTCAGTTGTAAATGCATTGAGTGAATGGCTTGAAGTTGAAATCCATCGAGATGGT
    AGTATATATCATCAAAGTTTTAAAAACGGTGGTTCGCCATCTTCTGGTTTAGTGAAAAAA
    GGTAAAACTAAGAAAACAGGTACCAAAGTAACATTTAAACCTGATGACACAATTTTTAAA
    GCATCTACATCATTTAATTTTGATGTTTTAAGCGAACGACTACAAGAGTCTGCGTTCTTA
    TTGAAAAATTTAAAAATAACGCTTAATGATTTACGCAGTGGTAAAGAGCGTCAAGAGCAT
    TACCATTATGAAGAAGGAATCAAAGAGTTTGTTAGTTATGTCAATGAAGGAAAAGAAGTT
    TTGCATGACGTGGCTACATTTTCAGGTGAAGCAAATGGTATAGAGGTAGACGTAGCTTTC
    CAATATAATGATCAATATTCAGAAAGTATTTTAAGTTTTGTAAATAATGTACGTACTAAA
    GATGGTGGTACACATGAAGTTGGTTTTAAAACAGCAATGACACGTGTATTTAATGATTAT
    GCACGTCGTATTAATGAACTTAAAACAAAAGATAAAAACTTAGATGGTAATGATATTCGT
    GAAGGTTTAACAGCTGTTGTGTCTGTTCGTATTCCAGAAGAATTATTACAATTTGAAGGA
    CAAACGAAATCTAAATTGGGTACTTCTGAAGCTAGAAGTGCTGTTGATTCAGTTGTTGCA
    GACAAATTGCCATTCTATTTAGAAGAAAAAGGACAATTGTCTAAATCACTTGTGAAAAAA
    GCGATTAAAGCACAACAAGCAAGGGAAGCTGCACGTAAAGCTCGTGAAGATGCTCGTTCA
    GGTAAGAAAAACAAGCGTAAAGACACTTTGCTATCTGGTAAATTAACACCTGCACAAAGT
    AAAAACACTGAAAAAAATGAATTGTATTTAGTCGAAGGTGATTCTGCGGGAGGTTCAGCA
    AAACTTGGACGAGACCGCAAATTCCAAGCGATATTACCATTACGTGGTAAGGTAATTAAT
    ACAGAGAAAGCACGTCTAGAAGATATTTTTAAAAATGAAGAAATTAATACAATTATCCAC
    ACAATCGGGGCAGGCGTTGGTACTGACTTTAAAATTGAAGATAGTAATTATAATCGTGTA
    ATTATTATGACTGATGCTGATACTGATGGTGCGCATATTCAAGTGCTATTGTTAACATTC
    TTCTTCAAATATATGAAACCGCTTGTTCAAGCAGGTCGTGTATTTATTGCTTTACCTCCA
    CTTTATAAATTGGAAAAAGGTAAAGGCAAAACAAAGCGAGTTGAATACGCTTGGACAGAC
    GAAGAGCTTAATAAATTGCAAAAAGAACTTGGTAAAGGCTTCACGTTACAACGTTACAAA
    GGTTTGGGTGAGATGAACCCTGAACAATTATGGGAAACGACGATGAACCCAGAAACACGA
    ACTTTAATTCGTGTACAAGTTGAAGATGAAGTGCGTTCATCTAAACGTGTAACAACATTA
    ATGGGTGACAAAGTACAACCTAGACGTGAATGGATTGAAAAGCATGTTGAGTTTGGTATG
    CAAGAGGACCAAAGTATTTTAGATAATTCTGAAGTACAAGTGCTTGAAAATGATCAATTT
    GATGAGGAGGAAATCTAG
    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
    1998

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SA1188 [new locus tag: SA_RS06750 ]
  • symbol: ParE
  • description: DNA topoisomerase IV subunit B
  • length: 665
  • theoretical pI: 6.9121
  • theoretical MW: 74538.5
  • GRAVY: -0.620752

⊟Function[edit | edit source]

  • reaction:
    EC 5.99.1.3?  ExPASy
    DNA topoisomerase (ATP-hydrolyzing) ATP-dependent breakage, passage and rejoining of double-stranded DNA
  • TIGRFAM:
    Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA topoisomerase IV, B subunit (TIGR01058; EC 5.99.1.-; HMM-score: 1068.4)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA gyrase, B subunit (TIGR01059; EC 5.99.1.3; HMM-score: 864.5)
    and 1 more
    Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA topoisomerase IV, B subunit (TIGR01055; EC 5.99.1.-; HMM-score: 541)
  • TheSEED  :
    • DNA topoisomerase IV subunit B (EC 5.6.2.2)
    DNA Metabolism DNA replication DNA topoisomerases, Type II, ATP-dependent  DNA gyrase subunit B (EC 5.99.1.3)
    and 3 more
    DNA Metabolism DNA replication DNA topoisomerases, Type II, ATP-dependent  Topoisomerase IV subunit B (EC 5.99.1.-)
    Virulence, Disease and Defense Resistance to antibiotics and toxic compounds Resistance to fluoroquinolones  DNA gyrase subunit B (EC 5.99.1.3)
    Virulence, Disease and Defense Resistance to antibiotics and toxic compounds Resistance to fluoroquinolones  Topoisomerase IV subunit B (EC 5.99.1.-)
  • PFAM:
    S5 (CL0329) DNA_gyraseB; DNA gyrase B (PF00204; HMM-score: 197.2)
    and 4 more
    no clan defined DNA_gyraseB_C; DNA gyrase B subunit, carboxyl terminus (PF00986; HMM-score: 102.2)
    His_Kinase_A (CL0025) HATPase_c; Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase (PF02518; HMM-score: 83.4)
    Toprim-like (CL0413) Toprim; Toprim domain (PF01751; HMM-score: 64.1)
    His_Kinase_A (CL0025) HATPase_c_3; Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase (PF13589; HMM-score: 23.6)

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

  • domains:
  • modifications:
  • cofactors: Ca2+, Mg2+, Mn2+
  • effectors:

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.67
    • Cytoplasmic Membrane Score: 0.01
    • Cellwall Score: 0.15
    • Extracellular Score: 0.17
    • 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): 0.005168
    • TAT(Tat/SPI): 0.000305
    • LIPO(Sec/SPII): 0.000564
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MAMNKQNNYSDDSIQVLEGLEAVRKRPGMYIGSTDKRGLHHLVYEIVDNSVDEVLNGYGNEIDVTINKDGSISIEDNGRGMPTGIHKSGKPTVEVIFTVLHAGGKFGQGGYKTSGGLHGVGASVVNALSEWLEVEIHRDGSIYHQSFKNGGSPSSGLVKKGKTKKTGTKVTFKPDDTIFKASTSFNFDVLSERLQESAFLLKNLKITLNDLRSGKERQEHYHYEEGIKEFVSYVNEGKEVLHDVATFSGEANGIEVDVAFQYNDQYSESILSFVNNVRTKDGGTHEVGFKTAMTRVFNDYARRINELKTKDKNLDGNDIREGLTAVVSVRIPEELLQFEGQTKSKLGTSEARSAVDSVVADKLPFYLEEKGQLSKSLVKKAIKAQQAREAARKAREDARSGKKNKRKDTLLSGKLTPAQSKNTEKNELYLVEGDSAGGSAKLGRDRKFQAILPLRGKVINTEKARLEDIFKNEEINTIIHTIGAGVGTDFKIEDSNYNRVIIMTDADTDGAHIQVLLLTFFFKYMKPLVQAGRVFIALPPLYKLEKGKGKTKRVEYAWTDEELNKLQKELGKGFTLQRYKGLGEMNPEQLWETTMNPETRTLIRVQVEDEVRSSKRVTTLMGDKVQPRREWIEKHVEFGMQEDQSILDNSEVQVLENDQFDEEEI

⊟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:
  • interaction partners:
    SA1305(hu)DNA-binding protein II  [2] (data from MRSA252)
    SA0943-1(pdhA)pyruvate dehydrogenase E1 component subunit alpha  [2] (data from MRSA252)
    SA0944(pdhB)pyruvate dehydrogenase E1 component subunit beta  [2] (data from MRSA252)
    SA0945(pdhC)branched-chain alpha-keto acid dehydrogenase E2 subunit  [2] (data from MRSA252)
    SA0946(pdhD)dihydrolipoamide dehydrogenase  [2] (data from MRSA252)
    SA2044(rplB)50S ribosomal protein L2  [2] (data from MRSA252)
    SA0498(rplL)50S ribosomal protein L7/L12  [2] (data from MRSA252)
    SA2029(rplO)50S ribosomal protein L15  [2] (data from MRSA252)
    SA1473(rplU)50S ribosomal protein L21  [2] (data from MRSA252)
    SA2042(rplV)50S ribosomal protein L22  [2] (data from MRSA252)
    SA0500(rpoB)DNA-directed RNA polymerase subunit beta  [2] (data from MRSA252)
    SA2031(rpsE)30S ribosomal protein S5  [2] (data from MRSA252)
    SA2024(rpsK)30S ribosomal protein S11  [2] (data from MRSA252)
    SA0506(tuf)elongation factor Tu  [2] (data from MRSA252)
    SA0627hypothetical protein  [2] (data from MRSA252)

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator: LexA (repression) regulon
    LexA(TF)important in SOS response; RegPrecise 

⊟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. ↑ R Allyn Forsyth, Robert J Haselbeck, Kari L Ohlsen, Robert T Yamamoto, Howard Xu, John D Trawick, Daniel Wall, Liangsu Wang, Vickie Brown-Driver, Jamie M Froelich, Kedar G C, Paula King, Melissa McCarthy, Cheryl Malone, Brian Misiner, David Robbins, Zehui Tan, Zhan-yang Zhu Zy, Grant Carr, Deborah A Mosca, Carlos Zamudio, J Gordon Foulkes, Judith W Zyskind
    A genome-wide strategy for the identification of essential genes in Staphylococcus aureus.
    Mol Microbiol: 2002, 43(6);1387-400
    [PubMed:11952893] [WorldCat.org] [DOI] (P p)
  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 2.12 2.13 2.14 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]

Retrieved from "http://aureowiki.med.uni-greifswald.de/index.php?title=SA1188&oldid=92306"