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NCBI: 02-MAR-2017

⊟Summary[edit | edit source]

  • organism: Staphylococcus aureus N315
  • locus tag: SA_RS04180 [old locus tag: SA0735 ]
  • pan locus tag?: SAUPAN002714000
  • symbol: SA_RS04180
  • pan gene symbol?: rnr
  • synonym:
  • product: ribonuclease R

⊟Genome View[edit | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • type: CDS
  • locus tag: SA_RS04180 [old locus tag: SA0735 ]
  • symbol: SA_RS04180
  • product: ribonuclease R
  • replicon: chromosome
  • strand: +
  • coordinates: 840848..843220
  • length: 2373
  • essential: no DEG other strains

⊟Accession numbers[edit | edit source]

  • Location: NC_002745 (840848..843220) NCBI
  • BioCyc: SA_RS04180 BioCyc
  • MicrobesOnline: see SA0735

⊟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
    1021
    1081
    1141
    1201
    1261
    1321
    1381
    1441
    1501
    1561
    1621
    1681
    1741
    1801
    1861
    1921
    1981
    2041
    2101
    2161
    2221
    2281
    2341
    ATGAATTTAAAGCAATCAATAGAAGAGATTATTAATCAACCTGAATATGAACCTATGTCA
    GTGTCAGATTTTCAAGATGCATTAGGTTTAAGTAGTGCCGACTCATTTAGAGATTTAATT
    AAGGTGCTCGTAGAATTAGAACAATCAGGATTAATTGAACGTACAAAAACAGACAGATAT
    CAAAAAAAGCATAGTTCAAAAGGTCATTCAAAATTGATAAAGGGAACGTTAAGTCAAAAT
    AAAAAAGGCTTTGCATTCTTAAGACCTGAAGATGAGGATATGGAAGATATATTTATTCCC
    CCAACAAAAATTAATCGTGCCTTAGATGGAGATACTGTAATTGTAGAAATACATCAATCT
    AAAGGTGAACATAAAGGTAAAATTGAAGGGGAAGTTAAGTCGATTGAGAAGCATTCAGTA
    ACTCAAGTTGTTGGTACGTATAGTGAAGCTAGACATTTCGGATTTGTTATTCCAGATGAT
    AAACGTATTATGCAAGATATTTTCATTCCTAAAGGACAAAGTTTAGGTGCAGTAGATGGG
    CATAAGGTACTTGTTCAAATTACTAAATATGCTGATGGTTCAGATAATCCAGAAGGACAT
    ATTTCTGCTATTTTAGGACATAAAAATGATCCTGGCGTAGATATTTTATCTATTATCTAT
    CAACATGGCATAGAAATTGAATTTCCTGATGAAGTGTTACAAGAAGCTGAAGCAGTACCT
    GATCATATTGAAAATACTGAAATTAAAGGCCGTCATGATTTACGTGATGAATTGACAATC
    ACAATTGATGGTGCTGATGCTAAAGACTTAGATGACGCAATTAGTGTTAAAAAGTTAGCG
    AACGGTAATACGCAGTTGACTGTAAGTATTGCTGATGTCAGTTATTATGTAACTGAAGAT
    TCAGCTTTAGATAAAGAAGCTTATGATAGAGCGACAAGTGTATATCTTGTTGACCGTGTG
    ATTCCGATGATTCCACATCGATTAAGCAATGGTATTTGTTCATTAAATCCTCATGTTGAT
    CGTTTAACGTTAAGCTGTCGCATGGAAATCGATGCTAGTGGTCGCGTTGTTAAACATGAA
    ATTTTTGATAGTGTTATACATTCTGATTATCGAATGACGTATGATGCGGTAAATCAGATT
    ATTACTGAAAAGGATCCTAACATTCGCGAACAATATAAAGAAATTACGCCTATGTTAGAT
    TTAGCACAAGATTTATCTAATCGTTTGATTCAAATGAGAAAACGACGTGGTGAAATCGAT
    TTTGATATTAGTGAAGCAAAAGTATTAGTTAACGAAGTCGGTATACCAACAGATGTTCAA
    TTAAGACAACGTGGCGAGGGTGAACGTCTAATTGAATCATTTATGTTAATTGCAAATGAA
    ACAGTTGCTGAACATTTTAGTAAGTTAAATGTACCTTTTATTTACCGAGTGCATGAGCAA
    CCTAAATCAGATCGCTTAAGACAATTCTTTGATTTTATTACAAACTTTGGCATCATGATT
    AAGGGCACTGGCGAAGATATTCATCCAACAACACTTCAAAAGGTTCAAGAAGAAGTAGAA
    GGTCGACCTGAACAAATGGTCATTTCAACAATGATGTTACGTTCAATGCAACAAGCGCAT
    TATGATGATGTGAACTTGGGACATTTTGGCTTATCAGCTGAATATTATACGCATTTTACA
    TCACCAATTAGACGTTATCCTGATTTAACAGTTCATCGTTTAATCCGTAAGTATTTAATT
    GAGAAATCAATGGATAACAAAGAAGTGAAGCGTTGGGAAGACAAATTGCCTGAGTTAGCT
    GAACATACTTCTAAACGTGAACGTCGTGCTATTGAGGCAGAACGTGATACTGATGAATTG
    AAAAAAGCAGAATATATGATTCAACATATTGGTGATGAATTTGAAGGTATTGTCAGCTCA
    GTAGCTAACTTCGGTATGTTCATTGAATTGCCAAATACGATAGAAGGTATGGTTCATATT
    GCGAATATGACTGATGATTATTACCGTTTTGAAGAGCGTCAAATGGCATTAATTGGTGAG
    CGTCAAGCTAAAGTATTTAGAATTGGTGACACAGTTAAGGTTAAAGTGACGCATGTTGAT
    GTAGATGAACGATTAATTGATTTTCAAATTGTTGGAATGCCTTTACCTAAAAATGACCGC
    TCACAGCGACCAGCAAGAGGTAAAACGATTCAAGCTAAAACGCGTGGCAAATCTTTAGAT
    AAATCGAAATCTGATGATAAGGGTCGTAAGAAAAAAGGTAAGCAACGTAAAGGTAAAAAC
    CAACGTAATAATGATAAATCAGGTAATAGTAAGCATAAGCCATTTTATAAAGATAAAAGT
    GTGAAAAAGAAAGCACGTCGTAAGAAAAAATAA
    60
    120
    180
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    1980
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    2160
    2220
    2280
    2340
    2373

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • locus tag: SA_RS04180 [old locus tag: SA0735 ]
  • symbol: SA_RS04180
  • description: ribonuclease R
  • length: 790
  • theoretical pI: 6.833
  • theoretical MW: 90418
  • GRAVY: -0.66481

⊟Function[edit | edit source]

  • reaction:
    EC 3.1.13.1?  ExPASy
    Exoribonuclease II Exonucleolytic cleavage in the 3'- to 5'-direction to yield nucleoside 5'-phosphates
  • TIGRFAM:
    Genetic information processing Transcription Degradation of RNA ribonuclease R (TIGR02063; EC 3.1.-.-; HMM-score: 961.1)
    and 6 more
    Genetic information processing Transcription Degradation of RNA VacB and RNase II family 3'-5' exoribonucleases (TIGR00358; EC 3.1.13.1; HMM-score: 731.7)
    Genetic information processing Transcription Degradation of RNA exoribonuclease II (TIGR02062; EC 3.1.13.1; HMM-score: 203.8)
    Genetic information processing Transcription DNA-dependent RNA polymerase DNA-directed RNA polymerase (TIGR00448; EC 2.7.7.6; HMM-score: 40.7)
    Genetic information processing Protein synthesis Ribosomal proteins: synthesis and modification ribosomal protein bS1 (TIGR00717; HMM-score: 30.4)
    Genetic information processing Transcription Degradation of RNA polyribonucleotide nucleotidyltransferase (TIGR03591; EC 2.7.7.8; HMM-score: 25.4)
    guanosine pentaphosphate synthetase I/polyribonucleotide nucleotidyltransferase (TIGR02696; EC 2.7.-.-,2.7.7.8; HMM-score: 14.7)
  • TheSEED: see SA0735
  • PFAM:
    no clan defined RNB; RNB domain (PF00773; HMM-score: 370.2)
    and 7 more
    OB (CL0021) OB_RNB; Ribonuclease B OB domain (PF08206; HMM-score: 101)
    S1; S1 RNA binding domain (PF00575; HMM-score: 61.5)
    CSD; 'Cold-shock' DNA-binding domain (PF00313; HMM-score: 16.7)
    Rho_RNA_bind; Rho termination factor, RNA-binding domain (PF07497; HMM-score: 15.9)
    no clan defined MacB_PCD; MacB-like periplasmic core domain (PF12704; HMM-score: 13.4)
    DUF2203; Uncharacterized conserved protein (DUF2203) (PF09969; HMM-score: 13.2)
    HTH (CL0123) MarR; MarR family (PF01047; HMM-score: 12.4)

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

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

⊟Localization[edit | edit source]

  • PSORTb: Cytoplasmic
    • Cytoplasmic Score: 9.97
    • Cytoplasmic Membrane Score: 0
    • Cellwall Score: 0.01
    • Extracellular Score: 0.02
    • Internal Helices: 0
  • LocateP:
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.003077
    • TAT(Tat/SPI): 0.001313
    • LIPO(Sec/SPII): 0.000307
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MNLKQSIEEIINQPEYEPMSVSDFQDALGLSSADSFRDLIKVLVELEQSGLIERTKTDRYQKKHSSKGHSKLIKGTLSQNKKGFAFLRPEDEDMEDIFIPPTKINRALDGDTVIVEIHQSKGEHKGKIEGEVKSIEKHSVTQVVGTYSEARHFGFVIPDDKRIMQDIFIPKGQSLGAVDGHKVLVQITKYADGSDNPEGHISAILGHKNDPGVDILSIIYQHGIEIEFPDEVLQEAEAVPDHIENTEIKGRHDLRDELTITIDGADAKDLDDAISVKKLANGNTQLTVSIADVSYYVTEDSALDKEAYDRATSVYLVDRVIPMIPHRLSNGICSLNPHVDRLTLSCRMEIDASGRVVKHEIFDSVIHSDYRMTYDAVNQIITEKDPNIREQYKEITPMLDLAQDLSNRLIQMRKRRGEIDFDISEAKVLVNEVGIPTDVQLRQRGEGERLIESFMLIANETVAEHFSKLNVPFIYRVHEQPKSDRLRQFFDFITNFGIMIKGTGEDIHPTTLQKVQEEVEGRPEQMVISTMMLRSMQQAHYDDVNLGHFGLSAEYYTHFTSPIRRYPDLTVHRLIRKYLIEKSMDNKEVKRWEDKLPELAEHTSKRERRAIEAERDTDELKKAEYMIQHIGDEFEGIVSSVANFGMFIELPNTIEGMVHIANMTDDYYRFEERQMALIGERQAKVFRIGDTVKVKVTHVDVDERLIDFQIVGMPLPKNDRSQRPARGKTIQAKTRGKSLDKSKSDDKGRKKKGKQRKGKNQRNNDKSGNSKHKPFYKDKSVKKKARRKKK

⊟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:
    SA_RS00335PBP2a family beta-lactam-resistant peptidoglycan transpeptidase MecA  [1] (data from MRSA252)
    SA_RS017105'-nucleotidase, lipoprotein e(P4) family  [1] (data from MRSA252)
    SA_RS0201530S ribosomal protein S6  [1] (data from MRSA252)
    SA_RS0291550S ribosomal protein L10  [1] (data from MRSA252)
    SA_RS0292050S ribosomal protein L7/L12  [1] (data from MRSA252)
    SA_RS0295030S ribosomal protein S7  [1] (data from MRSA252)
    SA_RS05325ribonuclease J 1  [1] (data from MRSA252)
    SA_RS0614050S ribosomal protein L19  [1] (data from MRSA252)
    SA_RS06950virulence factor B  [1] (data from MRSA252)
    SA_RS07385DNA-binding protein HU  [1] (data from MRSA252)
    SA_RS0829550S ribosomal protein L21  [1] (data from MRSA252)
    SA_RS08470translation initiation factor IF-3  [1] (data from MRSA252)
    SA_RS08600universal stress protein  [1] (data from MRSA252)
    SA_RS0867530S ribosomal protein S4  [1] (data from MRSA252)
    SA_RS09925nicotinate phosphoribosyltransferase  [1] (data from MRSA252)
    SA_RS10845DEAD/DEAH box family ATP-dependent RNA helicase  [1] (data from MRSA252)
    SA_RS1160030S ribosomal protein S9  [1] (data from MRSA252)
    SA_RS1164030S ribosomal protein S11  [1] (data from MRSA252)
    SA_RS1167050S ribosomal protein L15  [1] (data from MRSA252)
    SA_RS1168030S ribosomal protein S5  [1] (data from MRSA252)
    SA_RS1169050S ribosomal protein L6  [1] (data from MRSA252)
    SA_RS1170550S ribosomal protein L5  [1] (data from MRSA252)
    SA_RS1172030S ribosomal protein S17  [1] (data from MRSA252)
    SA_RS1173050S ribosomal protein L16  [1] (data from MRSA252)
    SA_RS1174050S ribosomal protein L22  [1] (data from MRSA252)
    SA_RS1174530S ribosomal protein S19  [1] (data from MRSA252)
    SA_RS1175050S ribosomal protein L2  [1] (data from MRSA252)
    SA_RS1175550S ribosomal protein L23  [1] (data from MRSA252)
    SA_RS1176050S ribosomal protein L4  [1] (data from MRSA252)
    SA_RS1176550S ribosomal protein L3  [1] (data from MRSA252)

⊟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]

  1. ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 1.13 1.14 1.15 1.16 1.17 1.18 1.19 1.20 1.21 1.22 1.23 1.24 1.25 1.26 1.27 1.28 1.29 Artem Cherkasov, Michael Hsing, Roya Zoraghi, Leonard J Foster, Raymond H See, Nikolay Stoynov, Jihong Jiang, Sukhbir Kaur, Tian Lian, Linda Jackson, Huansheng Gong, Rick Swayze, Emily Amandoron, Farhad Hormozdiari, Phuong Dao, Cenk Sahinalp, Osvaldo Santos-Filho, Peter Axerio-Cilies, Kendall Byler, William R McMaster, Robert C Brunham, B Brett Finlay, Neil E Reiner
    Mapping the protein interaction network in methicillin-resistant Staphylococcus aureus.
    J Proteome Res: 2011, 10(3);1139-50
    [PubMed:21166474] [WorldCat.org] [DOI] (I p)

⊟Relevant publications[edit | edit source]

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