The U1, U2 and U5 snRNAs crosslink to the 5′ exon during yeast pre-mRNA splicing

Nucleic Acids Research

Volumn 36, Issue 3, 2008, Pages 814-825

  McGrail, Joanne C ^a   O'Keefe, Raymond T ^a  

^a UNIVERSITY OF MANCHESTER   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ADENOSINE TRIPHOSPHATE; FUNGAL RNA; MESSENGER RNA; RNA PRECURSOR; SMALL NUCLEAR RNA;

3' UNTRANSLATED REGION; 5' UNTRANSLATED REGION; ARTICLE; BASE PAIRING; COMPLEX FORMATION; CONTROLLED STUDY; CROSS LINKING; EXON; GENE INTERACTION; GENE MAPPING; MOLECULAR RECOGNITION; NONHUMAN; PRIORITY JOURNAL; RNA SEQUENCE; RNA SPLICING; SPLICEOSOME; ULTRAVIOLET RADIATION; YEAST;

ADENOSINE TRIPHOSPHATE; BINDING SITES; EXONS; FUNGAL PROTEINS; RNA PRECURSORS; RNA SPLICE SITES; RNA SPLICING; RNA, MESSENGER; RNA, SMALL NUCLEAR; SPLICEOSOMES; YEASTS;

EID: 39449114521     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gkm1098     Document Type: Article

References (53)

1. Moore,M.J., Query,C.C. and Sharp,P.A. (1993) Splicing of precursors to mRNA by the spliceosome. In Gesteland,R.F. and Atkins,J.F. (eds), The RNA World. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York, pp. 303-357.
2. Jurica,M.S. and Moore,M.J. (2003) Pre-mRNA splicing: A wash in a sea of proteins. Mol. Cell, 12, 5-14.
3. Lührmann,R., Kastner,B. and Bach,M. (1990) Structure of spliceosomal snRNPs and their role in pre-mRNA splicing. Biochim. Biophys. Acta 1087, 265-292.
4. Nilsen,T.W. (1998) RNA-RNA interactions in nuclear pre-mRNA splicing. In Simons,R.W. and Grunberg-Manago,M. (eds), RNA Structure and Function Cold Spring Harbor Press, Cold Spring Harbor, NY, pp. 279-307.
5. Brow,D.A. (2002) Allosteric cascade of spliceosome activation. Annu. Rev. Genet., 36, 333-360.
6. Séraphin,B. and Rosbash,M. (1989) Identification of functional U1 snRNA-premRNA complexes committed to spliceosome assembly and splicing. Cell, 59, 349-358.
7. Séraphin,B. and Rosbash,M. (1991) The yeast branchpoint sequence is not required for the formation of a stable U1 snRNP-pre-mRNA complex and is recognised in the absence of U2 snRNA. EMBO J., 10, 1209-1216.
8. Séraphin,B. and Kandels-Lewig,S. (1993) 3′ splice site recognition in S. cerevisiae does not require base pairing with U1 snRNA. Cell, 73, 803-812.
9. Séraphin,B., Kretzner,L. and Rosbash,M. (1988) A U1 snRNA-pre-mRNA base-pairing interaction is required early in yeast spliceosome assembly but does not uniquely define the 5′ cleavage site. EMBO J., 7 2533-2538.
10. Siliciano,P.G. and Guthrie,C. (1988) 5′ splice site selection in yeast: Genetic alterations in base-pairing with U1 reveal additional requirements. Genes Dev., 2, 1258-1267.
11. Zhuang,Y. and Weiner,A.M. (1986) A compensatory base change in U1 snRNA suppresses a 5′ splice site mutation. Cell, 46, 827-835.
12. Newman,A.J., Teigelkamp,S. and Beggs,J.D. (1995) snRNA interactions at 5′ and 3′ splice sites monitored by photoactivated crosslinking in yeast spliceosomes. RNA, 1, 968-980.
13. Sontheimer,E.J. and Steitz,J.A. (1993) The U5 and U6 small nuclear RNAs as the active site components of the spliceosome. Science, 262 1989-1996.
14. Wyatt,J.R., Sontheimer,E.J. and Steitz,J.A. (1992) Site-specific cross-linking of mammalian U5 snRNP to the 5′ splice site before the first step of pre-mRNA splicing. Genes Dev., 6, 2542-2553.
15. Abovich,N. and Rosbash,M. (1997) Cross-intron bridging interactions in the yeast commitment complex are conserved in mammals. Cell, 89 403-412.
16. Das,R., Zhou,Z. and Reod,R. (2000) Functional association of U2 snRNP with the ATP-independent spliceosomal complex E. Mol. Cell, 5 779-787.
17. Donmez,G., Hartmuth,K. and Lührmann,R. (2004) Modified nucleotides at the 5′ end of human U2 snRNA are required for spliceosomal E-complex formation. RNA, 10, 1925-1933.
18. Donmez,G., Hartmuth,K., Kastner,B., Will,C.L. and Lührmann,R. (2007) The 5′ end of U2 snRNA is in close proximity to U1 and functional sites of the pre-mRNA in early spliceosomal complexes. Mol. Cell, 25, 399-411.
19. Frilander,M.J. and Meng,X. (2005) Proximity of the U12 snRNA with both the 5′ splice site and the branch point during early stages of spliceosome assembly. Mol. Cell Biol., 25, 4813-4825.
20. Newman,A.J. (1997) The role of US snRNP in pre-mRNA splicing. EMBO J. 16, 5797-5800.
21. McGrail,J.C., Tatum,E.M. and O'Keefe,R.T. (2006) Mutation in the U2 snRNA influences exon interactions of U5. snRNA loop 1 during pre-mRNA splicing. EMBO J., 25, 3813-3822.
22. Newman,A. and Norman,C. (1991) Mutations in yeast U5 snRNA alter the specificity of 5′ splice-site cleavage. Cell, 65, 115-123.
23. Newman,A.J. and Norman,C. (1992) U5 snRNA interacts with exon sequences at 5′ and 3′ splice sites. Cell, 68, 743-754.
24. Alvi,R.K., Lund,M. and O'Keefe,R.T. (2001) ATP-dependent interaction of yeast U5 snRNA loop 1 with the 5′ splice site. RNA, 7, 1013-1023.
25. McConnell,T.S. and Steitz,J.A. (2001) Proximity of the invariant loop of U5 snRNA to the second intron residue during pre-mRNA splicing. EMBO J., 20, 3577-3586.
26. O'Keefe,R.T. and Newman,A.J. (1998) Functional analysis of the U5 snRNA loop 1 in the second catalytic step of yeast pre-mRNA splicing. EMBO J., 17, 565-574.
27. O'Keefe,R.T., Norman,C. and Newman,A.J. (1996) The invariant U5 snRNA loop 1 sequence is dispensable for the first catalytic step of pre-mRNA splicing in yeast. Cell, 86, 679-689.
28. Kandels-Lewis,S. and Seraphin,B. (1993) Role of U6 snRNA in 5′ splice site selection. Science, 262, 2035-2039.
29. Kim,C.H. and Abelson,J. (1996) Site-specific crosslinks of yeast U6 snRNA to the pre-mRNA near the 5′ splice site. RNA, 2, 995-1010.
30. Lesser,C.A. and Guthrie,C. (1993) Mutations in U6 snRNA that alter splice site specificity: Implications for the active site. Science 262, 1982-1988.
31. Madhani,H.D. and Guthrie,C. (1992) A novel base-pairing interaction between U2 and U6 snRNAs suggests a mechanism for the catalytic activation of the spliceosome. Cell, 71, 803-817.
32. Chan,S.-P., Kao,D.-I., Tsai,W.-Y. and Cheng,S.-C. (2003) The Prp19p-associated complex in spliceosome activation. Science, 302, 279-282.
33. Chan,S-P. and Cheng,S.-C. (2065) The Prp19-associated complex is required for specifying interactions of U5 and U6 with pre-mRNA during spliceosome activation. J. Biol. Chem., 280, 31190-31199.
34. Moore,M.J. and Sharp,P.A. (1992) Site-specific modification of pre-mRNA: The 2′-hydroxyl groups at the splice sites. Science, 256, 992-997.
35. Fabrizio,P., McPheeters,D.S. and Abelson,J. (1989) In vitro assembly of yeast U6 snRNP: A functional assay. Genes Dev., 3, 2137-2150.
36. Patterson,B. and Guthrie,C. (1987) An essential yeast snRNA with a U5-like domain is required for splicing in vivo. Cell, 49, 613-624.
37. Kim,S.H. and Lin,R.J. (1996) Spliceosome activation by PRP2 ATPase prior to the first transesterification reaction of pre-mRNA splicing. Mol. Cell Biol., 16, 6810-6819.
38. Plumpton,M., McGarvey,M. and Beggs,J.D. (1994) A dominant negative mutation in the conserved RNA helicase motif 'SAT' causes splicing factor PRP2 to staff in spliceosomes. EMBO J., 13, 879-887.
39. Lerner,M.R., Boyle,J.A., Mount,S.M., Wolin,S.L. and Steitz,J.A. (1980) Are snRNPs involved in splicing? Nature, 283, 220-224.
40. Rogers,J. and Wall,R. (1980) A mechanism for RNA splicing. Proc. Nat Acad. Sci. USA, 77, 1977-1879.
41. Krämer,A. Keller,W., Appel,B. and Lühtmann,R. (1984) The 5′ terminus of the RNA moiety og U1 small nuclear ribonucleoprotein particles is required for the splicing of messenger RNA precursors. Cell, 38, 299-307.
42. Mount,S.M., Pettersson,J., Hinterberger,M., Karmas,A. and Steitz,J.A. (1983) The U1 small nuclear RNA-protein complex selectively binds a 5′ splice site in vitro. Cell, 33, 509-518.
43. Sontheimer,E.J. (1994) Site-specific RNA crosslinking with 4-thiouridine. Mol. Biol. Rep., 20, 35-44.
44. Du,H. and Rosbash,M. (2001) Yeast U1 snRNP-pre-MRNA complex formation without U1 snRNA-pre-mRNA base pairing. RNA, 7, 133-142.
45. Lund,M. and Kjems,J. (2002) Defining a 5′ splice site by functional selection in the presence and absence of U1 snRNA 5′ end. RNA, 8, 166-179.
46. Du,H. and Rosbash,M. (2002) The U1 snRNP protein U1C recognizes the 5′ splice site in the absence of base pairing. Nature, 419, 86-90.
47. Zhang,D. and Rosbash,M. (1999) Identification of eight proteins that crosslink to pre-mRNA in the yeast commitment complex. Genes Dev., 13, 561-592.
48. Du,H., Tardiff,D.F., Moore,M.J. and Rosbash,M. (2004) Effects of the U1 L13 mutation and temperature regulation of yeast commitment complex formation. Proc. Natl Acad. Sci. USA, 101, 14841-14846.
49. Lacadie,S.A. and Rosbash,M. (2005) Cotranscriptional spliceosome assembly dynamics and the role of U1 snRNA: 5′ss base pairing in yeast. Mol. Cell, 19, 65-75.
50. Liu,L., Query,C.C. and Konarska,M.M. (2007) Opposing classes of prp8 alleles modulate the transition between the catalytic steps of pre-mRNA splicing. Nat. Struct. Mol. Biol., 14, 519-526.
51. Dix,I., Russell,C.S., O'Keefe,R.T., Newman,A.J. and Beggs,J.D. (1998) Protein-RNA interactions in the U5 snRNP of Saccharomyces cerevisiae. RNA, 4, 1239-1250.
52. Teigelkamp,S., Newman,A.J. and Reggs,J.D. (1995) Extensive interactions of PRP8 protein with the 5′ and 3′ splice sites during splicing suggests a role in stabilization of exon alignment by U5 snRNA. EMBO J., 14, 2602-2612.
53. Crotti,L.B., Bacikova,D. and Horowitz,D.S. (2007) The Prp18 protein stabilizes the interaction of both exons with the U5 snRNA during the second step of pre-mRNA splicing. Genes Dev., 21, 1204-1216.