From AureoWiki
Jump to navigation Jump to search

NCBI: 06-JUL-2013

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus Newman
  • locus tag: NWMN_0488 [new locus tag: NWMN_RS02855 ]
  • pan locus tag?: SAUPAN002292000
  • symbol: radA
  • pan gene symbol?: radA
  • synonym:
  • product: DNA repair protein RadA

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: NWMN_0488 [new locus tag: NWMN_RS02855 ]
  • symbol: radA
  • product: DNA repair protein RadA
  • replicon: chromosome
  • strand: +
  • coordinates: 562084..563448
  • length: 1365
  • 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
    TTGGCCAAGAAAAAAGTGATTTTTGAATGTATGGCTTGTGGTTATCAATCTCCTAAATGG
    ATGGGGAAATGTCCTAATTGTGGCGCTTGGAATCAAATGGAGGAAATTGTTGAAAAAGCA
    GCCAATCCTAAACATGGAGTTAAAACCAAGGAATTAGCAGGTAAAGTACAAAAATTAAAT
    AGTATTAAACATGAAACAACGCCGAGAGTGTTAACAGATTCAGCAGAATTCAACCGTGTA
    TTAGGTGGAGGTATTGTGAGCGGATCGTTAGTACTTATTGGTGGGGATCCAGGTATTGGT
    AAGTCAACGTTACTTTTACAAATTTGTGCATCGTTATCTCAAAAGAAAAAAGTACTATAT
    ATTACTGGAGAAGAATCGCTTAGTCAGACTAAATTACGTGCAGAGCGATTAGATGAAGAT
    TCAAGTGAATTGCAAGTATTAGCTGAAACAGATCTTGAAGTTATTTATCAAACAGTAAAA
    GAAGAACAACCTGATTTATTAGTAGTGGATTCGATTCAAACAATATATCATCCTGAAATC
    AGCTCTGCGCCAGGTTCTGTTTCACAAGTTCGTGAAAGTACACAAAGTTTAATGAATATT
    GCTAAACAAATGAACATTGCAACTTTTATAGTGGGTCATGTAACGAAAGAAGGTCAAATT
    GCTGGCCCAAGATTGCTAGAACACATGGTTGATACTGTGCTTTATTTTGAAGGCGATGAA
    CACCACGCATATCGAATTTTGCGAGCTGTTAAAAACCGTTTTGGTTCAACGAATGAAATG
    GGAATCTTCGAAATGAAGCAAAGTGGATTAAAAGGTGTAAATAATCCATCTGAAATGTTT
    TTAGAAGAACGTTCAACAAATGTTCCAGGTTCAACAATTGTTGCAACCATGGAGGGAACC
    AGACCACTTTTAATAGAAGTTCAAGCGCTGGTAACTCCAACGACTTTTAACAATCCGAGA
    CGAATGGCAACAGGGATTGATCATAATCGATTAAGTTTGTTGATGGCTGTTTTGGAAAAG
    AAAGAAAATTATCTATTACAACAACAAGATGCTTATATCAAAGTAGCTGGCGGTGTAAAG
    TTAACGGAGCCAGCAGTTGATTTAAGTGTAATTGTAGCAACTGCATCTAGCTTTAAAGAT
    AAAGCTGTCGACGGATTAGATTGCTATATTGGAGAAGTTGGTTTAACGGGTGAGGTACGT
    CGTGTATCTCGGATAGAACAACGCGTGCAAGAGGCTGCAAAACTAGGTTTCAAACGTGTA
    ATTATTCCTAAAAATAATATAGGCGGATGGACATATCCTGAAGGTATACAAGTAATAGGT
    GTAACTACTGTACATGAAGTATTGTCATTTGCTCTTCATTCATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1365

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: NWMN_0488 [new locus tag: NWMN_RS02855 ]
  • symbol: RadA
  • description: DNA repair protein RadA
  • length: 454
  • theoretical pI: 7.05095
  • theoretical MW: 49863.1
  • GRAVY: -0.169383

⊟Function[edit | edit source]

  • TIGRFAM:
    Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA repair protein RadA (TIGR00416; HMM-score: 665.7)
    and 25 more
    Cellular processes Cellular processes Sporulation and germination ATP-dependent protease LonB (TIGR02902; EC 3.4.21.-; HMM-score: 59.9)
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides ATP-dependent protease LonB (TIGR02902; EC 3.4.21.-; HMM-score: 59.9)
    DNA repair and recombination protein RadB (TIGR02237; HMM-score: 51.9)
    KaiC domain protein, PAE1156 family (TIGR03881; HMM-score: 40.2)
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides putative ATP-dependent protease (TIGR00764; HMM-score: 37.8)
    Cellular processes Cellular processes Sporulation and germination ATP-dependent protease, Lon family (TIGR02903; EC 3.4.21.-; HMM-score: 36.2)
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides ATP-dependent protease, Lon family (TIGR02903; EC 3.4.21.-; HMM-score: 36.2)
    KaiC domain protein, Ph0284 family (TIGR03877; HMM-score: 30.4)
    Genetic information processing Mobile and extrachromosomal element functions Prophage functions phage replicative helicase, DnaB family (TIGR03600; HMM-score: 27.1)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair protein RecA (TIGR02012; HMM-score: 25.9)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair replicative DNA helicase (TIGR00665; EC 3.6.4.12; HMM-score: 24.8)
    KaiC domain protein, AF_0351 family (TIGR03880; HMM-score: 24.6)
    Genetic information processing Protein fate Degradation of proteins, peptides, and glycopeptides endopeptidase La (TIGR00763; EC 3.4.21.53; HMM-score: 24.5)
    meiotic recombinase Dmc1 (TIGR02238; HMM-score: 21.8)
    Unknown function General Mg chelatase-like protein (TIGR00368; HMM-score: 21)
    DNA repair protein RAD51 (TIGR02239; HMM-score: 20)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair DNA repair and recombination protein RadA (TIGR02236; HMM-score: 19.9)
    Hypothetical proteins Conserved conserved hypothetical protein (TIGR02653; HMM-score: 16.8)
    Genetic information processing DNA metabolism DNA replication, recombination, and repair DnaA regulatory inactivator Hda (TIGR03420; HMM-score: 15.7)
    Cellular processes Cellular processes Other circadian clock protein KaiC (TIGR02655; EC 2.7.11.1; HMM-score: 13.9)
    Genetic information processing Protein fate Protein and peptide secretion and trafficking heme ABC exporter, ATP-binding protein CcmA (TIGR01189; EC 3.6.3.41; HMM-score: 13.8)
    Metabolism Transport and binding proteins Other heme ABC exporter, ATP-binding protein CcmA (TIGR01189; EC 3.6.3.41; HMM-score: 13.8)
    Cellular processes Cellular processes Toxin production and resistance putative bacteriocin export ABC transporter, lactococcin 972 group (TIGR03608; HMM-score: 13.4)
    Metabolism Transport and binding proteins Unknown substrate putative bacteriocin export ABC transporter, lactococcin 972 group (TIGR03608; HMM-score: 13.4)
    Metabolism Transport and binding proteins Other pleiotropic drug resistance family protein (TIGR00956; HMM-score: 9.6)
  • TheSEED: data available for COL, N315, NCTC8325, USA300_FPR3757
  • PFAM:
    P-loop_NTPase (CL0023) AAA_25; AAA domain (PF13481; HMM-score: 58.2)
    ATPase; KaiC (PF06745; HMM-score: 55.7)
    and 29 more
    Rad51; Rad51 (PF08423; HMM-score: 36.4)
    S5 (CL0329) ChlI; Subunit ChlI of Mg-chelatase (PF13541; HMM-score: 30.3)
    Lon_C; Lon protease (S16) C-terminal proteolytic domain (PF05362; HMM-score: 27.5)
    P-loop_NTPase (CL0023) DnaB_C; DnaB-like helicase C terminal domain (PF03796; HMM-score: 26.7)
    AAA_16; AAA ATPase domain (PF13191; HMM-score: 26.3)
    RecA; recA bacterial DNA recombination protein (PF00154; HMM-score: 24)
    AAA; ATPase family associated with various cellular activities (AAA) (PF00004; HMM-score: 23.3)
    AAA_24; AAA domain (PF13479; HMM-score: 23.1)
    AAA_22; AAA domain (PF13401; HMM-score: 22.6)
    AAA_14; AAA domain (PF13173; HMM-score: 22.2)
    ABC_tran; ABC transporter (PF00005; HMM-score: 20.9)
    AAA_5; AAA domain (dynein-related subfamily) (PF07728; HMM-score: 20)
    NACHT; NACHT domain (PF05729; HMM-score: 17.9)
    CbiA; CobQ/CobB/MinD/ParA nucleotide binding domain (PF01656; HMM-score: 17)
    NTPase_1; NTPase (PF03266; HMM-score: 17)
    AAA_19; AAA domain (PF13245; HMM-score: 16.4)
    DUF2075; Uncharacterized conserved protein (DUF2075) (PF09848; HMM-score: 15.7)
    ATPase_2; ATPase domain predominantly from Archaea (PF01637; HMM-score: 15.2)
    MCM; MCM2/3/5 family (PF00493; HMM-score: 14.1)
    cobW; CobW/HypB/UreG, nucleotide-binding domain (PF02492; HMM-score: 14.1)
    GvpD; GvpD gas vesicle protein (PF07088; HMM-score: 13.9)
    TIP49; TIP49 C-terminus (PF06068; HMM-score: 13.7)
    AAA_30; AAA domain (PF13604; HMM-score: 13.7)
    Zeta_toxin; Zeta toxin (PF06414; HMM-score: 13.4)
    KTI12; Chromatin associated protein KTI12 (PF08433; HMM-score: 13.3)
    AAA_23; AAA domain (PF13476; HMM-score: 13.1)
    IstB_IS21; IstB-like ATP binding protein (PF01695; HMM-score: 13)
    DAP3; Mitochondrial ribosomal death-associated protein 3 (PF10236; HMM-score: 12.3)
    Zn_Beta_Ribbon (CL0167) RNA_POL_M_15KD; RNA polymerases M/15 Kd subunit (PF02150; HMM-score: 10.4)

⊟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): 0.089376
    • TAT(Tat/SPI): 0.00071
    • LIPO(Sec/SPII): 0.01793
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MAKKKVIFECMACGYQSPKWMGKCPNCGAWNQMEEIVEKAANPKHGVKTKELAGKVQKLNSIKHETTPRVLTDSAEFNRVLGGGIVSGSLVLIGGDPGIGKSTLLLQICASLSQKKKVLYITGEESLSQTKLRAERLDEDSSELQVLAETDLEVIYQTVKEEQPDLLVVDSIQTIYHPEISSAPGSVSQVRESTQSLMNIAKQMNIATFIVGHVTKEGQIAGPRLLEHMVDTVLYFEGDEHHAYRILRAVKNRFGSTNEMGIFEMKQSGLKGVNNPSEMFLEERSTNVPGSTIVATMEGTRPLLIEVQALVTPTTFNNPRRMATGIDHNRLSLLMAVLEKKENYLLQQQDAYIKVAGGVKLTEPAVDLSVIVATASSFKDKAVDGLDCYIGEVGLTGEVRRVSRIEQRVQEAAKLGFKRVIIPKNNIGGWTYPEGIQVIGVTTVHEVLSFALHS

⊟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]

Retrieved from "http://aureowiki.med.uni-greifswald.de/index.php?title=NWMN_0488&oldid=56661"