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NCBI: 03-AUG-2016

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_00507
  • pan locus tag?: SAUPAN002292000
  • symbol: SAOUHSC_00507
  • 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: SAOUHSC_00507
  • symbol: SAOUHSC_00507
  • product: DNA repair protein RadA
  • replicon: chromosome
  • strand: +
  • coordinates: 508167..509531
  • length: 1365
  • essential: no 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
    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: SAOUHSC_00507
  • symbol: SAOUHSC_00507
  • 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  :
    • DNA repair protein RadA
    DNA Metabolism DNA repair DNA repair, bacterial  DNA repair protein RadA
  • PFAM:
    P-loop_NTPase (CL0023) AAA_25; AAA domain (PF13481; HMM-score: 57.5)
    ATPase; KaiC (PF06745; HMM-score: 56.4)
    Zn_Beta_Ribbon (CL0167) Zn_ribbon_LapB; Rubredoxin metal binding domain (PF18073; HMM-score: 47.2)
    and 31 more
    P-loop_NTPase (CL0023) DnaB_C; DnaB-like helicase C terminal domain (PF03796; HMM-score: 30.2)
    S5 (CL0329) ChlI; Subunit ChlI of Mg-chelatase (PF13541; HMM-score: 29.1)
    Lon_C; Lon protease (S16) C-terminal proteolytic domain (PF05362; HMM-score: 28.4)
    P-loop_NTPase (CL0023) Rad51; Rad51 (PF08423; HMM-score: 26.5)
    AAA_16; AAA ATPase domain (PF13191; HMM-score: 25.6)
    AAA_22; AAA domain (PF13401; HMM-score: 24.7)
    AAA_14; AAA domain (PF13173; HMM-score: 22.9)
    RecA; recA bacterial DNA recombination protein (PF00154; HMM-score: 22.2)
    AAA_24; AAA domain (PF13479; HMM-score: 22.2)
    AAA; ATPase family associated with various cellular activities (AAA) (PF00004; HMM-score: 21.7)
    ABC_tran; ABC transporter (PF00005; HMM-score: 21.7)
    SLFN-g3_helicase; Schlafen group 3, DNA/RNA helicase domain (PF09848; HMM-score: 21)
    AAA_5; AAA domain (dynein-related subfamily) (PF07728; HMM-score: 20.8)
    GvpD_P-loop; GvpD gas vesicle protein, P-loop domain (PF07088; HMM-score: 20.4)
    nSTAND3; Novel STAND NTPase 3 (PF20720; HMM-score: 20.3)
    AAA_19; AAA domain (PF13245; HMM-score: 19.7)
    Zn_Beta_Ribbon (CL0167) DUF7129; Domain of unknown function (DUF7129) (PF23455; HMM-score: 19.5)
    P-loop_NTPase (CL0023) NTPase_1; NTPase (PF03266; HMM-score: 18.3)
    CbiA; CobQ/CobB/MinD/ParA nucleotide binding domain (PF01656; HMM-score: 18.2)
    NACHT; NACHT domain (PF05729; HMM-score: 17.5)
    NPHP3_N; Nephrocystin 3, N-terminal (PF24883; HMM-score: 16.6)
    ATPase_2; ATPase domain predominantly from Archaea (PF01637; HMM-score: 16.5)
    MCM; MCM P-loop domain (PF00493; HMM-score: 15.8)
    cobW; CobW/HypB/UreG, nucleotide-binding domain (PF02492; HMM-score: 15.5)
    TIP49; TIP49 P-loop domain (PF06068; HMM-score: 15.5)
    KTI12; Chromatin associated protein KTI12 (PF08433; HMM-score: 14.1)
    ResIII; Type III restriction enzyme, res subunit (PF04851; HMM-score: 13.9)
    DAP3; Mitochondrial ribosomal death-associated protein 3 (PF10236; HMM-score: 12.6)
    Zn_Beta_Ribbon (CL0167) DZR; Double zinc ribbon (PF12773; HMM-score: 12.2)
    Zn_ribbon_RPB9; RNA polymerases M/15 Kd subunit (PF02150; HMM-score: 10.5)
    no clan defined RUBY_RBDX; Rubrerythrin, rubredoxin-like domain (PF21349; HMM-score: 10.3)

⊟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
  • DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.958
    • Cytoplasmic Membrane Score: 0.0203
    • Cell wall & surface Score: 0.0004
    • Extracellular Score: 0.0212
  • 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: PeptideAtlas [1] [2]
  • 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 can add further information about the gene and protein here. [edit]

⊟Literature[edit | edit source]

⊟References[edit | edit source]

  1. ↑ Maren Depke, Stephan Michalik, Alexander Rabe, Kristin Surmann, Lars Brinkmann, Nico Jehmlich, Jörg Bernhardt, Michael Hecker, Bernd Wollscheid, Zhi Sun, Robert L Moritz, Uwe Völker, Frank Schmidt
    A peptide resource for the analysis of Staphylococcus aureus in host-pathogen interaction studies.
    Proteomics: 2015, 15(21);3648-61
    [PubMed:26224020] [WorldCat.org] [DOI] (I p)
  2. ↑ Stephan Michalik, Maren Depke, Annette Murr, Manuela Gesell Salazar, Ulrike Kusebauch, Zhi Sun, Tanja C Meyer, Kristin Surmann, Henrike Pförtner, Petra Hildebrandt, Stefan Weiss, Laura Marcela Palma Medina, Melanie Gutjahr, Elke Hammer, Dörte Becher, Thomas Pribyl, Sven Hammerschmidt, Eric W Deutsch, Samuel L Bader, Michael Hecker, Robert L Moritz, Ulrike Mäder, Uwe Völker, Frank Schmidt
    A global Staphylococcus aureus proteome resource applied to the in vivo characterization of host-pathogen interactions.
    Sci Rep: 2017, 7(1);9718
    [PubMed:28887440] [WorldCat.org] [DOI] (I e)
  3. ↑ 3.0 3.1 3.2 3.3 Ulrike Mäder, Pierre Nicolas, Maren Depke, Jan Pané-Farré, Michel Debarbouille, Magdalena M van der Kooi-Pol, Cyprien Guérin, Sandra Dérozier, Aurelia Hiron, Hanne Jarmer, Aurélie Leduc, Stephan Michalik, Ewoud Reilman, Marc Schaffer, Frank Schmidt, Philippe Bessières, Philippe Noirot, Michael Hecker, Tarek Msadek, Uwe Völker, Jan Maarten van Dijl
    Staphylococcus aureus Transcriptome Architecture: From Laboratory to Infection-Mimicking Conditions.
    PLoS Genet: 2016, 12(4);e1005962
    [PubMed:27035918] [WorldCat.org] [DOI] (I e)

⊟Relevant publications[edit | edit source]

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