Protein-RNA interactions in the U5 snRNP of Saccharomyces cerevisiae

RNA

Volumn 4, Issue 10, 1998, Pages 1239-1250

  Dix, Ian ^a   Russell, Caroline S ^a   O'Keefe, Raymond T ^b,c   Newman, Andrew J ^b   Beggs, Jean D ^a  

^a UNIVERSITY OF EDINBURGH   (United Kingdom)

^b MRC LABORATORY OF MOLECULAR BIOLOGY   (United Kingdom)

^c UNIVERSITY OF MANCHESTER   (United Kingdom)

Author keywords

Crosslinking; Pre mRNA splicing; Prp8p; Snu114p; Yeast

Indexed keywords

SMALL NUCLEAR RIBONUCLEOPROTEIN;

ARTICLE; EXON; MOLECULAR INTERACTION; NONHUMAN; PRIORITY JOURNAL; PROTEIN RNA BINDING; RNA SPLICING; SACCHAROMYCES CEREVISIAE; SPLICEOSOME;

CROSS-LINKING REAGENTS; FUNGAL PROTEINS; MUTATION; NUCLEIC ACID CONFORMATION; PROTEIN BINDING; RIBONUCLEOPROTEIN, U5 SMALL NUCLEAR; RNA PRECURSORS; RNA, SMALL NUCLEAR; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS; SEQUENCE DELETION; SPLICEOSOMES; ULTRAVIOLET RAYS;

SACCHAROMYCES CEREVISIAE;

EID: 0031719371     PISSN: 13558382     EISSN: None     Source Type: Journal    
DOI: 10.1017/S1355838298981109     Document Type: Article

References (55)

1. Anderson GJ, Bach M, Lührmann R, Beggs JD. 1989. Conservation between yeast and man of a protein associated with U5 small nuclear ribonucleoprotein. Nature 342:819-821.
2. Ast G, Weiner AM. 1997. Antisense oligonucleotide binding to U5 snRNP induces a conformational change that exposes the conserved loop of U5 snRNA. Nucleic Acids Res 25:3508-3513.
3. Bach M, Lührmann R. 1991. Protein RNA interactions in 20S U5 snRNPs. Biochem Biophys Acta 1088:139-143.
4. Beggs JD, Teigelkamp S, Newman AJ. 1995. The role of PRP8 protein in nuclear pre-mRNA splicing in yeast. Cell Sci J 19:101-105.
5. Brown JD, Beggs JD. 1992. Roles of PRP8 protein in the assembly of splicing complexes. EMBO J 11:3721-3729.
6. Chiara MD, Gozani O, Bennett M, Champion-Arnaulk P, Palandjian L, Reed R. 1996. Identification of proteins that interact with exon sequences, splice sites, and the branchpoint sequence during each stage of spliceosome assembly. Mol Cell Biol 16:3317-3326.
7. Chiara MD, Palandjian L, Kramer RF, Reed R. 1997. Evidence that U5 snRNP recognizes the 3′ splice site for catalytic step II in mammals. EMBO J 16:4746-4759.
8. Cooper M, Parkes V, Johnston LH, Beggs JD. 1995. Identification and characterization of Uss1p (Sdb23p): A novel U6 snRNA-associated protein with significant similarity to core proteins of small nuclear ribonucleoproteins. EMBO J 14:2066-2075.
9. Cortes JJ, Sonthemimer EJ, Seiwert SD, Steitz JA. 1993. Mutations in the conserved loop of human U5 snRNA generate use of novel cryptic 5′ splice sites in vivo. EMBO J: 12:5181-5189.
10. Fabrizio P, Laggerbauer JL, Lane WS, Lührmann R. 1997. An evolutionarily conserved U5 snRNP-specific protein is a GTP-binding factor closely related to the ribosomal translocase EF-2. EMBO J 16:4092-4106.
11. Fetzer S, Lauber J, Will CL, Lührmann R. 1997. The [U4/U6·U5] tri-snRNP-specific 27K protein is a novel SR protein that can be phosphorylated by the snRNP-associated protein kinase. RNA 3:344-355.
12. Frank D, Patterson B, Guthri C. 1992. Synthetic lethal mutations suggest interactions between U5 small nuclear RNA and four proteins required for the second step of splicing. Mol Cell Biol 12:5197-5205.
13. Frank DN, Roiha H, Guthrie C. 1994. Architecture of the U5 small nuclear RNA. Mol Cell Biol 14:2180-2190.
14. Fromont-Racine M, Rain JC, Legrain P. 1997. Toward a functional analysis of the yeast genome through exhaustive two-hybrid screens. Nature Genet 16:277-282.
15. Hinz M, Moore MJ, Bindereif A. 1996. Domain analysis of human U5 RNA. Biol Chem J 271:19001-19007.
16. Hodges PE, Jackson SP, Brown JD, Beggs JD. 1995. Extraordinary conservation of the PRP8 splicing factor. Yeast 1:337-342.
17. Horowitz DS, Abelson J. 1993a. Stages in the second reaction of pre-mRNA splicing: The final step is ATP independent. Genes & Dev 7:320-329.
18. Horowitz DS, Abelson J. 1993b. A U5 small nuclear ribonucleoprotein particle protein involved only in the second step of pre-mRNA splicing in Saccharomyces cerevisiae. Mol Cell Biol 13:2959-2970.
19. Horowitz DS, Krainer AR. 1997. A human protein required for the second step of pre-mRNA splicing is functionally related to a yeast splicing factor. Genes & Dev 11:139-151.
20. Jackson SP, Lossky M, Beggs JD. 1988. Cloning of the RNA8 gene of Saccharomyces cerevisiae detection of the RNA8 protein, and demonstration that it is essential for nuclear pre-mRNA splicing. Mol Cell Biol 8:1067-1075.
21. Krämer A. 1995. The biochemistry of pre-mRNA splicing. In: Lamond Al, ed. Pre-mRNA processing. R.G. Landes, pp 35-64.
22. Lafontaine D, Bousquet-Antonelli C, Henry Y, Caizergues-Ferrer M, Tollervey D. 1998. The box H + ACA snoRNAs carry Cbf5p, the putative rRNA pseudouridine synthase Genes & Dev 12:527-537.
23. Lafontaine D, Tollervey D. 1996. One step PCR mediated strategy for the construction of the conditionally expressed and epitope tagged yeast proteins. Nucleic Acids Res 24:3469-3472.
24. Lauber J, Fabrizio P, Teigelkamp S, Lane WS, Hartmann E, Lührmann R. 1996. The HeLa 200 KDa snRNP-specific protein and its homologue in Saccharomyces cerevisiae are members of the DEXH-box protein family of putative RNA helicases. EMBO J 15:4001-5015.
25. Lin RJ, Newman AJ, Cheng SC, Abelson J. 1985. Yeast mRNA splicing in vitro. J Biol Chem 260:14780-14792.
26. Liu ZR, Laggerbauer B, Lührmann R, Smith CWJ. 1997. Crosslinking of the U5 snRNP-specific 116-kDa protein to RNA hairpins that block step 2 of splicing. RNA 3:1207-1219.
27. Lossky M, Anderson GJ, Jackson SP, Beggs JD. 1987. Identification of a yeast snRNP protein and detection of snRNP-snRNP interactions. Cell 51:1019-1026.
28. Lührmann R, Kastner B, Bach M. 1990. Structure of spliceosomal snRNPs and their role in pre-mRNA splicing. Biochim Biophys Acta 1087:265-292.
29. Luukkonen BGM, Séraphin B. 1997. The role of branchpoint-3′ splice site spacing and interaction between intron terminal nucleotides in 3′ splice site selection in Saccharomyces cerevisiae. EMBO J 16:779-792.
30. Madhani HD, Guthrie C. 1994. Dynamic RNA-RNA interactions in the spliceosome. Annu Rev Genet 28:1-26.
31. Moore MJ, Query CC, Sharp PA. 1993. Splicing of precursors to mRNA by the spliceosome. In: Gesteland RF, Atkins JF, eds. The RNA world. Cold Spring Harbor, New York: Cold Spring Harbor Laboratory Press, pp 303-357.
32. Moore MJ, Sharp PA. 1992. Site-specific modification of pre-mRNA: The 2′-hydroxyl groups at the splice sites. Science 256:992-997.
33. Newman AJ. 1997. The role of U5 snRNP in pre-mRNA splicing. EMBO J 16:5797-5800.
34. Newman AJ, Norman C. 1991. Mutations in U5 snRNA alter the specificity of 5′ splice-site cleavage. Cell 65:115-123.
35. Newman AJ, Norman C. 1992. U5 snRNA interacts with exon sequences at 5′ and 3′ splice sites. Cell 68:743-754.
36. Newman AJ, Teigelkamp S, Beggs JD. 1995. snRNA interactions at 5′ and 3′ splice sites monitored by photoactivated crosslinking in yeast spliceosomes. RNA 1:968-980.
37. Nilsen TW. 1994. RNA-RNA interactions in the spliceosome: Unraveling the ties that bind. Cell 78:679-689.
38. O'Keefe RT, Newman AJ. 1998. Functional analysis of the U5 snRNA loop 1 in the second step of yeast pre-mRNA splicing. EMBO J 17:565-574.
39. O'Keefe RT, Norman C, Newman AJ. 1996. The invariant U5 snRNA loop 1 sequence is dispensable for the first catalytic step of splicing in yeast. Cell 86:679-689.
40. Patterson B, Guthrie C. 1987. An essential yeast snRNA with a U5-like domain is required for splicing in vivo. Cell 49:613-624.
41. Query CC, Moore MJ, Sharp PA. 1994. Branch nucleophile selection in pre-mRNA splicing: Evidence for the bulged duplex model. Genes & Dev 8:587-597.
42. Reyes JL, Kois P, Konforti BB, Konarska MM. 1996. The canonical GU dinucleotide at the 5′ splice site is recognized by p220 of the U5 snRNP within the spliceosome. RNA 2:213-225.
43. Segáult V, Will CL, Sproat BS, Lührmann R. 1995. In vitro reconstitution of mammalian U2 and U5 snRNPs active in splicing: Sm proteins are functionally interchangeable and are essential for the formation of functional U2 and U5 snRNPs. EMBO J 14:4010-4021.
44. Sontheimer EJ, Steitz JA. 1993. The U5 and U6 small nuclear RNAs as active site components of the spliceosome. Science 262:1989-1996.
45. Strauss EJ, Guthrie C. 1994. PRP28, a "DEAD-box" protein, is required for the first step of splicing in vitro. Nucleic Acids Res 22:3187-3193.
46. Teigelkamp S, Mundt C, Achsel T, Will CL, Lührmann R. 1997. The human U5 snRNP-specific 100-kD protein is an RS domain-containing, putative RNA helicase with significant homology to the yeast splicing factor Prp28p. RNA 3:1313-1326.
47. Teigelkamp S, Newman AJ, Beggs JD. 1995a. Extensive interactions of PRP8 protein with the 5′ and 3′ splice sites during splicing suggest a role in stabilization of exon alignment by U5 snRNA. EMBO J 14:2602-2612.
48. Teigelkamp S, Whittaker E, Beggs J. 1995b. Interaction of the yeast splicing factor PRP8 with substrate RNA during both steps of splicing. Nucleic Acids Res 23:320-326.
49. Umen JG, Guthrie C. 1995a. Prp16p, Slu7p, and Prp8p interact with the 3′ splice site in two distinct stages during the second catalytic step of pre-mRNA splicing. RNA 1:584-597.
50. Umen JG, Guthrie C. 1995b. A novel role for a U5 snRNP protein in 3′ splice site selection. Genes & Dev 9:855-868.
51. Umen JG, Guthrie C. 1996. Mutagenesis of the yeast gene PRP8 reveals domains governing the specificity and fidelity of 3′ splice site selection. Genetics 143:723-739.
52. Vijayraghavan U, Abelson J. 1990. PRP8, a protein required for the second reaction in pre-mRNA splicing. Mol Cell Biol 10:324-332.
53. Wersig C, Bindereif A. 1992. Reconstitution of functional mammalian U4 small nuclear ribonucleoprotein: Sm protein binding is not essential for splicing. Mol Cell Biol 12:1460-1468.
54. Will CL, Behrens SE, Lührmann R. 1993. Protein composition of mammalian splicosomal snRNPs. Mol Biol Rep 18:121-126.
55. Wyatt JR, Sontheimer EJ, Steitz JA. 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.