CUS1, a suppressor of cold-sensitive U2 snRNA mutations, is a novel yeast splicing factor homologous to human SAP 145

Genes and Development

Volumn 10, Issue 2, 1996, Pages 220-232

  Wells, Sandra E ^a   Neville, Megan ^a   Haynes, Michelle ^a   Wang, Jianhua ^a   Igel, Haller ^a   Ares Jr , Manuel ^a  

^a UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

pre mRNA; Saccharomyces cerevisiae; spliceosome assembly; U2 snRNA

Indexed keywords

MESSENGER RNA PRECURSOR; SMALL NUCLEAR RIBONUCLEOPROTEIN; SMALL NUCLEAR RNA;

ARTICLE; COLD SENSITIVITY; GENE MUTATION; NONHUMAN; PRIORITY JOURNAL; PROTEIN STRUCTURE; SACCHAROMYCES CEREVISIAE; SEQUENCE HOMOLOGY; SPLICEOSOME; SUPPRESSOR GENE;

MAMMALIA; SACCHAROMYCES CEREVISIAE;

EID: 0030024636     PISSN: 08909369     EISSN: None     Source Type: Journal    
DOI: 10.1101/gad.10.2.220     Document Type: Article

References (71)

1. Abovich, N., P. Legrain, and M. Rosbash. 1990. The yeast PRP6 gene encodes a U4/U6 small nuclear ribonucleoprotein particle (snRNP) protein, and the PRP9 gene encodes a protein required for U2 snRNP binding. Mol. Cell Biol. 10: 6417-6425.
2. Abovich, N., X.C. Liao, and M. Rosbash. 1994. The yeast MUD2 protein: An interaction with PRP11 defines a bridge between commitment complexes and U2 snRNP addition. Genes & Dev. 8: 843-854.
3. Altschul, S., W. Gish, W. Miller, E. Myers, and D. Lipman. 1990. Basic local alignment search tool. J. Mol. Biol. 215: 403-410.
4. Arenas, J. and J. Abelson. 1993. The Saccharomyces cerevisiae PRP21 gene product is required for pre-spliceosome assembly. Proc. Natl. Acad. Sci. 90: 6771-6775.
5. Ares, M. Jr. and A.H. Igel. 1990. Lethal and temperature sensitive mutations and their suppressors identify an essential structural element in U2 small nuclear RNA. Genes & Dev 4: 2132-2145.
6. Ares, M. Jr. and B. Weiser. 1995. Rearrangement of snRNA structure during assembly and function of the spliceosome. Prog. Nucleic Acids Res. Mol. Biol. 50: 131-159.
7. Ausubel, F.M., R. Brent, R.E. Kingston, D.D. Moore, J.G. Seidman, J.A. Smith, and K. Struhl, eds. 1987. Current protocols in molecular biology. Greene/John Wiley &. Sons, New York.
8. Beggs, J.D. 1993. Yeast protein splicing factors involved in nuclear pre-mRNA splicing. Mol. Biol. Rep. 18: 99-103.
9. Behrens, S.-E., F. Galisson, P. Legrain, and R. Lührmann. 1993a. Evidence that the 60-kDa protein of 17S U2 small nuclear ribonucleoprotein is immunologically and functionally related to the yeast PRP9 splicing factor and is required for the efficient formation of prespliceosomes. Proc. Natl. Acad. Sci. 90: 8229-8233.
10. Behrens, S.-E., K. Tyc, B. Kastner, J. Reichelt, and R. Lührmann. 1993b. Small nuclear ribonucleoprotein (RNP) U2 contains numerous additional proteins and has a bipartite RNP structure under splicing conditions. Mol. Cell. Biol. 13: 307-319
11. Bennett, M. and R. Reed. 1993. Correspondence between a mammalian spliceosome component and an essential yeast splicing factor. Science 262: 105-108.
12. Bennett, M., S. Michaud, J. Kingston, and R. Reed. 1992. Protein components specifically associated with prespliceosome and spliceosome complexes. Genes & Dev. 6: 1986-2000.
13. Benson, N., C. Adams, and P. Youderian. 1992. Mutant λ repressors with increased operator affinities reveal new, specific protein-DNA contacts. Genetics 130: 17-26.
14. Birney, E., S. Kurnar, and A.R. Krainer. 1993. Analysis of the RNA-recognition motif and RS and RGG domains: Conservation in metazoan pre-mRNA splicing factors. Nucleic Acids Res. 21: 5803-5816.
15. Brosi, R., K. Gröning, S.-E. Behrens, R. Lührmann, and A. Krämer. 1993a. Interaction of mammalian splicing factor SF3a with U2 snRNP and relation of its 60-kD subunit to yeast PRP9. Science 262: 102-105.
16. Brosi, R., H.-P. Hauri, and A. Krämer. 1993b. Separation of splicing factor SF3 into two components and purification of SF3a activity. J. Biol. Chem. 268: 17640-17646.
17. Burd, C.G. and G. Dreyfuss. 1994. Conserved structures and diversity of functions of RNA-binding proteins. Science 265;:615-621.
18. Burkhard, R. and C. Sander. 1993. Prediction of protein secondary structure at better than 70% accuracy. J. Mol. Biol. 232: 584-599.
19. Champion-Arnaud, P. and R. Reed. 1994. The prespliceosome components SAP 49 and SAP 145 interact in a complex implicated in tethering U2 snRNP to the branch site. Genes & Dev. 8: 1974-1983.
20. Chapon, C. and P. Legram. 1992. A novel gene, spp91-1, suppresses the splicing defect and the pre-messenger-RNA nuclear export in the prp9-1 mutant. EMBO J. 11: 3279-3288.
21. Chiara, M.D., P. Champion-Arnaud, M. Buvoli, B. Nadal-Ginard, and R. Reed. 1994. Specific protein-protein interactions between the essential mammalian spliceosome-associated proteins SAP 61 and SAP 114. 1994. Proc. Natl. Acad. Sci. 91: 6403-6407.
22. Coetzee, T., D. Herschlag, and M. Belfort. 1994. Eschenchia coli proteins, including ribosomal protein S12, facilitate in vitro splicing of phage T4 introns by acting as RNA chaperones. Genes & Dev. 8: 1575-1588.
23. Dalbadie-Mcfarland, G. and J. Abelson. 1990 PRP5: Ahelicase-like protein required for mRNA splicing in yeast. Proc. Natl. Acad. Sci. 87: 4236-4240.
24. 181]CAP. Proc. Natl. Acad. Sci. 84: 6083-6087.
25. Felici, F., G. Cesareni, and J.M.X. Hughes. 1989. The most abundant small cytoplasmic RNA of Saccharomyces cerevisiae has an important function required for normal cell growth. Mol. Cell. Biol. 9: 3260-3268.
26. Gozani, O., R. Feld, and R. Reed. 1995. Sequence independent protein premRNA interactions upstream of the branch site are required for spliceosome assembly. Genes &. Dev. (this issue).
27. Guthrie, C. and G.R, Fink. 1991. Guide to yeast genetics and molecular biology. Academic Press, San Diego, CA.
28. Henikoff, S., J.G. Henikoff, W.J. Alford, and S. Peitrokovski. 1995. Automated construction and graphical presentation of protein blocks from unaligned sequences. Gene-COMBIS, Gene 163: GC17-26.
29. Herschlag, D., M. Khosla, Z. Tsuchihashi, and R.L. Karpel. 1994. An RNA chaperone activity of non-specific RNA binding proteins in hammerhead ribozyme catalysis. EMBO J. 13: 2913-2924.
30. Hochuli, E. 1990. Purification of recombinant proteins with metal chelate adsorbent. 1990. Genet. Eng. 12: 87-98.
31. Hodges, P.E. and J.D. Beggs. 1994. U2 fulfills a commitment. Curr. Biol. 4: 264-267.
32. Hovland, P., J. Flick, M. Johnston, and R.A. Scalfani. 1989. Galactose as a gratuitous inducer of GAL gene expression in yeasts growing on glucose. Gene 83: 57-64.
33. Kolodziej, P.A. and Young, R.A. 1991. Epitope tagging and protein surveillance. Methods Enzymol. 194: 508-519.
34. Krämer, A. 1993. Mammalian protein factors involved in nuclear pre-mRNA splicing. Mol. Biol Rep. 18: 93-98.
35. Krämer, A. and U. Utans. 1991. Three protein factors (SF1, SF3 and U2AF) function in pre-splicing complex formation in addition to snRNPs. EMBO J. 10: 1503-1509.
36. Krämer, A., P. Legrain, F. Mulhauser, K. Gröning, R. Brosi, and G. Bilbe. 1994. Splicing factor SF3a60 is the mammalian homologue of PRP9 of S. cerevisiae: The conserved zinc finger-like motif is functionally exchangeable in vivo. Nucleic Acids Res. 22: 5223-5228.
37. Krämer, A., F. Mulhauser, C. Wersig, K. Gröning, and G. Bilbe. 1995. Mammalian splicing factor SF3a 120 represents a new member of the SURP family of proteins and is homologous to the essential splicing factor PRP21p of S. cerevisiae RNA. 1: 260-272.
38. Kunkel, T. 1985. Rapid and efficient site-specific mutagenesis without phenotypic selection. Proc. Natl. Acad. Sci. 82: 488-492.
39. Legrain, P. and C. Chapon. 1993. Interaction between PRP11 and SPP91 yeast splicing factors and characterization of a PRP9-PRP11-SPP91 complex. Science 262: 108-110.
40. Legrain, P., C. Chapon, and F. Galisson. 1993. Interactions between PRP9 and SPP91 splicing factors identify a protein complex required in prespliceosome assembly. Genes & Dev. 7: 1390-1399.
41. Lin, R.-J., A.J. Newman, S.-C. Cheng, and J. Abelson. 1985. Yeast mRNA splicing in vitro. J. Biol. Chem. 260: 14780-14792.
42. Lin. R.-J., A.J. Lustig, and J. Abelson. 1987. Splicing of yeast nuclear pre-mRNA in vitro requires a functional 40S spliceosome and several extrinsic factors. Genes & Dev. 1: 7-18.
43. Lupas A., M. Van Dyke, and J. Stock. 1991. Predicting coiled coils from protein sequence. Science 252: 1162-1164.
44. McPheeters, D.S., P. Fabrizio, and J. Abelson. 1989. In vitro reconstitution of functional yeast U2 snRNPs. Genes & Dev. 3: 2124-2136.
45. Milligan, J. and O. Uhlenbeck. 1989. Synthesis of small RNAs using T7 RNA polymerase. Methods Enzymol. 180: 51-62.
46. Miraglia, L., S. Seiwert, A. Igel, and M. Ares. 1991. Limited functional equivalence of phylogenetic variation in small nuclear RNA: Yeast U2 RNA with altered branchpoint complementarity inhibits splicing and produces a dominant lethal phenotype. Proc. Natl. Acad. Sci 88: 7061-7065.
47. Moore, M.J., C.C. Query, and P.A. Sharp. Splicing of Precursors to mRNA by the Spliceosome. 1993. In The RNA world (ed R. Gesteland and J. Atkins), pp. 303-357. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY.
48. Nelson, H.C.M. and R.T. Sauer. 1985. Lambda repressor mutations that increase the affinity and specificity of operator binding. Cell 42: 549-558.
49. Newman, A.J. 1994. Pre-mRNA splicing. Curr. Opin. Genet. Dev. 4: 298-304.
50. Nilsen, T.W. 1994. RNA-RNA interactions in the spliceosome: Unraveling the ties that bind. Cell 78: 1-4.
51. Parker, R., P.G. Siliciano, and C. Guthrie. 1987. Recognition of the TACTAAC box during mRNA splicing in yeast involves base pairing to the U2-like snRNA. Cell 49: 229-239.
52. Perona, J.J., R.N. Swanson, M.A. Rould, T.A. Steitz, and D. Söll. 1989. Structural basis for misaminoacylation by mutant E. coli glutaminly-tRNA synthetase enzymes. Science 246: 1152-1154.
53. Peterson, C.L., A. Dingwall, and M.P. Scott. 1994. Five SWI/ SNF gene products are components of a large multisubunit complex required for transcriptional enhancement. Proc. Natl. Acad. Sci. 91: 2905-2908.
54. Rose, M.D. and J.R. Broach. 1991. Cloning genes by complementation in yeast. Methods Enzymol. 194: 195-230.
55. Rothstein, R. 1991. Targeting, disruption, replacement, and allele rescue: Integrative DNA transformation in yeast. Methods Enzymol. 194: 281-301.
56. Roy, J., B. Zheng, B.C. Rymond, and J.L. Woolford Jr. 1995. Structurally related but functionally distinct yeast Sm D core small nuclear ribonucleoprotein particle proteins. Mol. Cell Biol. 15: 445-455.
57. Ruby, S., T.-H. Chang, and J. Abelson. 1993. Four yeast spliceosomal proteins (PRP5, PRP9, PRP11, and PRP21) interact to promote U2 snRNP binding to pre-mRNA. Genes & Dev. 7: 1909-1925.
58. Séraphin, B. and M. Rosbash. 1989. Identification of functional U1 snRNA-pre-mRNA complexes committed to spliccosome assembly and splicing. Cell 59: 349-358.
59. _. 1991. The yeast branchpoint sequence is not required for the formation of a stable U1 snRNA-pre-mRNA complex and is recognized in the absence of U2 snRNA. EMBO J. 10: 1209-1216.
60. Sherman, F. and P. Wakem. 1991. Mapping yeast genes. Methods Enzymol. 194: 38-57.
61. Sherman, F., G. Fink, and J. Hicks. 1986. Methods in yeast genetics. Cold Spring Harbor Laboratory, Cold Spring Harbor, NY.
62. Sherman, J.M., M.J. Rogers, and D. Söll. 1995. Recognition in the glutamine tRNA system: From structure to function, in tRNA. In Structure, biosynthesis, and function (ed. D. Söll and Uttam RajBhandry), pp. 395-409. American Society for Microbiology, Washington D.C.
63. Sikorski, R.S. and P. Hieter. 1989. A system of shuttle vectors and yeast host strains designed for efficient manipulation of DNA in Saccharomyces cerevisiae. Genetics 122: 19-27.
64. Staknis, D. and R. Reed. 1994. Direct interactions between pre-mRNA and six U2 small nuclear ribonucleoproteins during spliceosome assembly. Mol. Cell. Biol. 14: 2994-3005.
65. Thompson, J.D, D.G. Higgins, and T. J. Gibson. 1994. CLUSTAL W: Improving the sensitivity of multiple sequence alignments through sequence weighting, positionspecific gap penalties and weight matrix choice. Nucleic Acids Res. 22: 4673-4680.
66. Wells, S.E. and M. Ares, Jr. 1994. Interactions between highly conserved U2 small nuclear RNA structures and Prp5p, Prp9p, PRP11 and Prp21p proteins are required to ensure integrity of the U2 small nuclear ribonucleoprotein in Saccharomyces cerevisiae. Mol. Cell. Biol. 14: 6337-6349.
67. Wu, J. and J.L. Manley. 1989. Mammalian pre-mRNA branch site selection by U2 snRNP involves base pairing. Genes & Dev. 3: 1553-1561.
68. Yan, D. and M. Ares Jr. 1996. Invariant U2 RNA sequences bordering the branchpoint recognition region are essential for interaction with yeast SF3 and SF3b subunits. Mol. Cell. Biol. 16: (in press).
69. Zavanelli, M.I. and M. Ares Jr. 1991. Efficient association of U2 snRNPs with pre-mRNA requires an essential U2 RNA structural element. Genes & Dev. 5: 2521-2533.
70. Zavanelli, M.I., J.S. Britton, A.H. Igel, and M. Ares Jr. 1994. Mutations in an essential U2 small nuclear RNA structure cause cold-sensitive U2 small nuclear ribonucleoprotein function by favoring competing alternative U2 RNA structures. Mol. Cell. Biol. 14: 1689-1697.
71. Zhuang, Y. and A.M. Weiner. 1989. A compensatory base change in human U2 snRNA can suppress a branch site mutation. Genes & Dev. 3: 1545-1552.