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NCBI: 02-MAR-2017

⊟Summary[edit | edit source]

  • 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 | edit source]

⊟Gene[edit | edit source]

⊟General[edit | edit source]

  • 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 other strains

⊟Accession numbers[edit | edit source]

  • Location: NC_009641 (842120..844492) NCBI
  • BioCyc:
  • MicrobesOnline: see NWMN_0749

⊟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
    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
    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
    1620
    1680
    1740
    1800
    1860
    1920
    1980
    2040
    2100
    2160
    2220
    2280
    2340
    2373

⊟Protein[edit | edit source]

⊟General[edit | edit source]

  • 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 | 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: 961.8)
    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: 733.8)
    Genetic information processing Transcription Degradation of RNA exoribonuclease II (TIGR02062; EC 3.1.13.1; HMM-score: 206.2)
    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 NWMN_0749
  • PFAM:
    no clan defined RNB; RNB domain (PF00773; HMM-score: 382.8)
    and 13 more
    OB (CL0021) CSD2; Cold shock domain (PF17876; HMM-score: 128.2)
    OB_RNB; Ribonuclease B OB domain (PF08206; HMM-score: 102)
    S1; S1 RNA binding domain (PF00575; HMM-score: 61.2)
    S1CSD-TOTE-2; S1/CSD-like domain 2 of the TOTE conflict systems (PF22707; HMM-score: 25.7)
    OB_HELZ2; 3'-5' exoribonuclease HELZ2, OB-fold domain (PF25049; HMM-score: 25.7)
    OB_Dis3; Dis3-like cold-shock domain 2 (CSD2) (PF17849; HMM-score: 19.9)
    OB_RNR_1st; Ribonuclease R, OB first domain, N-terminal (PF22896; HMM-score: 17.4)
    Rho_RNA_bind; Rho termination factor, RNA-binding domain (PF07497; HMM-score: 17.2)
    CSD; 'Cold-shock' DNA-binding domain (PF00313; HMM-score: 16.3)
    RNase_II_C_S1; RNase II-type exonuclease C-terminal S1 domain (PF18614; HMM-score: 15.2)
    PDDEXK (CL0236) TBPIP_N; TBP-interacting protein N-terminus (PF15517; HMM-score: 14.8)
    OB (CL0021) S1_RRP5; RRP5 S1 domain (PF23459; HMM-score: 14.5)
    HTH (CL0123) MarR; MarR family (PF01047; HMM-score: 13)

⊟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
  • DeepLocPro: Cytoplasmic
    • Cytoplasmic Score: 0.9921
    • Cytoplasmic Membrane Score: 0.006
    • Cell wall & surface Score: 0.0001
    • Extracellular Score: 0.0019
  • LocateP:
  • SignalP: no predicted signal peptide
    • SP(Sec/SPI): 0.003415
    • TAT(Tat/SPI): 0.001061
    • LIPO(Sec/SPII): 0.000359
  • predicted transmembrane helices (TMHMM): 0

⊟Accession numbers[edit | edit source]

⊟Protein sequence[edit | edit source]

  • MNLKQSIEEIINQPEYEPMSVSDFQDALGLSSADSFRDLIKVLVELEQSGLIERTKTDRYQKKHSYRGQSKLIKGTLSQNKKGFAFLRPEDEDMEDIFIPPTKINRALDGDTVIVEIHQSKGEHKGKIEGEVKSIEKHSVTQVVGTYSEARHFGFVIPDDKRIMQDIFIPKGQSLGAVDGHKVLVQITKYADGSDNPEGHISAILGHKNDPGVDILSIIYQHGIEIEFPDEVLQEAEAVPDHIENTEIKGRHDLRDELTITIDGADAKDLDDAISVKKLANGNTQLTVSIADVSYYVTEGSALDKEAYDRATSVYLVDRVIPMIPHRLSNGICSLNPNVDRLTLSCRMEIDASGRVVKHEIFDSVIHSDYRMTYDAVNQIITEKDPNIREQYNEITPMLDLAQDLSNRLIQMRKRRGEIDFDISEAKVLVNEDGIPTDVQLRQRGEGERLIESFMLIANETVAEHFSKLDVPFIYRVHEQPKSDRLRQFFDFITNFGIMIKGTGEDIHPTTLQKVQEEVEGRPEQMVISTMMLRSMQQAHYDDVNLGHFGLSAEYYTHFTSPIRRYPDLTVHRLIRKYLIEKSMDNKEVKRWEDKLPELAEHTSKRERRAIEAERDTDELKKAEYMIQHIGDEFEGIVSSVANFGMFIELPNTIEGMVHIANMTDDYYRFEERQMALIGERQAKVFRIGDTVKVKVTHVDVDERLIDFQIVGMPLPKNDRSQRPARGKTIQAKTRGKSLDKSKSDDKGRKKKGKQRKGKNQRNNDKSGNSKHKPFYKDKSVKKKARRKKK

⊟Experimental data[edit | edit source]

⊟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 can add further information about the gene and protein here. [edit]

⊟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 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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