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NCBI: 03-AUG-2016

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_00242
  • pan locus tag?: SAUPAN001157000
  • symbol: SAOUHSC_00242
  • pan gene symbol?: rbsR
  • synonym:
  • product: hypothetical protein

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SAOUHSC_00242
  • symbol: SAOUHSC_00242
  • product: hypothetical protein
  • replicon: chromosome
  • strand: -
  • coordinates: 262382..263380
  • length: 999
  • 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
    ATGAAAAAAGTGTCAATTAAAGATGTTGCTAGAGAAGCTGGTGTATCAGTTACAACTGTG
    TCACATATTTTAAATCATAATGATAGTCGTTTTTCCGCAACAACGATAAAAAACGTACAT
    GCTGTTTCAGAACGTTTAGGCTATGCCCCTAATAAACATGCAAAACAATTGCGCGGCAGT
    AAAATTCAAACTATTGGCGTCATTTTGCCTAGCTTAACAAATCCGTTTTTCTCAGCACTG
    ATGCAAAGTATTCATGACCATAAACCATCTGATGTTGATTTATGCTTTTTAACATCTACA
    GCAACTGATTTGTATGACAATATTAAACATTTAATTGATCGAGGTATTGACGGATTAATT
    ATCGCACAATACATATCATCCCCGGACGCCCTAAATAACTATCTAAAGAAACATCATGTA
    CCTTATGTCGTACTGGATCAAAATGACCATCAAGGCTATACAGATTTTGTTCGGACAAAT
    GAATATCAAGGTGGACAACTTGCAGCACAACATTTAATAGAACTCGGTCACAACCATATG
    ATAATTGTTGCACCATATGACATGATGGCGAATATGTCGACTCGTGTCGCTGGATTTGTC
    GATACTTTGCGCGCGAATCAATTGCCAGAACCACAAATCGTCCATACTGAATTATCTAAG
    CGCGGTGGGCTAACCATTGTTGATGACATCATGGTTCAATCTGCCACTGCAATCTTCGCT
    ATTAACGATGAACTCGCTATTGGCATTTTACGAGGACTAATTGAACATGGCATCAGTATC
    CCGAAAGATATCTCATTAATAGGTTATGACGACATTGATTATGCAGCGTACGTCTCGCCA
    CCTTTAACTACTGTGGCACAACCTATAACTGATATTGGCAAAACATCTTTAACCTTATTA
    CTTCAACGATTACAGCACTTAGATAAATCCATTGATATGATTGAATTACCAACGACTTTA
    AAAATTCGTGCAACAACTGGCTATCATCTTTCAAACTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    999

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SAOUHSC_00242
  • symbol: SAOUHSC_00242
  • description: hypothetical protein
  • length: 332
  • theoretical pI: 6.76486
  • theoretical MW: 36657.7
  • GRAVY: -0.0650602

⊟Function[edit | edit source]

  • TIGRFAM:
    Signal transduction Regulatory functions DNA interactions catabolite control protein A (TIGR01481; HMM-score: 172.7)
    and 4 more
    Signal transduction Regulatory functions DNA interactions D-fructose-responsive transcription factor (TIGR02417; HMM-score: 117.9)
    Signal transduction Regulatory functions DNA interactions trehalose operon repressor (TIGR02405; HMM-score: 74.3)
    Signal transduction Regulatory functions DNA interactions transcriptional repressor BetI (TIGR03384; HMM-score: 13.9)
    Genetic information processing Protein synthesis tRNA aminoacylation aspartyl/glutamyl-tRNA(Asn/Gln) amidotransferase, A subunit (TIGR00132; EC 6.3.5.-; HMM-score: 11)
  • TheSEED  :
    • Ribose operon repressor RbsR, LacI family
    Carbohydrates Monosaccharides D-ribose utilization  Ribose operon repressor
  • PFAM:
    Periplas_BP (CL0144) Peripla_BP_3; Periplasmic binding protein-like domain (PF13377; HMM-score: 116.5)
    and 17 more
    Peripla_BP_1; Periplasmic binding proteins and sugar binding domain of LacI family (PF00532; HMM-score: 83.6)
    Peripla_BP_4; Periplasmic binding protein domain (PF13407; HMM-score: 58.5)
    HTH (CL0123) LacI; Bacterial regulatory proteins, lacI family (PF00356; HMM-score: 55.3)
    HTH_3; Helix-turn-helix (PF01381; HMM-score: 18.6)
    HTH_Tnp_ISL3; Helix-turn-helix domain of transposase family ISL3 (PF13542; HMM-score: 18.1)
    HTH_31; Helix-turn-helix domain (PF13560; HMM-score: 16.4)
    HTH_26; Cro/C1-type HTH DNA-binding domain (PF13443; HMM-score: 16)
    HTH_19; Helix-turn-helix domain (PF12844; HMM-score: 13.9)
    HTH_7; Helix-turn-helix domain of resolvase (PF02796; HMM-score: 13.8)
    TetR_N; Bacterial regulatory proteins, tetR family (PF00440; HMM-score: 13.5)
    HTH_38; Helix-turn-helix domain (PF13936; HMM-score: 13.4)
    Gain (CL0661) GPR128_GAIN_subdomA; GPR128, GAIN subdomain A (PF22259; HMM-score: 13)
    HTH (CL0123) HTH_10; HTH DNA binding domain (PF04967; HMM-score: 12.7)
    no clan defined PucR; Purine catabolism regulatory protein-like family (PF07905; HMM-score: 12.5)
    HTH (CL0123) HTH_23; Homeodomain-like domain (PF13384; HMM-score: 12)
    MerR; MerR family regulatory protein (PF00376; HMM-score: 11.9)
    TnsD; Tn7-like transposition protein D (PF15978; HMM-score: 10.7)

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

  • domains:
  • modifications:
  • cofactors:
  • effector: Ribose
  • genes regulated by RbsR*, TF important in Ribose utilization [1]
    repression
    rbsK* < rbsD* < rbsU*

⊟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
  • DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.9922
    • Cytoplasmic Membrane Score: 0.0022
    • Cell wall & surface Score: 0.0001
    • Extracellular Score: 0.0055
  • 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): 0.026708
    • TAT(Tat/SPI): 0.005312
    • LIPO(Sec/SPII): 0.001669
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MKKVSIKDVAREAGVSVTTVSHILNHNDSRFSATTIKNVHAVSERLGYAPNKHAKQLRGSKIQTIGVILPSLTNPFFSALMQSIHDHKPSDVDLCFLTSTATDLYDNIKHLIDRGIDGLIIAQYISSPDALNNYLKKHHVPYVVLDQNDHQGYTDFVRTNEYQGGQLAAQHLIELGHNHMIIVAPYDMMANMSTRVAGFVDTLRANQLPEPQIVHTELSKRGGLTIVDDIMVQSATAIFAINDELAIGILRGLIEHGISIPKDISLIGYDDIDYAAYVSPPLTTVAQPITDIGKTSLTLLLQRLQHLDKSIDMIELPTTLKIRATTGYHLSN

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas [2] [3]
  • protein localization: data available for COL
  • quantitative data / protein copy number per cell:
  • interaction partners:

⊟Expression & Regulation[edit | edit source]

⊟Operon[edit | edit source]

⊟Regulation[edit | edit source]

  • regulator: SigB* (activation) regulon
    SigB*(sigma factor)controlling a large regulon involved in stress/starvation response and adaptation;  [4] [1]   other strains

⊟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. ↑ 1.0 1.1 1.2 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)
  2. ↑ 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)
  3. ↑ 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)
  4. ↑ Markus Bischoff, Paul Dunman, Jan Kormanec, Daphne Macapagal, Ellen Murphy, William Mounts, Brigitte Berger-Bächi, Steven Projan
    Microarray-based analysis of the Staphylococcus aureus sigmaB regulon.
    J Bacteriol: 2004, 186(13);4085-99
    [PubMed:15205410] [WorldCat.org] [DOI] (P p)

⊟Relevant publications[edit | edit source]

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