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NCBI: 10-JUN-2013

Summary[edit | edit source]

  • organism: Staphylococcus aureus COL
  • locus tag: SACOL1907 [new locus tag: SACOL_RS09820 ]
  • pan locus tag?: SAUPAN004783000
  • symbol: SACOL1907
  • pan gene symbol?:
  • synonym:
  • product: ribosomal large subunit pseudouridine synthase D

Genome View[edit | edit source]

Gene[edit | edit source]

General[edit | edit source]

  • type: CDS
  • locus tag: SACOL1907 [new locus tag: SACOL_RS09820 ]
  • symbol: SACOL1907
  • product: ribosomal large subunit pseudouridine synthase D
  • replicon: chromosome
  • strand: +
  • coordinates: 1962282..1963103
  • length: 822
  • 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
    ATGAAATTTAAAATACCAGAAAACTTTAATGACTTAAGTTTACGAGATATTTTCCAACAA
    CTTAAGGTACCTAAAAAAGATTTACATCATTTAAATATGTCTAAAGATATTACTATTAAT
    GATAAACCTGCGCGATTAATGGATAAAGTGCATACTGGCGACGATGTATTTGTTCCAACC
    ATCGATGAAAAAAGTAATTATGTTCCAAGTTATCGTTATGCACAAATTAAATACGAAGAC
    GATGATATGGCAATCGTAATGAAACCTAAAGGTGTTAAGACTCACCCTAATGATTTAAAA
    GAAAGCAATACTTTAATGAATCATGTGATTTACACTATTGATAGTGACTATGTCGAACCA
    ATTCATCGACTGGACCAGGAAACAGTAGGATTATTAATTGTTGCTAAAAATCCTTTAATG
    AAAAAAATTCTTGATCGCATGTTAGAAGACAATGATATTACGCGGATATACAAAGCAAAT
    GTTAAGGCACTTTTACCTTTAAAACCACAAACGATTGATATGCCAATTGGTAAAGATAAA
    TTCCATTCGAATAAACGACGTGTGTCTCCTACTGGACAGCGTGCAATTACACACATTTTA
    ACTTCAAAAATGATAAAAGAAGCTGTGTGCCAACTTGAAATCAAGTTGGATACTGGACGT
    ACTCATCAAATTCGTGTGCATTTAGCTGAAATTGGTCACCCTGTTATTGGTGATCCTTTA
    TATGGTGATTCAACGTTAAGACAATTAGAACTTGAAAGTTACAAAATAGAGTTTGTGCAT
    CCCTTGACTAAGGAAGTCATTTCCGTTTCTTTGGATGACTAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    822

Protein[edit | edit source]

General[edit | edit source]

  • locus tag: SACOL1907 [new locus tag: SACOL_RS09820 ]
  • symbol: SACOL1907
  • description: ribosomal large subunit pseudouridine synthase D
  • length: 273
  • theoretical pI: 7.90273
  • theoretical MW: 31440.2
  • GRAVY: -0.469597

Function[edit | edit source]

  • TIGRFAM:
    Genetic information processing Protein synthesis tRNA and rRNA base modification pseudouridine synthase, RluA family (TIGR00005; EC 5.4.99.-; HMM-score: 188.2)
    and 3 more
    Genetic information processing Protein synthesis tRNA and rRNA base modification pseudouridine synthase Rlu family protein, TIGR01621 (TIGR01621; EC 5.4.99.-; HMM-score: 72)
    Genetic information processing Protein synthesis tRNA and rRNA base modification pseudouridine synthase (TIGR00093; EC 5.4.99.-; HMM-score: 33.7)
    Genetic information processing Transcription Transcription factors transcription termination/antitermination factor NusG (TIGR00922; HMM-score: 12.4)
  • TheSEED  :
    • Similar to ribosomal large subunit pseudouridine synthase D, Bacillus subtilis YhcT type
    Protein Metabolism Protein biosynthesis Ribosome biogenesis bacterial  Similar to ribosomal large subunit pseudouridine synthase D, Bacillus subtilis YhcT type
  • PFAM:
    PseudoU_synth (CL0649) PseudoU_synth_2; RNA pseudouridylate synthase (PF00849; HMM-score: 87.7)

Structure, modifications & cofactors[edit | edit source]

  • domains:
  • modifications:
  • cofactors:
  • effectors:

Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.97
    • Cytoplasmic Membrane Score: 0
    • Cellwall Score: 0.01
    • Extracellular Score: 0.02
    • 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): 0.005596
    • TAT(Tat/SPI): 0.000254
    • LIPO(Sec/SPII): 0.000815
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit | edit source]

Protein sequence[edit | edit source]

  • MKFKIPENFNDLSLRDIFQQLKVPKKDLHHLNMSKDITINDKPARLMDKVHTGDDVFVPTIDEKSNYVPSYRYAQIKYEDDDMAIVMKPKGVKTHPNDLKESNTLMNHVIYTIDSDYVEPIHRLDQETVGLLIVAKNPLMKKILDRMLEDNDITRIYKANVKALLPLKPQTIDMPIGKDKFHSNKRRVSPTGQRAITHILTSKMIKEAVCQLEIKLDTGRTHQIRVHLAEIGHPVIGDPLYGDSTLRQLELESYKIEFVHPLTKEVISVSLDD

Experimental data[edit | edit source]

  • experimentally validated: PeptideAtlas
  • protein localization: Cytoplasmic [1] [2] [3]
  • quantitative data / protein copy number per cell: 202 [4]
  • interaction partners:

Expression & Regulation[edit | edit source]

Operon[edit | edit source]

  • SACOL1907 no polycistronic organisation predicted

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]

  1. Dörte Becher, Kristina Hempel, Susanne Sievers, Daniela Zühlke, Jan Pané-Farré, Andreas Otto, Stephan Fuchs, Dirk Albrecht, Jörg Bernhardt, Susanne Engelmann, Uwe Völker, Jan Maarten van Dijl, Michael Hecker
    A proteomic view of an important human pathogen--towards the quantification of the entire Staphylococcus aureus proteome.
    PLoS One: 2009, 4(12);e8176
    [PubMed:19997597] [WorldCat.org] [DOI] (I e)
  2. Kristina Hempel, Florian-Alexander Herbst, Martin Moche, Michael Hecker, Dörte Becher
    Quantitative proteomic view on secreted, cell surface-associated, and cytoplasmic proteins of the methicillin-resistant human pathogen Staphylococcus aureus under iron-limited conditions.
    J Proteome Res: 2011, 10(4);1657-66
    [PubMed:21323324] [WorldCat.org] [DOI] (I p)
  3. Andreas Otto, Jan Maarten van Dijl, Michael Hecker, Dörte Becher
    The Staphylococcus aureus proteome.
    Int J Med Microbiol: 2014, 304(2);110-20
    [PubMed:24439828] [WorldCat.org] [DOI] (I p)
  4. Daniela Zühlke, Kirsten Dörries, Jörg Bernhardt, Sandra Maaß, Jan Muntel, Volkmar Liebscher, Jan Pané-Farré, Katharina Riedel, Michael Lalk, Uwe Völker, Susanne Engelmann, Dörte Becher, Stephan Fuchs, Michael Hecker
    Costs of life - Dynamics of the protein inventory of Staphylococcus aureus during anaerobiosis.
    Sci Rep: 2016, 6;28172
    [PubMed:27344979] [WorldCat.org] [DOI] (I e)

Relevant publications[edit | edit source]