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NCBI: 03-AUG-2016

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus NCTC8325
  • locus tag: SAOUHSC_02879
  • pan locus tag?: SAUPAN006226000
  • symbol: SAOUHSC_02879
  • pan gene symbol?: crtM
  • synonym:
  • product: squalene desaturase

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SAOUHSC_02879
  • symbol: SAOUHSC_02879
  • product: squalene desaturase
  • replicon: chromosome
  • strand: -
  • coordinates: 2652287..2653150
  • length: 864
  • 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
    ATGACAATGATGGATATGAATTTTAAATATTGTCATAAAATCATGAAGAAACATTCAAAA
    AGCTTTTCTTACGCTTTTGACTTGTTACCAGAAGATCAAAGAAAAGCGGTTTGGGCAATT
    TATGCTGTGTGTCGTAAAATTGATGACAGTATAGATGTTTATGGCGATATTCAATTTTTA
    AATCAAATAAAAGAAGATATACAATCTATTGAAAAATACCCATATGAACATCATCACTTT
    CAAAGTGATCGTAGAATCATGATGGCGCTTCAGCATGTTGCACAACATAAAAATATCGCC
    TTTCAATCTTTTTATAATCTCATTGATACTGTATATAAAGATCAACATTTTACAATGTTT
    GAAACGGACGCTGAATTATTCGGATATTGTTATGGTGTTGCTGGTACAGTAGGTGAAGTA
    TTGACGCCGATTTTAAGTGATCATGAAACACATCAGACATACGATGTCGCAAGAAGACTT
    GGTGAATCGTTGCAATTGATTAATATATTAAGAGATGTCGGTGAAGATTTTGACAATGAA
    CGGATATATTTTAGTAAGCAACGATTAAAGCAATATGAAGTTGATATTGCTGAAGTGTAC
    CAAAATGGTGTTAATAATCATTATATTGACTTATGGGAATATTATGCAGCTATCGCAGAA
    AAAGATTTTCAAGATGTTATGGATCAAATCAAAGTATTTAGTATTGAAGCACAACCAATC
    ATAGAATTAGCAGCACGTATATATATTGAAATACTGGACGAAGTGAGACAGGCTAACTAT
    ACATTACATGAACGTGTTTTTGTGGATAAGAGGAAAAAGGCAAAGTTGTTTCATGAAATA
    AATAGTAAATATCATAGAATATAG
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    864

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SAOUHSC_02879
  • symbol: SAOUHSC_02879
  • description: squalene desaturase
  • length: 287
  • theoretical pI: 6.01098
  • theoretical MW: 34230.7
  • GRAVY: -0.449477

⊟Function[edit | edit source]

  • reaction:
    EC 2.5.1.96?  ExPASy
    4,4'-diapophytoene synthase 2 (2E,6E)-farnesyl diphosphate = 15-cis-4,4'-diapophytoene + 2 diphosphate
  • TIGRFAM:
    squalene synthase HpnD (TIGR03465; EC 2.5.1.21; HMM-score: 144.9)
    and 2 more
    squalene synthase HpnC (TIGR03464; EC 2.4.1.21; HMM-score: 101.2)
    farnesyl-diphosphate farnesyltransferase (TIGR01559; EC 2.5.1.21; HMM-score: 51.1)
  • TheSEED  :
    • Dehydrosqualene synthase (EC 2.5.1.96)
    Fatty Acids, Lipids, and Isoprenoids Isoprenoids Carotenoids  Dehydrosqualene synthase (EC 2.5.1.-)
    and 3 more
    Fatty Acids, Lipids, and Isoprenoids Isoprenoids Carotenoids  Dehydrosqualene synthase (EC 2.5.1.96)
    Fatty Acids, Lipids, and Isoprenoids Isoprenoids Polyprenyl Diphosphate Biosynthesis  Dehydrosqualene synthase (EC 2.5.1.-)
    Fatty Acids, Lipids, and Isoprenoids Isoprenoids Polyprenyl Diphosphate Biosynthesis  Dehydrosqualene synthase (EC 2.5.1.96)
  • PFAM:
    Terp_synthase (CL0613) SQS_PSY; Squalene/phytoene synthase (PF00494; HMM-score: 223.9)
    and 1 more
    TPR (CL0020) ARM_TT21_5th; TT21 fifth ARM repeats domain (PF25064; HMM-score: 12.7)

⊟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: 0.9777
    • Cytoplasmic Membrane Score: 0.0192
    • Cell wall & surface Score: 0.0002
    • Extracellular Score: 0.0029
  • 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): 0.003464
    • TAT(Tat/SPI): 0.000176
    • LIPO(Sec/SPII): 0.000456
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MTMMDMNFKYCHKIMKKHSKSFSYAFDLLPEDQRKAVWAIYAVCRKIDDSIDVYGDIQFLNQIKEDIQSIEKYPYEHHHFQSDRRIMMALQHVAQHKNIAFQSFYNLIDTVYKDQHFTMFETDAELFGYCYGVAGTVGEVLTPILSDHETHQTYDVARRLGESLQLINILRDVGEDFDNERIYFSKQRLKQYEVDIAEVYQNGVNNHYIDLWEYYAAIAEKDFQDVMDQIKVFSIEAQPIIELAARIYIEILDEVRQANYTLHERVFVDKRKKAKLFHEINSKYHRI

⊟Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas [1] [2]
  • 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] [3]   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. ↑ 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 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)
  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]

Daisuke Umeno, Alexander V Tobias, Frances H Arnold
Evolution of the C30 carotenoid synthase CrtM for function in a C40 pathway.
J Bacteriol: 2002, 184(23);6690-9
[PubMed:12426357] [WorldCat.org] [DOI] (P p)Daisuke Umeno, Frances H Arnold
A C35 carotenoid biosynthetic pathway.
Appl Environ Microbiol: 2003, 69(6);3573-9
[PubMed:12788765] [WorldCat.org] [DOI] (P p)Daisuke Umeno, Kaori Hiraga, Frances H Arnold
Method to protect a targeted amino acid residue during random mutagenesis.
Nucleic Acids Res: 2003, 31(16);e91
[PubMed:12907743] [WorldCat.org] [DOI] (I p)Daisuke Umeno, Frances H Arnold
Evolution of a pathway to novel long-chain carotenoids.
J Bacteriol: 2004, 186(5);1531-6
[PubMed:14973014] [WorldCat.org] [DOI] (P p)Bosung Ku, Jae-Cheol Jeong, Benjamin N Mijts, Claudia Schmidt-Dannert, Jonathan S Dordick
Preparation, characterization, and optimization of an in vitro C30 carotenoid pathway.
Appl Environ Microbiol: 2005, 71(11);6578-83
[PubMed:16269684] [WorldCat.org] [DOI] (P p)

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