PangenomeCOLN315NCTC8325NewmanUSA300_FPR375704-0298108BA0217611819-97685071193ECT-R 2ED133ED98HO 5096 0412JH1JH9JKD6008JKD6159LGA251M013MRSA252MSHR1132MSSA476MW2Mu3Mu50RF122ST398T0131TCH60TW20USA300_TCH1516VC40

NCBI: 02-MAR-2017

⊟Summary

• organism: Staphylococcus aureus COL
• locus tag: SACOL_RS06660 [old locus tag: SACOL1305 ]
• pan locus tag^?: SAUPAN003588000
• symbol: SACOL_RS06660
• pan gene symbol^?: rny
• synonym: cvfA
• product: ribonuclease Y

⊟Genome View

⊟Gene

⊟General

• type: CDS
• locus tag: SACOL_RS06660 [old locus tag: SACOL1305 ]
• symbol: SACOL_RS06660
• product: ribonuclease Y
• replicon: chromosome
• strand: +
• coordinates: 1321394..1322953
• length: 1560
• essential: unknown other strains

⊟Accession numbers

• Location: NC_002951 (1321394..1322953) NCBI
• BioCyc: SACOL_RS06660 BioCyc
• MicrobesOnline: see SACOL1305

⊟Phenotype

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⊟DNA sequence

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  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
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⊟Protein

⊟General

• locus tag: SACOL_RS06660 [old locus tag: SACOL1305 ]
• symbol: SACOL_RS06660
• description: ribonuclease Y
• length: 519
• theoretical pI: 4.9413
• theoretical MW: 58511.8
• GRAVY: -0.519268

⊟Function

• reaction:
  EC 3.1.-.-?  ExPASy
• TIGRFAM:
  Genetic information processing Transcription Degradation of RNA ribonuclease Y (TIGR03319; EC 3.1.-.-; HMM-score: 795.6)
  and 6 more
  HDIG domain (TIGR00277; HMM-score: 86.3)
  arCOG04150 universal archaeal KH domain protein (TIGR03665; HMM-score: 27.1)
  Unknown function Enzymes of unknown specificity putative 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)
  Metabolism Transport and binding proteins Cations and iron carrying compounds potassium uptake protein, Trk family (TIGR00934; HMM-score: 3.3)
• TheSEED: see SACOL1305
• PFAM:
  no clan defined DUF3552; Domain of unknown function (DUF3552) (PF12072; HMM-score: 212.2)
  and 6 more
  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 defined UPF0242; Uncharacterised protein family (UPF0242) (PF06785; HMM-score: 8.1)

⊟Structure, modifications & cofactors

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

⊟Localization

• PSORTb: Cytoplasmic
  • Cytoplasmic Score: 7.5
  • Cytoplasmic Membrane Score: 1.15
  • Cellwall Score: 0.62
  • Extracellular Score: 0.73
  • Internal Helix: 1
• LocateP:
• SignalP: no predicted signal peptide
  • SP(Sec/SPI): 0.328428
  • TAT(Tat/SPI): 0.004027
  • LIPO(Sec/SPII): 0.063802
• predicted transmembrane helices (TMHMM): 1

⊟Accession numbers

• GI: 446973657 NCBI
• RefSeq: WP_001050913 NCBI
• UniProt: see SACOL1305

⊟Protein sequence

• MNLLSLLLILLGIILGVVGGYVVARNLLLQKQSQARQTAEDIVNQAHKEADNIKKEKLLEAKEENQILREQTEAELRERRSELQRQETRLLQKEENLERKSDLLDKKDEILEQKESKIEEKQQQVDAKESSVQTLIMKHEQELERISGLTQEEAINEQLQRVEEELSQDIAVLVKEKEKEAKEKVDKTAKELLATAVQRLAADHTSESTVSVVNLPNDEMKGRIIGREGRNIRTLETLTGIDLIIDDTPEAVILSGFDPIRREIARTALVNLVSDGRIHPGRIEDMVEKARKEVDDIIREAGEQATFEVNAHNMHPDLVKIVGRLNYRTSYGQNVLKHSIEVAHLASMLAAELGEDETLAKRAGLLHDVGKAIDHEVEGSHVEIGVELAKKYGENETVINAIHSHHGDVEPTSIISILVAAADALSAARPGARKETLENYIRRLERLETLSESYDGVEKAFAIQAGREIRVIVSPEEIDDLKSYRLARDIKNQIEDELQYPGHIKVTVVRETRAVEYAK

⊟Experimental data

• experimentally validated: see SACOL1305
• protein localization: see SACOL1305
• quantitative data / protein copy number per cell:
• interaction partners:

⊟Expression & Regulation

⊟Operon

⊟Regulation

• regulator:

⊟Transcription pattern

• S.aureus Expression Data Browser: data available for NCTC8325

⊟Protein synthesis (provided by Aureolib)

• Aureolib: no data available

⊟Protein stability

• half-life: no data available

⊟Biological Material

⊟Mutants

⊟Expression vector

⊟lacZ fusion

⊟GFP fusion

⊟two-hybrid system

⊟FLAG-tag construct

⊟Antibody

⊟Other Information

You are kindly invited to share additional interesting facts.

⊟Literature

⊟References

⊟Relevant publications