Immunopurified small nucleolar ribonucleoprotein particles pseudouridylate rRNA independently of their association with phosphorylated Nopp140

Molecular and Cellular Biology

Volumn 22, Issue 24, 2002, Pages 8457-8466

  Wang, Chen ^a   Query, Charles C ^a   Meier, U Thomas ^a  

^a ALBERT EINSTEIN COLLEGE OF MEDICINE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ADENOSINE TRIPHOSPHATE; CHAPERONE; CORE PROTEIN; DYSKERIN; MAGNESIUM; NUCLEAR PROTEIN; NUCLEOTIDE; PHOSPHORUS 32; PROTEIN GAR1; PROTEIN NHP2; PROTEIN NOP10; PROTEIN NOPP140; PSEUDOURIDINE; RIBOSOME RNA; RNA HELICASE; SMALL NUCLEAR RIBONUCLEOPROTEIN; UNCLASSIFIED DRUG; URIDINE;

ANIMAL CELL; ARTICLE; ASSAY; CELL FRACTIONATION; CHEMICAL MODIFICATION; COILED BODY; CONTROLLED STUDY; ENZYME ACTIVITY; EUKARYOTE; HUMAN; HUMAN CELL; ISOMERISM; ISOTOPE LABELING; NONHUMAN; PRIORITY JOURNAL; PROTEIN PHOSPHORYLATION; PROTEIN PROTEIN INTERACTION; PROTEIN PURIFICATION; PSEUDOURIDYLATION; THIN LAYER CHROMATOGRAPHY;

ANIMALS; BIOLOGICAL ASSAY; CELL FRACTIONATION; CELL NUCLEOLUS; CELLS, CULTURED; HELA CELLS; HUMANS; LIVER; NUCLEAR PROTEINS; NUCLEIC ACID HYBRIDIZATION; PHOSPHOPROTEINS; PHOSPHORYLATION; PSEUDOURIDINE; RATS; RATS, INBRED BUF; RIBONUCLEOPROTEINS, SMALL NUCLEAR; RIBONUCLEOPROTEINS, SMALL NUCLEOLAR; RNA, RIBOSOMAL; RNA-BINDING PROTEINS;

ANIMALIA; EUKARYOTA;

EID: 18744363324     PISSN: 02707306     EISSN: None     Source Type: Journal    
DOI: 10.1128/MCB.22.24.8457-8466.2002     Document Type: Article

References (54)

1. Aris, J., and G. Blobel. 1988. Identification and characterization of a yeast nucleolar protein that is similar to a rat liver nucleolar protein. J. Cell Biol. 107:17-31.
2. Bakin, A., and J. Ofengand. 1993. Four newly located pseudouridylate residues in Escherichia coli 23S ribosomal RNA are all at the peptidyltransferase center: Analysis by the application of a new sequencing technique. Biochemistry 32:9754-9762.
3. Balakin, A. G., L. Smith, and M. J. Fournier. 1996. The RNA world of the nucleolus: Two major families of small RNAs defined by different box elements with related functions. Cell 86:823-834.
4. Blobel, G., and V. Potter. 1966. Nuclei from rat liver: Isolation method that combines purity with yield. Science 154:1662-1665.
5. Chang, M. S., H. Sasaki, M. S. Campbell, S. K. Kraeft, R. Sutherland, C. Y. Yang, Y. Liu, D. Auclair, L. Hao, H. Sonoda, L. H. Ferland, and L. B. Chen. 1999. HRad17 colocalizes with NHP2L1 in the nucleolus and redistributes after UV irradiation. J. Biol. Chem. 274:36544-36549.
6. Cortese, R., H. O. Kammen, S. J. Spengler, and B. N. Ames. 1974. Biosynthesis of pseudouridine in transfer ribonucleic acid. J. Biol. Chem. 249:1103-1108.
7. Darzacq, X., B. E. Jady, C. Verheggen, A. M. Kiss, E. Bertrand, and T. Kiss. 2002. Cajal body-specific small nuclear RNAs: A novel class of 2′-O-methylation and pseudouridylation guide RNAs. EMBO J. 21:2746-2756.
8. Dignam, J. D., R. M. Lebovitz, and R. G. Roeder. 1983. Accurate transcription initiation by RNA polymerase II in a soluble extract from isolated mammalian nuclei. Nucleic Acids Res. 11:1475-1489.
9. Dragon, F., V. Pogacic, and W. Filipowiez. 2000. In vitro assembly of human H/ACA small nucleolar RNPs reveals unique features of U17 and telomerase RNAs. Mol. Cell. Biol. 20:3037-3048.
10. Epstein, P., R. Reddy, and H. Busch. 1984. Multiple states of U3 RNA in Novikoff hepatoma nucleoli. Biochemistry 23:5421-5425.
11. Filipowiez, W., and V. Pogacic. 2002. Biogenesis of small nucleolar ribonucleoproteins. Curr. Opin. Cell Biol. 14:319-327.
12. Ganot, P., M.-L. Bortolin, and T. Kiss. 1997. Site-specific pseudouridine formation in preribosomal RNA is guided by small nucleolar RNAs. Cell 89:799-809.
13. Ganot, P., M. Caizergues-Ferrer, and T. Kiss. 1997b. The family of box ACA small nucleolar RNAs is defined by an evolutionarily conserved secondary structure and ubiquitous sequence elements essential for RNA accumulation. Genes Dev. 11:941-956.
14. Heiss, N. S., S. W. Knight, T. J. Vulliamy, S. M. Klauck, S. Wiemann, P. J. Mason, A. Poustka, and I. Dokal. 1998. X-linked dyskeratosis congenita is caused by mutations in a highly conserved gene with putative nucleolar functions. Nat. Genet. 19:32-38.
15. Henras, A., Y. Henry, C. Bousquet-Antonelli, J. Noaillac-Depeyre, J. P. Gelugne, and M. Caizergues-Ferrer. 1998. Nhp2p and Nop10p are essential for the function of H/ACA snoRNPs. EMBO J. 17:7078-7090.
16. Hoang, C., and A. R. Ferre-D'Amare. 2001. Cocrystal structure of a tRNA Ψ55 pseudouridine synthase: Nucleotide flipping by an RNA-modifying enzyme. Cell 107:929-939.
17. Hüttenhofer, A., M. Kiefmann, S. Meier-Ewert, J. O'Brien, H. Lehrach, J. P. Bachellerie, and J. Brosius. 2001. RNomics: An experimental approach that identifies 201 candidates for novel, small, non-messenger RNAs in mouse. EMBO J. 20:2943-2953.
18. Isaac, C., Y. Yang, and U. T. Meier. 1998. Nopp140 functions as a molecular link between the nucleolus and the coiled bodies. J. Cell Biol. 142:319-329.
19. Jady, B. E., and T. Kiss. 2001. A small nucleolar guide RNA functions both in 2′-O-ribose methylation and pseudouridylation of the U5 spliceosomal RNA. EMBO J. 20:541-551.
20. Kiss, T. 2001. Small nucleolar RNA-guided post-transcriptional modification of cellular RNAs. EMBO J. 20:3617-3622.
21. Laemmli, U. K. 1970. Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature 227:680-685.
22. Lafontaine, D. L. J., C. Bousquet-Antonelli, Y. Henry, M. Caizergues-Ferrer, and D. Tollervey. 1998. The box H+ACA snoRNAs carry Cbf5p, the putative rRNA pseudouridine synthase. Genes Dev. 12:527-537.
23. Li, D., U. T. Meier, G. Dobrowolska, and E. G. Krebs. 1997. Specific interaction between casein kinase 2 and the nucleolar protein Nopp140. J. Biol. Chem. 272:3773-3779.
24. Lübben, B., P. Fabrizio, B. Kastner, and R. Lührmann. 1995. Isolation and characterization of the small nucleolar ribonucleoprotein particle snR30 from Saccharomyces cerevisiae. J. Biol. Chem. 270:11549-11554.
25. Meier, U. T. 1996. Comparison of the rat nucleolar protein Nopp140 to its yeast homolog SRP40: Differential phosphorylation in vertebrates and yeast. J. Biol. Chem. 271:19376-19384.
26. Meier, U. T., and G. Blobel. 1994. NAP57, a mammalian nucleolar protein with a putative homolog in yeast and bacteria. J. Cell Biol. 127:1505-1514. (Author's correction, 140:447.)
27. Meier, U. T., and G. Blobel. 1992. Nopp140 shuttles on tracks between nucleolus and cytoplasm. Cell 70:127-138.
28. Meier, U. T., and G. Blobel. 1990. A nuclear localization signal binding protein in the nucleolus. J. Cell Biol. 111:2235-2245.
29. Merril, C. R., D. Goldman, and M. L. Van Keuren. 1984. Gel protein stains: Silver stain. Methods Enzymol. 104:441-447.
30. Moore, M. J., and C. C. Query. 2000. Joining of RNAs by splinted ligation. Methods Enzymol. 317:109-123.
31. Newnham, C. M., and C. C. Query. 2001. The ATP requirement for U2 snRNP addition is linked to the pre-mRNA region 5′ to the branch site. RNA 7:1298-1309.
32. Ni, J., A. L. Tien, and M. J. Fournier. 1997. Small nucleolar RNAs direct site-specific synthesis of pseudouridine in ribosomal RNA. Cell 89:565-573.
33. Nishimura, S. 1972. Minor components in transfer RNA: Their characterization, location, and function. Prog. Nucleic Acid Res. Mol. Biol. 12:49-85.
34. Nottrott, S., K. Hartmuth, P. Fabrizio, H. Urlaub, I. Vidovic, R. Ficner, and R. Luhrmann. 1999. Functional interaction of a novel 15.5kD [U4/U6.U5] tri-snRNP protein with the 5′ stem-loop of U4 snRNA. EMBO J. 18:6119-6133.
35. Nurse, K., J. Wrzesinski, A. Bakin, B. G. Lane, and J. Ofengand. 1995. Purification, cloning, and properties of the tRNA Ψ55 synthase from Escherichia coli. RNA 1:102-112.
36. Ofengand, J. 2002. Ribosomal RNA pseudouridines and pseudouridine synthases. FEBS Lett. 514:17-25.
37. Omer, A. D., S. Ziesche, H. Ebhardt, and P. P. Dennis. 2002. In vitro reconstitution and activity of a C/D box methylation guide ribonucleoprotein complex. Proc. Natl. Acad. Sci. USA 99:5289-5294.
38. Patton, J. R. 1994. Formation of pseudouridine in U5 small nuclear RNA. Biochemistry 33:10423-10427.
39. Patton, J. R. 1994. Pseudouridine formation in small nuclear RNAs. Biochimie 76:1129-1132.
40. Patton, J. R. 1991. Pseudouridine modification of U5 RNA in ribonucleo-protein particles assembled in vitro. Mol. Cell. Biol. 11:5998-6006.
41. Pogacic, V., F. Dragon, and W. Filipowiez. 2000. Human H/ACA small nucleolar RNPs and telomerase share evolutionarily conserved proteins NHP2 and NOP10. Mol. Cell. Biol. 20:9028-9040.
42. Query, C. C., M. J. Moore, and P. A. Sharp. 1994. Branch nucleophile selection in pre-mRNA splicing: Evidence for the bulged duplex model. Genes Dev. 8:587-597.
43. Saito, H., T. Fujiwara, S. Shin, K. Okui, and Y. Nakamura. 1996. Cloning and mapping of a human novel cDNA (NHP2L1) that encodes a protein highly homologous to yeast nuclear protein NHP2. Cytogenet. Cell Genet. 72:191-193.
44. Schagger, H., and G. von Jagow. 1987. Tricine-sodium dodecyl sulfatepolyacrylamide gel electrophoresis for the separation of proteins in the range from 1 to 100 kDa. Anal. Biochem. 166:368-379.
45. Selvamurugan, N., O. H. Joost, E. S. Haas, J. W. Brown, N. J. Galvin, and G. L. Eliceiri. 1997. Intracellular localization and unique conserved sequences of three small nucleolar RNAs. Nucleic Acids Res. 25:1591-1596.
46. SenGupta, D. J., B. Zhang, B. Kraemer, P. Pochart, S. Fields, and M. Wickens. 1996. A three-hybrid system to detect RNA-protein interactions in vivo. Proc. Natl. Acad. Sci. USA 93:8496-8501.
47. Smith, C. M., and J. A. Steitz. 1997. Sno storm in the nucleolus: New roles for myriad small RNPs. Cell 89:669-672.
48. Sorger, P. K., G. Ammerer, and D. Shore. 1989. Identification and purification of sequence-specific DNA-binding proteins, p. 199-223. In T. E. Creighton (ed.), Protein Function: A Practical Approach. IRL Press, Oxford, United Kingdom.
49. Tollervey, D., and T. Kiss. 1997. Function and synthesis of small nucleolar RNAs. Curr. Opin. Cell Biol. 9:337-342.
50. Tyc, K., and J. A. Steitz. 1989. U3, U8 and U13 comprise a new class of mammalian snRNPs localized in the cell nucleolus. EMBO J. 8:3113-3119.
51. Watkins, N. J., A. Gottschalk, G. Neubauer, B. Kastner, P. Fabrizio, M. Mann, and R. Lührmann. 1998. Cbf5p, a potential pseudouridine synthase, and Nhp2p, a putative RNA-binding protein, are present together with Gar1p in all box H/ACA-motif snoRNPs and constitute a common bipartite structure. RNA 4:1549-1568.
52. phe. RNA 1:437-448.
53. Yang, Y., C. Isaac, C. Wang, F. Dragon, V. Pogacic, and U. T. Meier. 2000. Conserved composition of mammalian box H/ACA and box C/D small nucleolar ribonucleoprotein particles and their interaction with the common factor Nopp140. Mol. Biol. Cell. 11:567-577.
54. Zebarjadian, Y., T. King, M. J. Fournier, L. Clarke, and J. Carbon. 1999. Point mutations in yeast CBF5 can abolish in vivo pseudouridylation of rRNA. Mol. Cell. Biol. 19:7461-7472.