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FunGene: 08-OCT-2024

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus JSNZ
  • locus tag: JSNZ_002213
  • pan locus tag?: SAUPAN005701000
  • symbol: rplD
  • pan gene symbol?: rplD
  • synonym:
  • product: 50S ribosomal protein L4

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: JSNZ_002213
  • symbol: rplD
  • product: 50S ribosomal protein L4
  • replicon: chromosome
  • strand: -
  • coordinates: 2214413..2215036
  • length: 624
  • essential: unknown other strains

⊟Accession numbers[edit | edit source]

  • Gene ID:
  • RefSeq:
  • BioCyc:
  • MicrobesOnline:

⊟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
    ATGGCTAATTATGATGTTTTAAAATTAGACGGAACTAAATCAGGTTCAATCGAATTAAGC
    GATGCAGTATTCGGTATTGAGCCAAATAATAGCGTTTTATTCGAAGCTATTAATTTACAA
    CGTGCTTCATTACGTCAAGGTACGCATGCTGTTAAGAATCGTTCAGCAGTAAGCGGTGGC
    GGACGTAAACCATGGAAGCAAAAAGGAACAGGTCGTGCTCGTCAAGGTACAATCCGTGCT
    CCACAATGGCGTGGCGGTGGTATCGTATTCGGACCAACTCCAAGAAGTTATGCATACAAA
    ATGCCTAAGAAAATGCGTCGTTTAGCTTTACGCTCAGCATTATCTTTCAAAGCTCAAGAG
    AATGGCTTAACTGTAGTTGACGCATTCAACTTCGAAGCTCCAAAAACTAAAGAATTCAAA
    AATGTATTATCTACATTAGAACAACCTAAAAAAGTATTAGTAGTTACTGAAAACGAAGAT
    GTAAATGTTGAATTATCAGCACGCAACATCCCTGGCGTTCAAGTGACAACTGCTCAAGGT
    TTAAATGTTTTAGATATCACTAATGCTGACAGCTTAGTAATTACTGAAGCTGCTGCTAAA
    AAAGTTGAGGAGGTGCTCGGATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    624

⊟Protein[edit | edit source]

Protein Data Bank: 4WCE
Protein Data Bank: 4WF9
Protein Data Bank: 4WFA
Protein Data Bank: 4WFB
Protein Data Bank: 5HKV
Protein Data Bank: 5HL7
Protein Data Bank: 5LI0
Protein Data Bank: 5ND8
Protein Data Bank: 5ND9
Protein Data Bank: 5NRG
Protein Data Bank: 5TCU

⊟General[edit | edit source]

  • locus tag: JSNZ_002213
  • symbol: RplD
  • description: 50S ribosomal protein L4
  • length: 207
  • theoretical pI: 10.5993
  • theoretical MW: 22464.5
  • GRAVY: -0.348309

⊟Function[edit | edit source]

  • TIGRFAM:
    Genetic information processing Protein synthesis Ribosomal proteins: synthesis and modification 50S ribosomal protein uL4 (TIGR03953; HMM-score: 272.5)
    and 1 more
    50S ribosomal protein uL4 (TIGR03672; HMM-score: 38.3)
  • TheSEED: data available for COL, N315, NCTC8325, Newman, USA300_FPR3757
  • PFAM:
    no clan defined Ribosomal_L4; Ribosomal protein L4/L1 family (PF00573; HMM-score: 260.5)
    and 1 more
    Concanavalin (CL0004) Reoviridae_Vp9; Reoviridae VP9 (PF08978; HMM-score: 12)

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

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

⊟Localization[edit | edit source]

  • PSORTb: unknown (no significant prediction)
    • Cytoplasmic Score: 2.5
    • Cytoplasmic Membrane Score: 2.5
    • Cellwall Score: 2.5
    • Extracellular Score: 2.5
    • Internal Helices: 0
  • DeepLocPro: Extracellular
    • Cytoplasmic Score: 0.3165
    • Cytoplasmic Membrane Score: 0.0016
    • Cell wall & surface Score: 0.0002
    • Extracellular Score: 0.6817
  • LocateP:
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.005565
    • TAT(Tat/SPI): 0.002315
    • LIPO(Sec/SPII): 0.000737
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

  • GI:
  • RefSeq:
  • UniProt:

⊟Protein sequence[edit | edit source]

  • MANYDVLKLDGTKSGSIELSDAVFGIEPNNSVLFEAINLQRASLRQGTHAVKNRSAVSGGGRKPWKQKGTGRARQGTIRAPQWRGGGIVFGPTPRSYAYKMPKKMRRLALRSALSFKAQENGLTVVDAFNFEAPKTKEFKNVLSTLEQPKKVLVVTENEDVNVELSARNIPGVQVTTAQGLNVLDITNADSLVITEAAAKKVEEVLG

⊟Experimental data[edit | edit source]

  • experimentally validated: data available for COL, NCTC8325
  • 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 are kindly invited to share additional interesting facts.

⊟Literature[edit | edit source]

⊟References[edit | edit source]

⊟Relevant publications[edit | edit source]

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