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NCBI: 06-JUL-2013
⊟Summary[edit | edit source]
- organism: Staphylococcus aureus Newman
- locus tag: NWMN_1195 [new locus tag: NWMN_RS06730 ]
- pan locus tag?: SAUPAN003588000
- symbol: NWMN_1195
- pan gene symbol?: rny
- synonym: cvfA
- product: phosphodiesterase
⊟Genome View[edit | edit source]
⊟Gene[edit | edit source]
⊟General[edit | edit source]
- 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 | edit source]
- Gene ID: 5332338 NCBI
- RefSeq: YP_001332229 NCBI
- BioCyc:
- MicrobesOnline: 3706747 MicrobesOnline
⊟Phenotype[edit | edit source]
Share your knowledge and add information here. [edit]
⊟DNA sequence[edit | edit source]
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1501GTGAATTTATTAAGCCTCCTACTCATTTTGCTGGGGATCATTCTAGGAGTTGTTGGAGGG
TATGTTGTTGCCCGAAATTTGTTGCTTCAAAAGCAATCACAAGCTAGACAAACTGCCGAA
GATATTGTAAATCAAGCACATAAAGAAGCTGACAATATCAAAAAAGAGAAATTACTTGAG
GCAAAAGAAGAAAACCAAATCCTAAGAGAACAAACTGAAGCAGAACTACGAGAAAGACGT
AGCGAACTTCAAAGACAAGAAACCCGACTTCTTCAAAAAGAAGAAAACTTAGAGCGCAAA
TCTGATCTATTAGATAAAAAAGATGAGATTTTAGAGCAAAAAGAATCAAAAATTGAAGAA
AAACAACAACAAGTAGATGCAAAAGAGAGTAGTGTTCAAACGTTAATAATGAAGCATGAA
CAAGAATTAGAACGCATCTCCGGTCTCACTCAAGAAGAAGCTATTAATGAGCAACTTCAA
AGAGTAGAGGAAGAACTGTCACAAGATATTGCAGTACTTGTTAAAGAAAAAGAAAAAGAA
GCTAAAGAAAAAGTTGATAAAACAGCAAAAGAATTATTAGCTACAGCAGTACAAAGATTA
GCAGCAGATCACACAAGTGAATCAACGGTATCAGTAGTTAACTTACCTAATGATGAGATG
AAAGGTCGAATCATTGGACGAGAAGGACGAAACATCCGCACACTTGAAACTTTAACTGGC
ATTGATTTAATTATTGATGACACACCAGAAGCGGTTATATTATCTGGTTTTGATCCAATA
AGAAGAGAAATTGCTAGAACAGCACTTGTTAACTTAGTATCTGATGGACGTATTCATCCA
GGTAGAATTGAAGATATGGTCGAAAAAGCTAGAAAAGAAGTAGACGATATTATTAGAGAA
GCAGGTGAACAAGCTACATTTGAAGTGAACGCACATAATATGCATCCTGACTTAGTAAAA
ATTGTAGGGCGTTTAAACTATCGTACGAGTTACGGTCAAAATGTACTTAAACATTCAATT
GAAGTTGCGCATCTTGCTAGTATGTTAGCTGCTGAGCTAGGCGAAGATGAGACATTAGCG
AAACGAGCTGGACTTTTACATGATGTTGGTAAAGCAATTGATCATGAAGTAGAAGGTAGT
CATGTTGAAATCGGTGTAGAATTAGCGAAAAAATATGGTGAAAATGAAACAGTTATTAAT
GCAATCCATTCTCATCATGGTGATGTTGAACCTACATCTATTATATCTATCCTTGTTGCT
GCTGCAGATGCATTGTCTGCGGCTCGTCCAGGTGCAAGAAAAGAAACATTAGAGAATTAT
ATTCGTCGATTAGAACGTTTAGAAACGTTATCAGAAAGTTATGATGGTGTAGAAAAAGCA
TTTGCGATTCAGGCAGGTAGAGAAATCCGAGTGATTGTATCTCCTGAAGAAATTGATGAT
TTAAAATCTTATCGATTGGCTAGAGATATTAAAAATCAGATTGAAGATGAATTACAATAT
CCTGGTCATATCAAGGTGACAGTTGTTCGAGAGACTAGAGCAGTAGAATATGCGAAATAA60
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⊟Protein[edit | edit source]
⊟General[edit | edit source]
- 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 | edit source]
- reaction: EC 3.1.-.-? ExPASy
- TIGRFAM: Transcription Degradation of RNA ribonuclease Y (TIGR03319; EC 3.1.-.-; HMM-score: 795.6)and 6 moreHDIG 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)Transport and binding proteins Cations and iron carrying compounds potassium uptake protein, Trk family (TIGR00934; HMM-score: 3.3)
- TheSEED: data available for COL, N315, NCTC8325, USA300_FPR3757
- PFAM: no clan defined DUF3552; Domain of unknown function (DUF3552) (PF12072; HMM-score: 212.2)and 6 moreHD_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[edit | edit source]
- domains:
- modifications:
- cofactors:
- effectors:
⊟Localization[edit | edit source]
- 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
- SP(Sec/SPI): 0.328428
- TAT(Tat/SPI): 0.004027
- LIPO(Sec/SPII): 0.063802
- predicted transmembrane helices (TMHMM): 1
⊟Accession numbers[edit | edit source]
⊟Protein sequence[edit | edit source]
- MNLLSLLLILLGIILGVVGGYVVARNLLLQKQSQARQTAEDIVNQAHKEADNIKKEKLLEAKEENQILREQTEAELRERRSELQRQETRLLQKEENLERKSDLLDKKDEILEQKESKIEEKQQQVDAKESSVQTLIMKHEQELERISGLTQEEAINEQLQRVEEELSQDIAVLVKEKEKEAKEKVDKTAKELLATAVQRLAADHTSESTVSVVNLPNDEMKGRIIGREGRNIRTLETLTGIDLIIDDTPEAVILSGFDPIRREIARTALVNLVSDGRIHPGRIEDMVEKARKEVDDIIREAGEQATFEVNAHNMHPDLVKIVGRLNYRTSYGQNVLKHSIEVAHLASMLAAELGEDETLAKRAGLLHDVGKAIDHEVEGSHVEIGVELAKKYGENETVINAIHSHHGDVEPTSIISILVAAADALSAARPGARKETLENYIRRLERLETLSESYDGVEKAFAIQAGREIRVIVSPEEIDDLKSYRLARDIKNQIEDELQYPGHIKVTVVRETRAVEYAK
⊟Experimental data[edit | edit source]
⊟Expression & Regulation[edit | edit source]
⊟Operon[edit | edit source]
- MicrobesOnline: no polycistronic organisation predicted
⊟Regulation[edit | edit source]
- regulator:
⊟Transcription pattern[edit | edit source]
- S.aureus Expression Data Browser: data available for NCTC8325
⊟Protein synthesis (provided by Aureolib)[edit | edit source]
- Aureolib: no data available
⊟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]
Gabriella Marincola, Tina Schäfer, Juliane Behler, Jörg Bernhardt, Knut Ohlsen, Christiane Goerke, Christiane Wolz
RNase Y of Staphylococcus aureus and its role in the activation of virulence genes.
Mol Microbiol: 2012, 85(5);817-32
[PubMed:22780584] [WorldCat.org] [DOI] (I p)