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Volumn 8, Issue 11, 2013, Pages

Modulating the RNA processing and decay by the exosome: Altering Rrp44/Dis3 activity and end-product

Author keywords

[No Author keywords available]

Indexed keywords

NUCLEOTIDE; RIBONUCLEASE; RRP44 PROTEIN; UNCLASSIFIED DRUG;

EID: 84893157627     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0076504     Document Type: Article
Times cited : (12)

References (44)
  • 2
  • 4
    • 33846068920 scopus 로고    scopus 로고
    • A single subunit, Dis3, is essentially responsible for yeast exosome core activity
    • DOI 10.1038/nsmb1184, PII NSMB1184
    • Dziembowski A, Lorentzen E, Conti E, Seraphin B (2007) A single subunit, Dis3, is essentially responsible for yeast exosome core activity. Nat Struct Mol Biol 14: 15-22. (Pubitemid 46067418)
    • (2007) Nature Structural and Molecular Biology , vol.14 , Issue.1 , pp. 15-22
    • Dziembowski, A.1    Lorentzen, E.2    Conti, E.3    Seraphin, B.4
  • 5
    • 33845407784 scopus 로고    scopus 로고
    • Reconstitution, Activities, and Structure of the Eukaryotic RNA Exosome
    • DOI 10.1016/j.cell.2006.10.037, PII S0092867406014279
    • Liu Q, Greimann JC, Lima CD (2006) Reconstitution, activities, and structure of the eukaryotic RNA exosome. Cell 127: 1223-1237. (Pubitemid 44894519)
    • (2006) Cell , vol.127 , Issue.6 , pp. 1223-1237
    • Liu, Q.1    Greimann, J.C.2    Lima, C.D.3
  • 6
    • 34447300418 scopus 로고    scopus 로고
    • The Exosome Subunit Rrp44 Plays a Direct Role in RNA Substrate Recognition
    • DOI 10.1016/j.molcel.2007.06.006, PII S109727650700370X
    • Schneider C, Anderson JT, Tollervey D (2007) The exosome subunit Rrp44 plays a direct role in RNA substrate recognition. Mol Cell 27: 324-331. (Pubitemid 47058304)
    • (2007) Molecular Cell , vol.27 , Issue.2 , pp. 324-331
    • Schneider, C.1    Anderson, J.T.2    Tollervey, D.3
  • 7
    • 33748414894 scopus 로고    scopus 로고
    • Unravelling the dynamics of RNA degradation by ribonuclease II and its RNAbound complex
    • Frazão C, McVey CE, Amblar M, Barbas A, Vonrhein C, et al. (2006) Unravelling the dynamics of RNA degradation by ribonuclease II and its RNAbound complex. Nature 443: 110-114.
    • (2006) Nature , vol.443 , pp. 110-114
    • Frazão, C.1    McVey, C.E.2    Amblar, M.3    Barbas, A.4    Vonrhein, C.5
  • 8
    • 0030836805 scopus 로고    scopus 로고
    • Comparative sequence analysis of ribonucleases HII, III, II PH and D
    • Mian IS (1997) Comparative sequence analysis of ribonucleases HII, III, II PH and D. Nucleic Acids Res 25: 3187-3195.
    • (1997) Nucleic Acids Res , vol.25 , pp. 3187-3195
    • Mian, I.S.1
  • 9
    • 0030702085 scopus 로고    scopus 로고
    • The exosome: A conserved eukaryotic RNA processing complex containing multiple 3′-5′ exoribonucleases
    • Mitchell P, Petfalski E, Shevchenko A, Mann M, Tollervey D (1997) The exosome: a conserved eukaryotic RNA processing complex containing multiple 3′-5′ exoribonucleases. Cell 91: 457-466. (Pubitemid 27508235)
    • (1997) Cell , vol.91 , Issue.4 , pp. 457-466
    • Mitchell, P.1    Petfalski, E.2    Shevchenko, A.3    Mann, M.4    Tollervey, D.5
  • 10
    • 14644398570 scopus 로고    scopus 로고
    • Drosophila gene tazman, an orthologue of the yeast exosome component Rrp44p/Dis3, is differentially expressed during development
    • Cairrão F, Arraiano C, Newbury S (2005) Drosophila gene tazman, an orthologue of the yeast exosome component Rrp44p/Dis3, is differentially expressed during development. Dev Dyn 232: 733-737.
    • (2005) Dev Dyn , vol.232 , pp. 733-737
    • Cairrão, F.1    Arraiano, C.2    Newbury, S.3
  • 11
    • 84880245419 scopus 로고    scopus 로고
    • The exoribonuclease Dis3L2 defines a novel eukaryotic RNA degradation pathway
    • Malecki M, Viegas S, Carneiro T, Golik P, Dressaire C, et al. (2013) The exoribonuclease Dis3L2 defines a novel eukaryotic RNA degradation pathway. EMBO J 32: 1842-1854.
    • (2013) EMBO J , vol.32 , pp. 1842-1854
    • Malecki, M.1    Viegas, S.2    Carneiro, T.3    Golik, P.4    Dressaire, C.5
  • 12
    • 84877757514 scopus 로고    scopus 로고
    • A role for the Perlman syndrome exonuclease Dis3l2 in the Lin28-let-7 pathway
    • Chang HM, Triboulet R, Thornton JE, Gregory RI (2013) A role for the Perlman syndrome exonuclease Dis3l2 in the Lin28-let-7 pathway. Nature 497: 244-248.
    • (2013) Nature , vol.497 , pp. 244-248
    • Chang, H.M.1    Triboulet, R.2    Thornton, J.E.3    Gregory, R.I.4
  • 13
    • 84880224541 scopus 로고    scopus 로고
    • Exonuclease hDIS3L2 specifies an exosome-independent 39-59 degradation pathway of human cytoplasmic mRNA
    • Lubas M, Damgaard CK, Tomecki R, Cysewski D, Jensen TH, et al. (2013) Exonuclease hDIS3L2 specifies an exosome-independent 39-59 degradation pathway of human cytoplasmic mRNA. EMBO J 32: 1855-1868.
    • (2013) EMBO J , vol.32 , pp. 1855-1868
    • Lubas, M.1    Damgaard, C.K.2    Tomecki, R.3    Cysewski, D.4    Jensen, T.H.5
  • 14
    • 77954867631 scopus 로고    scopus 로고
    • Dis3-like 1: A novel exoribonuclease associated with the human exosome
    • Staals RH, Bronkhorst AW, Schilders G, Slomovic S, Schuster G, et al. (2010) Dis3-like 1: a novel exoribonuclease associated with the human exosome. EMBO J 29: 2358-2367.
    • (2010) EMBO J , vol.29 , pp. 2358-2367
    • Staals, R.H.1    Bronkhorst, A.W.2    Schilders, G.3    Slomovic, S.4    Schuster, G.5
  • 15
    • 77954877566 scopus 로고    scopus 로고
    • The human core exosome interacts with differentially localized processive RNases: hDIS3 and hDIS3L
    • Tomecki R, Kristiansen MS, Lykke-Andersen S, Chlebowski A, Larsen KM, et al. (2010) The human core exosome interacts with differentially localized processive RNases: hDIS3 and hDIS3L. EMBO J 29: 2342-2357.
    • (2010) EMBO J , vol.29 , pp. 2342-2357
    • Tomecki, R.1    Kristiansen, M.S.2    Lykke-Andersen, S.3    Chlebowski, A.4    Larsen, K.M.5
  • 16
    • 18744378589 scopus 로고    scopus 로고
    • RNR1, a 39-59 exoribonuclease belonging to the RNR superfamily, catalyzes 39 maturation of chloroplast ribosomal RNAs in Arabidopsis thaliana
    • DOI 10.1093/nar/gki576
    • Bollenbach TJ, Lange H, Gutierrez R, Erhardt M, Stern DB, et al. (2005) RNR1, a 39-59 exoribonuclease belonging to the RNR superfamily, catalyzes 39 maturation of chloroplast ribosomal RNAs in Arabidopsis thaliana. Nucleic Acids Res 33: 2751-2763. (Pubitemid 41511293)
    • (2005) Nucleic Acids Research , vol.33 , Issue.8 , pp. 2751-2763
    • Bollenbach, T.J.1    Lange, H.2    Gutierrez, R.3    Erhardt, M.4    Stern, D.B.5    Gagliardi, D.6
  • 17
    • 84857644144 scopus 로고    scopus 로고
    • Germline mutations in DIS3L2 cause the Perlman syndrome of overgrowth and Wilms tumor susceptibility
    • Astuti D, Morris MR, Cooper WN, Staals RH, Wake NC, et al. (2012) Germline mutations in DIS3L2 cause the Perlman syndrome of overgrowth and Wilms tumor susceptibility. Nat Genet 44: 277-284.
    • (2012) Nat Genet , vol.44 , pp. 277-284
    • Astuti, D.1    Morris, M.R.2    Cooper, W.N.3    Staals, R.H.4    Wake, N.C.5
  • 20
    • 40849106786 scopus 로고    scopus 로고
    • Structure of the Active Subunit of the Yeast Exosome Core, Rrp44: Diverse Modes of Substrate Recruitment in the RNase II Nuclease Family
    • DOI 10.1016/j.molcel.2008.02.018, PII S1097276508001627
    • Lorentzen E, Basquin J, Tomecki R, Dziembowski A, Conti E (2008) Structure of the active subunit of the yeast exosome core, Rrp44: diverse modes of substrate recruitment in the RNase II nuclease family. Mol Cell 29: 717-728. (Pubitemid 351400929)
    • (2008) Molecular Cell , vol.29 , Issue.6 , pp. 717-728
    • Lorentzen, E.1    Basquin, J.2    Tomecki, R.3    Dziembowski, A.4    Conti, E.5
  • 21
    • 84874742223 scopus 로고    scopus 로고
    • Crystal structure of an RNA-bound 11-subunit eukaryotic exosome complex
    • Makino DL, Baumgartner M, Conti E (2013) Crystal structure of an RNA-bound 11-subunit eukaryotic exosome complex. Nature 495: 70-75.
    • (2013) Nature , vol.495 , pp. 70-75
    • Makino, D.L.1    Baumgartner, M.2    Conti, E.3
  • 22
    • 84867500127 scopus 로고    scopus 로고
    • The CR3 motif of Rrp44p is important for interaction with the core exosome and exosome function
    • Schaeffer D, Reis FP, Johnson SJ, Arraiano CM, van Hoof A (2012) The CR3 motif of Rrp44p is important for interaction with the core exosome and exosome function. Nucleic Acids Res 40: 9298-9307.
    • (2012) Nucleic Acids Res , vol.40 , pp. 9298-9307
    • Schaeffer, D.1    Reis, F.P.2    Johnson, S.J.3    Arraiano, C.M.4    Van Hoof, A.5
  • 23
    • 62049085366 scopus 로고    scopus 로고
    • The N-terminal PIN domain of the exosome subunit Rrp44 harbors endonuclease activity and tethers Rrp44 to the yeast core exosome
    • Schneider C, Leung E, Brown J, Tollervey D (2009) The N-terminal PIN domain of the exosome subunit Rrp44 harbors endonuclease activity and tethers Rrp44 to the yeast core exosome. Nucleic Acids Res 37: 1127-1140.
    • (2009) Nucleic Acids Res , vol.37 , pp. 1127-1140
    • Schneider, C.1    Leung, E.2    Brown, J.3    Tollervey, D.4
  • 24
    • 58149236691 scopus 로고    scopus 로고
    • The exosome contains domains with specific endoribonuclease, exoribonuclease and cytoplasmic mRNA decay activities
    • Schaeffer D, Tsanova B, Barbas A, Reis FP, Dastidar EG, et al. (2009) The exosome contains domains with specific endoribonuclease, exoribonuclease and cytoplasmic mRNA decay activities. Nat Struct Mol Biol 16: 56-62.
    • (2009) Nat Struct Mol Biol , vol.16 , pp. 56-62
    • Schaeffer, D.1    Tsanova, B.2    Barbas, A.3    Reis, F.P.4    Dastidar, E.G.5
  • 25
    • 57749189164 scopus 로고    scopus 로고
    • Endonucleolytic RNA cleavage by a eukaryotic exosome
    • Lebreton A, Tomecki R, Dziembowski A, Seraphin B (2008) Endonucleolytic RNA cleavage by a eukaryotic exosome. Nature 456: 993-996.
    • (2008) Nature , vol.456 , pp. 993-996
    • Lebreton, A.1    Tomecki, R.2    Dziembowski, A.3    Seraphin, B.4
  • 26
    • 68949127239 scopus 로고    scopus 로고
    • Determination of key residues for catalysis and RNA cleavage specificity: One mutation turns RNase II into a "SUPER-ENZYME"
    • Barbas A, Matos RG, Amblar M, Lopez-Vinas E, Gomez-Puertas P, et al. (2009) Determination of key residues for catalysis and RNA cleavage specificity: one mutation turns RNase II into a "SUPER-ENZYME". J Biol Chem 284: 20486-20498.
    • (2009) J Biol Chem , vol.284 , pp. 20486-20498
    • Barbas, A.1    Matos, R.G.2    Amblar, M.3    Lopez-Vinas, E.4    Gomez-Puertas, P.5
  • 27
    • 45149086359 scopus 로고    scopus 로고
    • New insights into the mechanism of RNA degradation by ribonuclease II: Identification of the residue responsible for setting the RNase II end product
    • Barbas A, Matos RG, Amblar M, Lopez-Vinas E, Gomez-Puertas P, et al. (2008) New insights into the mechanism of RNA degradation by ribonuclease II: identification of the residue responsible for setting the RNase II end product. J Biol Chem 283: 13070-13076.
    • (2008) J Biol Chem , vol.283 , pp. 13070-13076
    • Barbas, A.1    Matos, R.G.2    Amblar, M.3    Lopez-Vinas, E.4    Gomez-Puertas, P.5
  • 28
    • 70350111321 scopus 로고    scopus 로고
    • RNase R mutants elucidate the catalysis of structured RNA: RNA-binding domains select the RNAs targeted for degradation
    • Matos RG, Barbas A, Arraiano CM (2009) RNase R mutants elucidate the catalysis of structured RNA: RNA-binding domains select the RNAs targeted for degradation. Biochem J 423: 291-301.
    • (2009) Biochem J , vol.423 , pp. 291-301
    • Matos, R.G.1    Barbas, A.2    Arraiano, C.M.3
  • 29
    • 0031473847 scopus 로고    scopus 로고
    • SWISS-MODEL and the Swiss-PdbViewer: An environment for comparative protein modeling
    • DOI 10.1002/elps.1150181505
    • Guex N, Peitsch MC (1997) SWISS-MODEL and the Swiss-PdbViewer: an environment for comparative protein modeling. Electrophoresis 18: 2714-2723. (Pubitemid 28059943)
    • (1997) Electrophoresis , vol.18 , Issue.15 , pp. 2714-2723
    • Guex, N.1    Peitsch, M.C.2
  • 30
    • 70350336247 scopus 로고    scopus 로고
    • The yeast exosome functions as a macromolecular cage to channel RNA substrates for degradation
    • Bonneau F, Basquin J, Ebert J, Lorentzen E, Conti E (2009) The yeast exosome functions as a macromolecular cage to channel RNA substrates for degradation. Cell 139: 547-559.
    • (2009) Cell , vol.139 , pp. 547-559
    • Bonneau, F.1    Basquin, J.2    Ebert, J.3    Lorentzen, E.4    Conti, E.5
  • 31
    • 0029004590 scopus 로고
    • Protein modelling by E-mail
    • Peitsch MC (1995) Protein modelling by E-mail. Bio/Technology 13: 658-660.
    • (1995) Bio/Technology , vol.13 , pp. 658-660
    • Peitsch, M.C.1
  • 32
    • 32144432437 scopus 로고    scopus 로고
    • The SWISS-MODEL workspace: A web-based environment for protein structure homology modelling
    • DOI 10.1093/bioinformatics/bti770
    • Arnold K, Bordoli L, Kopp J, Schwede T (2006) The SWISS-MODEL workspace: a web-based environment for protein structure homology modelling. Bioinformatics 22: 195-201. (Pubitemid 43205406)
    • (2006) Bioinformatics , vol.22 , Issue.2 , pp. 195-201
    • Arnold, K.1    Bordoli, L.2    Kopp, J.3    Schwede, T.4
  • 35
    • 0001398008 scopus 로고    scopus 로고
    • How well does a restrained electrostatic potential (RESP) model perform in calculating conformational energies of organic and biological molecules?
    • Wang J, Cieplak P, Kollman PA (2000) How well does a restrained electrostatic potential (RESP) model perform in calculating conformational energies of organic and biological molecules? J Comput Chem 21: 1049-1074.
    • (2000) J Comput Chem , vol.21 , pp. 1049-1074
    • Wang, J.1    Cieplak, P.2    Kollman, P.A.3
  • 36
    • 77953513118 scopus 로고    scopus 로고
    • Improved side-chain torsion potentials for the Amber ff99SB protein force field
    • Lindorff-Larsen K, Piana S, Palmo K, Maragakis P, Klepeis JL, et al. (2010) Improved side-chain torsion potentials for the Amber ff99SB protein force field. Proteins 78: 1950-1958.
    • (2010) Proteins , vol.78 , pp. 1950-1958
    • Lindorff-Larsen, K.1    Piana, S.2    Palmo, K.3    Maragakis, P.4    Klepeis, J.L.5
  • 37
    • 79952304472 scopus 로고    scopus 로고
    • Different nuclease requirements for exosome-mediated degradation of normal and nonstop mRNAs
    • Schaeffer D, van Hoof A (2011) Different nuclease requirements for exosome-mediated degradation of normal and nonstop mRNAs. Proc Natl Acad Sci U S A 108: 2366-2371.
    • (2011) Proc Natl Acad Sci U S A , vol.108 , pp. 2366-2371
    • Schaeffer, D.1    Van Hoof, A.2
  • 38
    • 0037155592 scopus 로고    scopus 로고
    • An mRNA surveillance mechanism that eliminates transcripts lacking termination codons
    • DOI 10.1126/science.1067338
    • Frischmeyer PA, van Hoof A, O'Donnell K, Guerrerio AL, Parker R, et al. (2002) An mRNA surveillance mechanism that eliminates transcripts lacking termination codons. Science 295: 2258-2261. (Pubitemid 34258838)
    • (2002) Science , vol.295 , Issue.5563 , pp. 2258-2261
    • Frischmeyer, P.A.1    Van Hoof, A.2    O'Donnell, K.3    Guerrerio, A.L.4    Parker, R.5    Dietz, H.C.6
  • 39
    • 0037155584 scopus 로고    scopus 로고
    • Exosome-mediated recognition and degradation of mRNAs lacking a termination codon
    • DOI 10.1126/science.1067272
    • van Hoof A, Frischmeyer PA, Dietz HC, Parker R (2002) Exosome-mediated recognition and degradation of mRNAs lacking a termination codon. Science 295: 2262-2264. (Pubitemid 34258839)
    • (2002) Science , vol.295 , Issue.5563 , pp. 2262-2264
    • Van Hoof, A.1    Frischmeyer, P.A.2    Dietz, H.C.3    Parker, R.4
  • 41
    • 0032481316 scopus 로고    scopus 로고
    • Dob1p (Mtr4p] is a putative ATP-dependent RNA helicase required for the 3' end formation of 5.8S rRNA in Saccharomyces cerevisiae
    • DOI 10.1093/emboj/17.4.1128
    • de la Cruz J, Kressler D, Tollervey D, Linder P (1998) Dob1p (Mtr4p) is a putative ATP-dependent RNA helicase required for the 39 end formation of 5.8S rRNA in Saccharomyces cerevisiae. EMBO J 17: 1128-1140. (Pubitemid 28077666)
    • (1998) EMBO Journal , vol.17 , Issue.4 , pp. 1128-1140
    • De La, C.J.1    Kressler, D.2    Tollervey, D.3    Linder, P.4
  • 42
    • 0032557455 scopus 로고    scopus 로고
    • Rrp6p, the yeast homologue of the human PM-Scl 100-kDa autoantigen, is essential for efficient 5.8 S rRNA 3' end formation
    • DOI 10.1074/jbc.273.21.13255
    • Briggs MW, Burkard KT, Butler JS (1998) Rrp6p, the yeast homologue of the human PM-Scl 100-kDa autoantigen, is essential for efficient 5.8 S rRNA 39 end formation. J Biol Chem 273: 13255-13263. (Pubitemid 28246898)
    • (1998) Journal of Biological Chemistry , vol.273 , Issue.21 , pp. 13255-13263
    • Briggs, M.W.1    Burkard, K.T.D.2    Butler, J.S.3
  • 43
    • 0029046231 scopus 로고
    • Oligoribonuclease is distinct from the other known exoribonucleases of Escherichia coli
    • Yu D, Deutscher MP (1995) Oligoribonuclease is distinct from the other known exoribonucleases of Escherichia coli. J Bacteriol 177: 4137-4139.
    • (1995) J Bacteriol , vol.177 , pp. 4137-4139
    • Yu, D.1    Deutscher, M.P.2
  • 44
    • 0016817098 scopus 로고
    • A novel oligoribonuclease of Escherichia coli. I. Isolation and properties
    • Niyogi SK, Datta AK (1975) A novel oligoribonuclease of Escherichia coli. I. Isolation and properties. J Biol Chem 250: 7307-7312.
    • (1975) J Biol Chem , vol.250 , pp. 7307-7312
    • Niyogi, S.K.1    Datta, A.K.2


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