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NCBI: 10-JUN-2013

Summary[edit | edit source]

  • organism: Staphylococcus aureus USA300_FPR3757
  • locus tag: SAUSA300_1715 [new locus tag: SAUSA300_RS09370 ]
  • pan locus tag?: SAUPAN004458000
  • symbol: ribD
  • pan gene symbol?: ribD
  • synonym:
  • product: riboflavin biosynthesis protein

Genome View[edit | edit source]

Gene[edit | edit source]

General[edit | edit source]

  • type: CDS
  • locus tag: SAUSA300_1715 [new locus tag: SAUSA300_RS09370 ]
  • symbol: ribD
  • product: riboflavin biosynthesis protein
  • replicon: chromosome
  • strand: -
  • coordinates: 1897228..1898232
  • length: 1005
  • 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
    841
    901
    961
    ATGGTACAAGGTCAAACAGGTGTTAATCCACCCGTTGGCGCTGTTGTAGTTAAAGAAGGT
    AGGATTGTTGGTATTGGTGCACACTTGAGAAAAGGTGACAAGCATGCGGAGGTTCAAGCA
    CTTGATATGGCACAACAAAATGCTGAAGGTGCGACGATTTATATTACGTTAGAGCCATGT
    AGTCATTTTGGTTCAACACCACCCTGTGTTAACAAAATAATTGATTGTAAGATAGCAAAA
    GTAGTATACGCAACAAAAGACAATTCGTTAGACACACATGGTGATGAGACGTTACGGGCT
    CACGGTATTGAGGTTGAATGCGTTGATGATGAACGGGCATCACAATTATACCAAGACTTT
    TTTAAAGCAAAAGCAAAGCAACTGCCACAAATTACAGTGAAAGTATCTGCAAGTTTAGAT
    GGTAAACAAGCGAATGATAATGGACAAAGTCAATGGATTACTAACAAAGAGGTTAAACAA
    GATGTCTATAAGTTAAGACATCGACACGACGCAGTGTTAACTGGAAGACGTACAGTTGAA
    TTAGATGATCCACAATATACTACACGTATTCAAGATGGAAAAAACCCTATAAAAGTAATA
    TTGTCTAAGTCTGGGAATATTCATTTTAATCAGCAAATTTATCAAGATGAATCAACACCA
    ATTTGGATATATACTGAAAATCCAAATTTAACAACCAATCAAACACATATTGAAATTATT
    TACTTGAAGTCTTGCGATTTAACAACAATTCTTCACAATTTATATAAAAGAGGAGTTGGA
    ACTTTGCTAGTTGAGGCAGGTCCAACCACTACTTCAGAATTTCTCCAATCTAATTATATA
    GATGAATTTATTCTCTATTATGCCCCGAAATTAATTGGCGGATCTGGAAATTATCAATTT
    TATCAAACAAATGATGTGATTGAGATACCAGATGCGAACCAATTTGAAATTGTTCATTCC
    GAGTTATTAAATCAAAATGTTAAATTAACTTTACGAAAGAAGTGA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1005

Protein[edit | edit source]

General[edit | edit source]

  • locus tag: SAUSA300_1715 [new locus tag: SAUSA300_RS09370 ]
  • symbol: RibD
  • description: riboflavin biosynthesis protein
  • length: 334
  • theoretical pI: 6.58415
  • theoretical MW: 37439
  • GRAVY: -0.460778

Function[edit | edit source]

  • reaction:
    EC 3.5.4.26?  ExPASy
    Diaminohydroxyphosphoribosylaminopyrimidine deaminase 2,5-diamino-6-hydroxy-4-(5-phosphoribosylamino)pyrimidine + H2O = 5-amino-6-(5-phosphoribosylamino)uracil + NH3
    EC 1.1.1.193?  ExPASy
    5-amino-6-(5-phosphoribosylamino)uracil reductase 5-amino-6-(5-phospho-D-ribitylamino)uracil + NADP+ = 5-amino-6-(5-phospho-D-ribosylamino)uracil + NADPH
  • TIGRFAM:
    Metabolism Biosynthesis of cofactors, prosthetic groups, and carriers Riboflavin, FMN, and FAD riboflavin biosynthesis protein RibD (TIGR00326; EC 1.1.1.193,3.5.4.26; HMM-score: 293.9)
    and 3 more
    riboflavin-specific deaminase C-terminal domain (TIGR00227; EC 3.5.4.-; HMM-score: 150.8)
    diaminohydroxyphosphoribosylaminopyrimidine reductase (TIGR01508; EC 1.1.1.-; HMM-score: 96.7)
    ComE operon protein 2 (TIGR02571; HMM-score: 15.4)
  • TheSEED:  
    5-amino-6-(5-phosphoribosylamino)uracil reductase (EC 1.1.1.193)
    and 1 more
    Diaminohydroxyphosphoribosylaminopyrimidine deaminase (EC 3.5.4.26)
  • PFAM:
    DHFred (CL0387) RibD_C; RibD C-terminal domain (PF01872; HMM-score: 141.8)
    and 3 more
    CDA (CL0109) dCMP_cyt_deam_1; Cytidine and deoxycytidylate deaminase zinc-binding region (PF00383; HMM-score: 60.7)
    MafB19-deam; MafB19-like deaminase (PF14437; HMM-score: 43.4)
    APOBEC_N; APOBEC-like N-terminal domain (PF08210; HMM-score: 13.7)

Structure, modifications & interactions[edit | edit source]

  • domains:
  • modifications:
  • cofactors: Zn2+
  • effectors:
  • protein partners:

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: 1
    • Predicted Cleavage Site: No CleavageSite
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.018645
    • TAT(Tat/SPI): 0.002
    • LIPO(Sec/SPII): 0.002366
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit | edit source]

Protein sequence[edit | edit source]

  • MVQGQTGVNPPVGAVVVKEGRIVGIGAHLRKGDKHAEVQALDMAQQNAEGATIYITLEPCSHFGSTPPCVNKIIDCKIAKVVYATKDNSLDTHGDETLRAHGIEVECVDDERASQLYQDFFKAKAKQLPQITVKVSASLDGKQANDNGQSQWITNKEVKQDVYKLRHRHDAVLTGRRTVELDDPQYTTRIQDGKNPIKVILSKSGNIHFNQQIYQDESTPIWIYTENPNLTTNQTHIEIIYLKSCDLTTILHNLYKRGVGTLLVEAGPTTTSEFLQSNYIDEFILYYAPKLIGGSGNYQFYQTNDVIEIPDANQFEIVHSELLNQNVKLTLRKK

Experimental data[edit | edit source]

  • experimentally validated: no data available

Expression & Regulation[edit | edit source]

Operon[edit | edit source]

Regulation[edit | edit source]

  • regulator: FMN-box (transcription termination) regulon
    FMN-box(RNA)important in Riboflavin biosynthesis; regulatory site identified based on RegPrecise data for N315 RegPrecise  

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]