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NCBI: 03-AUG-2016

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_02555
  • pan locus tag?: SAUPAN005749000
  • symbol: SAOUHSC_02555
  • pan gene symbol?: ydbM
  • synonym:
  • product:

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SAOUHSC_02555
  • symbol: SAOUHSC_02555
  • product:
  • replicon: chromosome
  • strand: -
  • coordinates: 2349715..2350880
  • length: 1155
  • essential: no DEG other strains
  • comment: The sequence of SAOUHSC_02555 was corrected based on the resequencing performed by Berscheid et al., 2012 [1].

⊟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
    ATGAATGATATGGATAATTCCTTTTTAATAACAACGGAAATTCAAAGAAAATGGATTGAA
    AAATTCAAAGTAATTAGAGATACATTTAAGGCTAAAGCTGAATATAATGATCAACATAGC
    CAATTTCCATATAAAAATATTGAATGGTTAATTAAAGAAGGTTATGGAAAATTAACGTTA
    CCAAAAGCATATGGTGGTGAAGGTGCGACCATAGAAGACATGGTTATTTTGCAATCATTT
    TTAGGCGAACTTGATGGTGCCACAGCATTATCTATTGGTTGGCATGTGAGTGTCGTAGGA
    CAAATTTATGAACAGAAATTATGGTCTCAAGATATGTTGGAGCAATTTGCTGTTGAAATT
    AATAATGGTGCATTAGTTAATAGAGCAGTTAGTGAAGCTGAAATGGGTAGTCCAACAAGA
    GGGGGAAGACCAAGTACACATGCTGTTAAAGCTGATGATGGGTATATTTTAAATGGTGTG
    AAGACATATACATCAATGAGTAAAGCACTAACACATATTATTGTTGCTGCTTATATAGAA
    GAATTAGAAAGTGTTGGTTTTTTCTTAGTAGACAGGAATTTGCCTGGTGTTGAAATTGCC
    GATAATTGGGACGTATTAGGTATGCGAGCGACAGAAAGTCATGATTTAATATTAAATGAT
    GTAAAAGTACCATTAAAACATTTAGTGGAAACAGAGAAAAGTAAAGCGCCAAATGGTTGG
    ATATTGCATATACCAAGCTGTTATTTAGGTATAGCACAAGCTGCTAGAAATTATGCTGTA
    GACTTTGCAATCCAACATAGCCCTAATAGTATTGAAGGAACGATTGCAACATTGCCAACT
    GTGCAACAAAATTTAGGGAAAATGGAAACGCTATTGTTATGTGCGAGACAATTTTTATGG
    AGTACAGCAAAAGGGTATCAACAATATAAAGATGACAGTCAGATAAGAAATCCAACAAGT
    GCGAGTAAAGTGATGGTAATGAATCAAGGGCTTGAAGTGATTGATTTAGCGATGAGAATA
    GTTGGTGCTAAAAGCTTAGAAATGAATCGACCATTACAACGTTACTATCGTGACATGCGT
    GCAGGATTACACAATCCACCTATGGAAGATGCAGCATATACAAATATTGCTAAGAGTATT
    ACAGATACATTTTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1155

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SAOUHSC_02555
  • symbol: SAOUHSC_02555
  • description:
  • length: 384
  • theoretical pI: 5.85467
  • theoretical MW: 42999.8
  • GRAVY: -0.246354

⊟Function[edit | edit source]

  • TIGRFAM:
    Metabolism Central intermediary metabolism Sulfur metabolism sulfur acquisition oxidoreductase, SfnB family (TIGR04022; EC 1.-.-.-; HMM-score: 104.2)
    and 2 more
    pimeloyl-CoA dehydrogenase, large subunit (TIGR03204; EC 1.3.1.62; HMM-score: 34.3)
    cyclohexanecarboxyl-CoA dehydrogenase (TIGR03207; EC 1.1.1.-; HMM-score: 32.9)
  • TheSEED  :
    • hypothetical protein
  • PFAM:
    Acyl-CoA_dh (CL0087) Acyl-CoA_dh_2; Acyl-CoA dehydrogenase, C-terminal domain (PF08028; HMM-score: 51.2)
    no clan defined Acyl-CoA_dh_M; Acyl-CoA dehydrogenase, middle domain (PF02770; HMM-score: 50)
    Acyl-CoA_dh (CL0087) Acyl-CoA_dh_1; Acyl-CoA dehydrogenase, C-terminal domain (PF00441; HMM-score: 44.5)
    and 1 more
    AcylCoA_ox_dh_N (CL0544) Acyl-CoA_dh_N; Acyl-CoA dehydrogenase, N-terminal domain (PF02771; HMM-score: 28)

⊟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: 0
    • Predicted Cleavage Site: No CleavageSite
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.0164
    • TAT(Tat/SPI): 0.001229
    • LIPO(Sec/SPII): 0.002022
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq:
  • UniProt: Q2FVW8 UniProt
  • STRING: 93061.SAOUHSC_02555 STRING

⊟Protein sequence[edit | edit source]

  • MNDMDNSFLITTEIQRKWIEKFKVIRDTFKAKAEYNDQHSQFPYKNIEWLIKEGYGKLTLPKAYGGEGATIEDMVILQSFLGELDGATALSIGWHVSVVGQIYEQKLWSQDMLEQFAVEINNGALVNRAVSEAEMGSPTRGGRPSTHAVKADDGYILNGVKTYTSMSKALTHIIVAAYIEELESVGFFLVDRNLPGVEIADNWDVLGMRATESHDLILNDVKVPLKHLVETEKSKAPNGWILHIPSCYLGIAQAARNYAVDFAIQHSPNSIEGTIATLPTVQQNLGKMETLLLCARQFLWSTAKGYQQYKDDSQIRNPTSASKVMVMNQGLEVIDLAMRIVGAKSLEMNRPLQRYYRDMRAGLHNPPMEDAAYTNIAKSITDTF

⊟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]

  • regulators: CymR* (repression) regulon, SigB* (activation) regulon
    CymR*(TF)important in Cysteine metabolism; RegPrecise 
    SigB*(sigma factor)controlling a large regulon involved in stress/starvation response and adaptation;  [4]   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 are kindly invited to share additional interesting facts.

⊟Literature[edit | edit source]

⊟References[edit | edit source]

  1. ↑ Anne Berscheid, Peter Sass, Konstantin Weber-Lassalle, Ambrose L Cheung, Gabriele Bierbaum
    Revisiting the genomes of the Staphylococcus aureus strains NCTC 8325 and RN4220.
    Int J Med Microbiol: 2012, 302(2);84-7
    [PubMed:22417616] [WorldCat.org] [DOI] (I p)
  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. ↑ 4.0 4.1 4.2 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)

⊟Relevant publications[edit | edit source]

Olga Soutourina, Sarah Dubrac, Olivier Poupel, Tarek Msadek, Isabelle Martin-Verstraete
The pleiotropic CymR regulator of Staphylococcus aureus plays an important role in virulence and stress response.
PLoS Pathog: 2010, 6(5);e1000894
[PubMed:20485570] [WorldCat.org] [DOI] (I e)

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