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⊟Summary[edit | edit source]

  • pan ID?: SAUPAN003588000
  • symbol?: rny
  • synonym: cvfA
  • description?: ribonuclease Y

      descriptions from strain specific annotations:

    • ribonuclease Y
    • phosphodiesterase
    • 2', 3'-cyclic-nucleotide 2'-phosphodiesterase, putative
    • 2',3'-cyclic-nucleotide 2'-phosphodiesterase
    • hydrolase
    • Hydrolase (HAD superfamily)
  • strand?: +
  • coordinates?: 3929076..3930696
  • synteny block?: BlockID0026650
  • occurrence?: in 100% of 34 strains

rny (cvfA) : ribonuclease Y [1]

Ribonuclease Y is a bifunctional riboendonuclease and a 2',3'-cyclic RNA monophosphate 2'-phosphodiesterase. Like most other riboendonucleases, RNase Y converts a terminal 3'-OH to a 2',3'-cyclic nucleotide monophosphate at the new terminus after cleavage. Both forms (3'-OH and 2',3'-c-P) are recognized and degraded by polynucleotide phosphorylase. Ribonuclease Y can also perform an additional step, cleaving RNA transcripts from a 3'-OH to a new 2',3'-c-P, but then hydrolyzing the terminal 2',3'-cyclic nucleotide monophosphate into a 3'-phosphate which blocks PNP degradation. As such, RNase Y was first identified as Conserved Virulence Factor A (CvfA), a gene critical for virulence in the silkworm infection model. In this role, RNaseY stabilizes agr transcripts as terminal 3'-phosphates, sharply increasing production of agr-regulated virulence traits such as hemolysin production. By regulating its cyclic nucleotide phosphodiesterase activity, RNase Y can contribute to both mRNA-stabilizing maturation as well as mRNA degradasome functions.

⊟Orthologs[edit | edit source]

    COL:
    SACOL1305
    N315:
    SA1129
    NCTC8325:
    SAOUHSC_01263
    Newman:
    NWMN_1195
    USA300_FPR3757:
    SAUSA300_1179
    04-02981:
    SA2981_1244
    08BA02176:
    C248_1319
    11819-97:
    MS7_1244 (rny)
    6850:
    RSAU_001169 (cvfA)
    71193:
    ST398NM01_1288
    ECT-R 2:
    ECTR2_1142
    ED133:
    SAOV_1288
    ED98:
    SAAV_1261
    HO 5096 0412:
    SAEMRSA15_11190
    JH1:
    SaurJH1_1372
    JH9:
    SaurJH9_1346
    JKD6008:
    SAA6008_01241
    JKD6159:
    SAA6159_01141
    JSNZ:
    JSNZ_001258 (rny)
    LGA251:
    SARLGA251_11970 (cvfA)
    M013:
    M013TW_1228
    MRSA252:
    SAR1262
    MSHR1132:
    SAMSHR1132_11290
    MSSA476:
    SAS1220
    Mu3:
    SAHV_1276
    Mu50:
    SAV1286
    MW2:
    MW1169
    RF122:
    SAB1148
    ST398:
    SAPIG1288
    T0131:
    SAT0131_01342
    TCH60:
    HMPREF0772_11942 (cvfA)
    TW20:
    SATW20_12800 (cvfA)
    USA300_TCH1516:
    USA300HOU_1218
    VC40:
    SAVC_05595

⊟Genome Viewer[edit | edit source]

COL
N315
NCTC8325
Newman
USA300_FPR3757

⊟Alignments[edit | edit source]

  • alignment of orthologues:
    CLUSTAL format alignment by MAFFT L-INS-i (v7.307)


    COL             MNLLSLLLILLGIILGVVGGYVVARNLLLQKQSQARQTAEDIVNQAHKEADNIKKEKLLE
    N315            MNLLSLLLILLGIILGVVGGYVVARNLLLQKQSQARQTAEDIVNQAHKEADNIKKEKLLE
    NCTC8325        MNLLSLLLILLGIILGVVGGYVVARNLLLQKQSQARQTAEDIVNQAHKEADNIKKEKLLE
    Newman          MNLLSLLLILLGIILGVVGGYVVARNLLLQKQSQARQTAEDIVNQAHKEADNIKKEKLLE
    USA300_FPR3757  MNLLSLLLILLGIILGVVGGYVVARNLLLQKQSQARQTAEDIVNQAHKEADNIKKEKLLE
                    ************************************************************

    COL             AKEENQILREQTEAELRERRSELQRQETRLLQKEENLERKSDLLDKKDEILEQKESKIEE
    N315            AKEENQILREQTEAELRERRSELQRQETRLLQKEENLERKSDLLDKKDEILEQKESKIEE
    NCTC8325        AKEENQILREQTEAELRERRSELQRQETRLLQKEENLERKSDLLDKKDEILEQKESKIEE
    Newman          AKEENQILREQTEAELRERRSELQRQETRLLQKEENLERKSDLLDKKDEILEQKESKIEE
    USA300_FPR3757  AKEENQILREQTEAELRERRSELQRQETRLLQKEENLERKSDLLDKKDEILEQKESKIEE
                    ************************************************************

    COL             KQQQVDAKESSVQTLIMKHEQELERISGLTQEEAINEQLQRVEEELSQDIAVLVKEKEKE
    N315            KQQQVDAKESSVQTLIMKHEQELERISGLTQEEAINEQLQRVEEELSQDIAVLVKEKEKE
    NCTC8325        KQQQVDAKESSVQTLIMKHEQELERISGLTQEEAINEQLQRVEEELSQDIAVLVKEKEKE
    Newman          KQQQVDAKESSVQTLIMKHEQELERISGLTQEEAINEQLQRVEEELSQDIAVLVKEKEKE
    USA300_FPR3757  KQQQVDAKESSVQTLIMKHEQELERISGLTQEEAINEQLQRVEEELSQDIAVLVKEKEKE
                    ************************************************************

    COL             AKEKVDKTAKELLATAVQRLAADHTSESTVSVVNLPNDEMKGRIIGREGRNIRTLETLTG
    N315            AKEKVDKTAKELLATAVQRLAADHTSESTVSVVNLPNDEMKGRIIGREGRNIRTLETLTG
    NCTC8325        AKEKVDKTAKELLATAVQRLAADHTSESTVSVVNLPNDEMKGRIIGREGRNIRTLETLTG
    Newman          AKEKVDKTAKELLATAVQRLAADHTSESTVSVVNLPNDEMKGRIIGREGRNIRTLETLTG
    USA300_FPR3757  AKEKVDKTAKELLATAVQRLAADHTSESTVSVVNLPNDEMKGRIIGREGRNIRTLETLTG
                    ************************************************************

    COL             IDLIIDDTPEAVILSGFDPIRREIARTALVNLVSDGRIHPGRIEDMVEKARKEVDDIIRE
    N315            IDLIIDDTPEAVILSGFDPIRREIARTALVNLVSDGRIHPGRIEDMVEKARKEVDDIIRE
    NCTC8325        IDLIIDDTPEAVILSGFDPIRREIARTALVNLVSDGRIHPGRIEDMVEKARKEVDDIIRE
    Newman          IDLIIDDTPEAVILSGFDPIRREIARTALVNLVSDGRIHPGRIEDMVEKARKEVDDIIRE
    USA300_FPR3757  IDLIIDDTPEAVILSGFDPIRREIARTALVNLVSDGRIHPGRIEDMVEKARKEVDDIIRE
                    ************************************************************

    COL             AGEQATFEVNAHNMHPDLVKIVGRLNYRTSYGQNVLKHSIEVAHLASMLAAELGEDETLA
    N315            AGEQATFEVNAHNMHPDLVKIVGRLNYRTSYGQNVLKHSIEVAHLASMLAAELGEDETLA
    NCTC8325        AGEQATFEVNAHNMHPDLVKIVGRLNYRTSYGQNVLKHSIEVAHLASMLAAELGEDETLA
    Newman          AGEQATFEVNAHNMHPDLVKIVGRLNYRTSYGQNVLKHSIEVAHLASMLAAELGEDETLA
    USA300_FPR3757  AGEQATFEVNAHNMHPDLVKIVGRLNYRTSYGQNVLKHSIEVAHLASMLAAELGEDETLA
                    ************************************************************

    COL             KRAGLLHDVGKAIDHEVEGSHVEIGVELAKKYGENETVINAIHSHHGDVEPTSIISILVA
    N315            KRAGLLHDVGKAIDHEVEGSHVEIGVELAKKYGENETVINAIHSHHGDVEPTSIISILVA
    NCTC8325        KRAGLLHDVGKAIDHEVEGSHVEIGVELAKKYGENETVINAIHSHHGDVEPTSIISILVA
    Newman          KRAGLLHDVGKAIDHEVEGSHVEIGVELAKKYGENETVINAIHSHHGDVEPTSIISILVA
    USA300_FPR3757  KRAGLLHDVGKAIDHEVEGSHVEIGVELAKKYGENETVINAIHSHHGDVEPTSIISILVA
                    ************************************************************

    COL             AADALSAARPGARKETLENYIRRLERLETLSESYDGVEKAFAIQAGREIRVIVSPEEIDD
    N315            AADALSAARPGARKETLENYIRRLERLETLSESYDGVEKAFAIQAGREIRVIVSPEEIDD
    NCTC8325        AADALSAARPGARKETLENYIRRLERLETLSESYDGVEKAFAIQAGREIRVIVSPEEIDD
    Newman          AADALSAARPGARKETLENYIRRLERLETLSESYDGVEKAFAIQAGREIRVIVSPEEIDD
    USA300_FPR3757  AADALSAARPGARKETLENYIRRLERLETLSESYDGVEKAFAIQAGREIRVIVSPEEIDD
                    ************************************************************

    COL             LKSYRLARDIKNQIEDELQYPGHIKVTVVRETRAVEYAK
    N315            LKSYRLARDIKNQIEDELQYPGHIKVTVVRETRAVEYAK
    NCTC8325        LKSYRLARDIKNQIEDELQYPGHIKVTVVRETRAVEYAK
    Newman          LKSYRLARDIKNQIEDELQYPGHIKVTVVRETRAVEYAK
    USA300_FPR3757  LKSYRLARDIKNQIEDELQYPGHIKVTVVRETRAVEYAK
                    ***************************************

  1. ↑ Shunsuke Numata, Makiko Nagata, Han Mao, Kazuhisa Sekimizu, Chikara Kaito
    CvfA protein and polynucleotide phosphorylase act in an opposing manner to regulate Staphylococcus aureus virulence.
    J Biol Chem: 2014, 289(12);8420-31
    [PubMed:24492613] [WorldCat.org] [DOI] (I p)    Rémy A Bonnin, Philippe Bouloc
    RNA Degradation in Staphylococcus aureus: Diversity of Ribonucleases and Their Impact.
    Int J Genomics: 2015, 2015;395753
    [PubMed:25977913] [WorldCat.org] [DOI] (P p)
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