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NCBI: 02-MAR-2017

Summary[edit source | edit]

  • organism: Staphylococcus aureus Newman
  • locus tag: NWMN_RS04235 [old locus tag: NWMN_0749 ]
  • pan locus tag?: SAUPAN002714000
  • symbol: NWMN_RS04235
  • pan gene symbol?: rnr
  • synonym:
  • product: ribonuclease R

Genome View[edit source | edit]

Gene[edit source | edit]

General[edit source | edit]

  • type: CDS
  • locus tag: NWMN_RS04235 [old locus tag: NWMN_0749 ]
  • symbol: NWMN_RS04235
  • product: ribonuclease R
  • replicon: chromosome
  • strand: +
  • coordinates: 842120..844492
  • length: 2373
  • essential: unknown

Accession numbers[edit source | edit]

  • Location: NC_009641 (842120..844492) NCBI
  • MicrobesOnline:

Phenotype[edit source | edit]

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

DNA sequence[edit source | edit]

  • 1
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    ATGAATTTAAAGCAATCTATAGAAGAGATTATTAATCAACCTGAATATGAACCTATGTCA
    GTGTCAGATTTTCAAGATGCATTAGGTTTAAGCAGTGCCGACTCGTTTAGAGATTTAATT
    AAGGTGCTTGTGGAGTTAGAACAATCAGGATTAATCGAACGTACAAAAACAGACAGATAC
    CAAAAAAAGCATAGTTATAGAGGTCAATCAAAATTGATAAAAGGAACGTTAAGTCAAAAT
    AAAAAAGGCTTTGCATTCTTAAGACCTGAAGATGAGGATATGGAAGATATATTTATTCCC
    CCGACGAAAATTAATCGTGCCTTGGATGGAGATACTGTTATTGTAGAAATCCATCAATCA
    AAAGGTGAACATAAAGGTAAAATCGAAGGGGAAGTTAAGTCGATTGAGAAGCATTCTGTA
    ACTCAAGTTGTTGGTACGTATAGTGAAGCTAGACATTTTGGCTTTGTTATTCCGGATGAT
    AAACGTATTATGCAAGATATTTTCATTCCTAAAGGTCAAAGTTTAGGCGCAGTCGATGGT
    CATAAGGTACTTGTACAAATTACTAAGTATGCTGATGGTTCAGATAATCCAGAAGGACAT
    ATTTCTGCTATTTTAGGACATAAAAATGATCCTGGCGTAGATATTTTATCTATTATCTAT
    CAACATGGCATAGAAATTGAATTTCCTGATGAAGTGTTACAAGAAGCTGAAGCAGTACCT
    GATCATATTGAAAATACTGAAATTAAAGGCCGTCATGATTTACGTGATGAATTGACAATC
    ACAATTGATGGTGCTGATGCTAAAGACTTAGATGACGCAATTAGTGTTAAAAAGTTAGCG
    AACGGTAATACGCAATTAACTGTAAGTATTGCTGATGTCAGCTATTATGTAACAGAAGGT
    TCTGCATTGGATAAAGAGGCATATGATAGAGCGACAAGTGTATATCTTGTTGACCGTGTA
    ATTCCAATGATTCCACATCGATTAAGTAATGGTATTTGTTCATTGAATCCTAATGTTGAT
    CGTTTAACTCTAAGCTGTCGCATGGAAATCGATGCTAGTGGTCGCGTTGTTAAACATGAA
    ATTTTTGATAGTGTTATACATTCTGATTATCGAATGACGTATGATGCGGTAAATCAGATT
    ATTACTGAAAAGGATCCTAACATTCGCGAACAATATAATGAAATTACGCCTATGCTAGAT
    TTAGCACAAGATTTATCTAATCGTTTGATTCAAATGAGAAAACGACGTGGTGAAATCGAT
    TTTGATATTAGTGAAGCAAAAGTATTAGTTAACGAAGACGGTATACCAACAGATGTTCAA
    TTAAGACAACGTGGCGAGGGTGAACGTCTAATTGAATCATTTATGTTAATTGCAAATGAA
    ACAGTTGCTGAACATTTTAGTAAGTTAGATGTACCTTTTATTTACCGAGTGCATGAGCAA
    CCTAAATCAGATCGCTTAAGACAATTCTTTGATTTTATTACAAACTTTGGCATCATGATT
    AAGGGTACTGGCGAAGATATTCATCCAACAACACTTCAAAAGGTTCAAGAAGAAGTAGAA
    GGTCGACCTGAACAAATGGTCATTTCAACAATGATGTTGCGTTCAATGCAACAAGCGCAT
    TATGATGATGTGAACTTGGGACATTTTGGCTTATCAGCTGAATATTATACGCATTTTACA
    TCACCAATTAGACGTTATCCTGATTTAACAGTTCATCGTTTAATCCGTAAGTATTTAATT
    GAGAAATCAATGGATAACAAAGAAGTGAAGCGTTGGGAAGACAAATTGCCTGAGTTAGCT
    GAACATACTTCTAAACGTGAACGTCGTGCTATTGAGGCAGAACGTGATACTGATGAATTG
    AAAAAAGCAGAATATATGATTCAACATATTGGTGATGAATTTGAAGGTATTGTCAGCTCA
    GTAGCTAACTTCGGTATGTTCATTGAATTGCCAAATACGATAGAAGGTATGGTTCATATT
    GCGAATATGACTGATGATTATTACCGTTTTGAAGAGCGTCAAATGGCATTAATTGGTGAG
    CGTCAAGCTAAAGTATTTAGAATTGGTGACACAGTTAAGGTTAAAGTGACGCATGTTGAT
    GTAGATGAACGATTAATTGATTTTCAAATTGTAGGTATGCCTTTACCGAAAAATGATCGA
    TCACAGCGCCCAGCGCGAGGTAAGACAATTCAAGCCAAAACGCGTGGTAAATCATTAGAT
    AAATCAAAATCTGATGATAAGGGTCGTAAGAAAAAAGGTAAGCAACGTAAAGGTAAAAAC
    CAACGTAATAATGATAAATCAGGTAATAGTAAGCATAAGCCATTTTATAAAGATAAAAGT
    GTGAAAAAGAAAGCACGTCGTAAGAAAAAATAA
    60
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    2160
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    2373

Protein[edit source | edit]

General[edit source | edit]

  • locus tag: NWMN_RS04235 [old locus tag: NWMN_0749 ]
  • symbol: NWMN_RS04235
  • description: ribonuclease R
  • length: 790
  • theoretical pI: 6.65179
  • theoretical MW: 90434.9
  • GRAVY: -0.672278

Function[edit source | edit]

  • reaction:
    EC 3.1.13.1?  ExPASy
    Exoribonuclease IIExonucleolytic cleavage in the 3'- to 5'-direction to yield nucleoside 5'-phosphates
  • TIGRFAM:
    Genetic information processingTranscriptionDegradation of RNAribonuclease R (TIGR02063; EC 3.1.-.-; HMM-score: 961.8)
    Genetic information processingTranscriptionDegradation of RNAVacB and RNase II family 3'-5' exoribonucleases (TIGR00358; EC 3.1.13.1; HMM-score: 733.8)
    Genetic information processingTranscriptionDegradation of RNAexoribonuclease II (TIGR02062; EC 3.1.13.1; HMM-score: 206.2)
    Genetic information processingTranscriptionDNA-dependent RNA polymeraseDNA-directed RNA polymerase (TIGR00448; EC 2.7.7.6; HMM-score: 40.7)
    Genetic information processingProtein synthesisRibosomal proteins: synthesis and modificationribosomal protein bS1 (TIGR00717; HMM-score: 30.4)
    Genetic information processingTranscriptionDegradation of RNApolyribonucleotide 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:
  • PFAM:
    no clan definedRNB; RNB domain (PF00773; HMM-score: 372.5)
    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: 16)
    no clan definedMacB_PCD; MacB-like periplasmic core domain (PF12704; HMM-score: 13.5)
    HTH (CL0123) MarR; MarR family (PF01047; HMM-score: 12.4)

Structure, modifications & interactions[edit source | edit]

Localization[edit source | edit]

  • 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
    • Ymax: 0.11
    • Ymax_pos: 62
    • Cmax: 0.116
    • Cmax_pos: 34
    • Smax: 0.146
    • Smax_pos: 54
    • Smean: 0.084
    • D: 0.1
  • predicted transmembrane helices (TMHMM): 0

Accession numbers[edit source | edit]

  • GI: 446972808 NCBI
  • RefSeq: WP_001050064 NCBI
  • UniProt:

Protein sequence[edit source | edit]

  • MNLKQSIEEIINQPEYEPMSVSDFQDALGLSSADSFRDLIKVLVELEQSGLIERTKTDRYQKKHSYRGQSKLIKGTLSQNKKGFAFLRPEDEDMEDIFIPPTKINRALDGDTVIVEIHQSKGEHKGKIEGEVKSIEKHSVTQVVGTYSEARHFGFVIPDDKRIMQDIFIPKGQSLGAVDGHKVLVQITKYADGSDNPEGHISAILGHKNDPGVDILSIIYQHGIEIEFPDEVLQEAEAVPDHIENTEIKGRHDLRDELTITIDGADAKDLDDAISVKKLANGNTQLTVSIADVSYYVTEGSALDKEAYDRATSVYLVDRVIPMIPHRLSNGICSLNPNVDRLTLSCRMEIDASGRVVKHEIFDSVIHSDYRMTYDAVNQIITEKDPNIREQYNEITPMLDLAQDLSNRLIQMRKRRGEIDFDISEAKVLVNEDGIPTDVQLRQRGEGERLIESFMLIANETVAEHFSKLDVPFIYRVHEQPKSDRLRQFFDFITNFGIMIKGTGEDIHPTTLQKVQEEVEGRPEQMVISTMMLRSMQQAHYDDVNLGHFGLSAEYYTHFTSPIRRYPDLTVHRLIRKYLIEKSMDNKEVKRWEDKLPELAEHTSKRERRAIEAERDTDELKKAEYMIQHIGDEFEGIVSSVANFGMFIELPNTIEGMVHIANMTDDYYRFEERQMALIGERQAKVFRIGDTVKVKVTHVDVDERLIDFQIVGMPLPKNDRSQRPARGKTIQAKTRGKSLDKSKSDDKGRKKKGKQRKGKNQRNNDKSGNSKHKPFYKDKSVKKKARRKKK

Experimental data[edit source | edit]

  • experimentally validated: no data available

Expression & Regulation[edit source | edit]

Operon[edit source | edit]

  • NWMN_RS04235 no polycistronic organisation predicted

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]

  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 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 source | edit]