From AureoWiki
Jump to: navigation, search
NCBI: 06-JUL-2013

Summary[edit source | edit]

  • organism: Staphylococcus aureus Newman
  • locus tag: NWMN_1195 [new locus tag: NWMN_RS06730 ]
  • pan locus tag?: SAUPAN003588000
  • symbol: NWMN_1195
  • pan gene symbol?: rny/cvfA
  • synonym:
  • product: phosphodiesterase

Genome View[edit source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • type: CDS
  • locus tag: NWMN_1195 [new locus tag: NWMN_RS06730 ]
  • symbol: NWMN_1195
  • product: phosphodiesterase
  • replicon: chromosome
  • strand: +
  • coordinates: 1317576..1319135
  • length: 1560
  • essential: unknown other strains

Accession numbers[edit source | edit]

Phenotype[edit source | edit]

  • Share your knowledge and add information here. [edit]

DNA sequence[edit source | edit]

  • 1
    61
    121
    181
    241
    301
    361
    421
    481
    541
    601
    661
    721
    781
    841
    901
    961
    1021
    1081
    1141
    1201
    1261
    1321
    1381
    1441
    1501
    GTGAATTTATTAAGCCTCCTACTCATTTTGCTGGGGATCATTCTAGGAGTTGTTGGAGGG
    TATGTTGTTGCCCGAAATTTGTTGCTTCAAAAGCAATCACAAGCTAGACAAACTGCCGAA
    GATATTGTAAATCAAGCACATAAAGAAGCTGACAATATCAAAAAAGAGAAATTACTTGAG
    GCAAAAGAAGAAAACCAAATCCTAAGAGAACAAACTGAAGCAGAACTACGAGAAAGACGT
    AGCGAACTTCAAAGACAAGAAACCCGACTTCTTCAAAAAGAAGAAAACTTAGAGCGCAAA
    TCTGATCTATTAGATAAAAAAGATGAGATTTTAGAGCAAAAAGAATCAAAAATTGAAGAA
    AAACAACAACAAGTAGATGCAAAAGAGAGTAGTGTTCAAACGTTAATAATGAAGCATGAA
    CAAGAATTAGAACGCATCTCCGGTCTCACTCAAGAAGAAGCTATTAATGAGCAACTTCAA
    AGAGTAGAGGAAGAACTGTCACAAGATATTGCAGTACTTGTTAAAGAAAAAGAAAAAGAA
    GCTAAAGAAAAAGTTGATAAAACAGCAAAAGAATTATTAGCTACAGCAGTACAAAGATTA
    GCAGCAGATCACACAAGTGAATCAACGGTATCAGTAGTTAACTTACCTAATGATGAGATG
    AAAGGTCGAATCATTGGACGAGAAGGACGAAACATCCGCACACTTGAAACTTTAACTGGC
    ATTGATTTAATTATTGATGACACACCAGAAGCGGTTATATTATCTGGTTTTGATCCAATA
    AGAAGAGAAATTGCTAGAACAGCACTTGTTAACTTAGTATCTGATGGACGTATTCATCCA
    GGTAGAATTGAAGATATGGTCGAAAAAGCTAGAAAAGAAGTAGACGATATTATTAGAGAA
    GCAGGTGAACAAGCTACATTTGAAGTGAACGCACATAATATGCATCCTGACTTAGTAAAA
    ATTGTAGGGCGTTTAAACTATCGTACGAGTTACGGTCAAAATGTACTTAAACATTCAATT
    GAAGTTGCGCATCTTGCTAGTATGTTAGCTGCTGAGCTAGGCGAAGATGAGACATTAGCG
    AAACGAGCTGGACTTTTACATGATGTTGGTAAAGCAATTGATCATGAAGTAGAAGGTAGT
    CATGTTGAAATCGGTGTAGAATTAGCGAAAAAATATGGTGAAAATGAAACAGTTATTAAT
    GCAATCCATTCTCATCATGGTGATGTTGAACCTACATCTATTATATCTATCCTTGTTGCT
    GCTGCAGATGCATTGTCTGCGGCTCGTCCAGGTGCAAGAAAAGAAACATTAGAGAATTAT
    ATTCGTCGATTAGAACGTTTAGAAACGTTATCAGAAAGTTATGATGGTGTAGAAAAAGCA
    TTTGCGATTCAGGCAGGTAGAGAAATCCGAGTGATTGTATCTCCTGAAGAAATTGATGAT
    TTAAAATCTTATCGATTGGCTAGAGATATTAAAAATCAGATTGAAGATGAATTACAATAT
    CCTGGTCATATCAAGGTGACAGTTGTTCGAGAGACTAGAGCAGTAGAATATGCGAAATAA
    60
    120
    180
    240
    300
    360
    420
    480
    540
    600
    660
    720
    780
    840
    900
    960
    1020
    1080
    1140
    1200
    1260
    1320
    1380
    1440
    1500
    1560

Protein[edit source | edit]

General[edit source | edit]

  • locus tag: NWMN_1195 [new locus tag: NWMN_RS06730 ]
  • symbol: NWMN_1195
  • description: phosphodiesterase
  • length: 519
  • theoretical pI: 4.9413
  • theoretical MW: 58511.8
  • GRAVY: -0.519268

Function[edit source | edit]

  • reaction:
    EC 3.1.-.-?  ExPASy
  • TIGRFAM:
    Genetic information processingTranscriptionDegradation of RNAribonuclease Y (TIGR03319; EC 3.1.-.-; HMM-score: 795.6)
    HDIG domain (TIGR00277; HMM-score: 86.3)
    arCOG04150 universal archaeal KH domain protein (TIGR03665; HMM-score: 27.1)
    Unknown functionEnzymes of unknown specificityputative HD superfamily hydrolase (TIGR00488; HMM-score: 26.4)
    NusA family KH domain protein, archaeal (TIGR01952; HMM-score: 18.2)
    CRISPR-associated endonuclease Cas3-HD (TIGR01596; EC 3.1.-.-; HMM-score: 17.9)
    MetabolismTransport and binding proteinsCations and iron carrying compoundspotassium uptake protein, Trk family (TIGR00934; HMM-score: 3.3)
  • TheSEED:  
    CBSS-257314.1.peg.676 Ribonuclease Y 
  • PFAM:
    no clan definedDUF3552; Domain of unknown function (DUF3552) (PF12072; HMM-score: 212.2)
    HD_PDEase (CL0237) HD; HD domain (PF01966; HMM-score: 69.3)
    HDOD; HDOD domain (PF08668; HMM-score: 29.9)
    KH (CL0007) KH_1; KH domain (PF00013; HMM-score: 29.3)
    KH_4; KH domain (PF13083; HMM-score: 21.8)
    KH_2; KH domain (PF07650; HMM-score: 14.4)
    no clan definedUPF0242; Uncharacterised protein family (UPF0242) (PF06785; HMM-score: 8.1)

Structure, modifications & interactions[edit source | edit]

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

Localization[edit source | edit]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 7.5
    • Cytoplasmic Membrane Score: 1.15
    • Cellwall Score: 0.62
    • Extracellular Score: 0.73
    • Internal Helix: 1
  • LocateP: N-terminally anchored (with CS)
    • Prediction by SwissProt Classification: Membrane
    • Pathway Prediction: Sec-(SPI)
    • Intracellular Possibility: 0.17
    • Signal Peptide Possibility: 0.5
    • N-terminally Anchored Score: 1
    • Predicted Cleavage Site: GYVVARNL
  • SignalP: no predicted signal peptide
    • Ymax: 0.302
    • Ymax_pos: 36
    • Cmax: 0.303
    • Cmax_pos: 36
    • Smax: 0.476
    • Smax_pos: 33
    • Smean: 0.24
    • D: 0.278
  • predicted transmembrane helices (TMHMM): 1

Accession numbers[edit source | edit]

Protein sequence[edit source | edit]

  • MNLLSLLLILLGIILGVVGGYVVARNLLLQKQSQARQTAEDIVNQAHKEADNIKKEKLLEAKEENQILREQTEAELRERRSELQRQETRLLQKEENLERKSDLLDKKDEILEQKESKIEEKQQQVDAKESSVQTLIMKHEQELERISGLTQEEAINEQLQRVEEELSQDIAVLVKEKEKEAKEKVDKTAKELLATAVQRLAADHTSESTVSVVNLPNDEMKGRIIGREGRNIRTLETLTGIDLIIDDTPEAVILSGFDPIRREIARTALVNLVSDGRIHPGRIEDMVEKARKEVDDIIREAGEQATFEVNAHNMHPDLVKIVGRLNYRTSYGQNVLKHSIEVAHLASMLAAELGEDETLAKRAGLLHDVGKAIDHEVEGSHVEIGVELAKKYGENETVINAIHSHHGDVEPTSIISILVAAADALSAARPGARKETLENYIRRLERLETLSESYDGVEKAFAIQAGREIRVIVSPEEIDDLKSYRLARDIKNQIEDELQYPGHIKVTVVRETRAVEYAK

Experimental data[edit source | edit]

  • experimentally validated: no data available

Expression & Regulation[edit source | edit]

Operon[edit source | edit]

Regulation[edit source | edit]

  • sigma factor:
  • regulator:

Transcription pattern[edit source | edit]

Protein synthesis (provided by Aureolib)[edit source | edit]

Protein stability[edit source | edit]

  • half-life: no data available

Biological Material[edit source | edit]

Mutants[edit source | edit]

Expression vector[edit source | edit]

lacZ fusion[edit source | edit]

GFP fusion[edit source | edit]

two-hybrid system[edit source | edit]

FLAG-tag construct[edit source | edit]

Antibody[edit source | edit]

Other Information[edit source | edit]

You are kindly invited to share additional interesting facts.

Literature[edit source | edit]

References[edit source | edit]

Relevant publications[edit source | edit]