Crystal structure of the Oxytricha nova telomere end binding protein complexed with single strand DNA

Cell

Volumn 95, Issue 7, 1998, Pages 963-974

  Horvath, Martin P ^a   Schweiker, Viloya L ^a   Bevilacqua, Joanne M ^b   Ruggles, James A ^c   Schultz, Steve C ^a  

^a UNIVERSITY OF COLORADO   (United States)

^b PENNSYLVANIA STATE UNIVERSITY   (United States)

^c H LUNDBECK A S   (Denmark)

Author keywords

[No Author keywords available]

Indexed keywords

BINDING PROTEIN; SINGLE STRANDED DNA;

AGING; ARTICLE; BINDING AFFINITY; COMPLEX FORMATION; CRYSTAL STRUCTURE; DNA BINDING; DNA REPLICATION; GENETIC RECOMBINATION; NONHUMAN; PRIORITY JOURNAL; PROTEIN DNA INTERACTION; PROTEIN DOMAIN; PROTEIN TERTIARY STRUCTURE; STOICHIOMETRY; TELOMERE;

OXYTRICHA NOVA;

EID: 0032431057     PISSN: 00928674     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0092-8674(00)81720-1     Document Type: Article

References (54)

1. Blackburn, E.H. (1991). Structure and function of telomeres. Nature 350, 569-573.
2. Bochkarev, A., Pfuetzner, R.A., Edwards, A.M., and Frappier, L. (1997). Structure of the single-stranded-DNA-binding domain of replication protein A bound to DNA. Nature 385, 176-181.
3. Bodnar, A.G., Ouellette, M., Frolkis, M., Holt, S.E., Chiu, C.P., Morin, G.B., Harley, C.B., Shay, J.W., Lichtsteiner, S., and Wright, W.E. (1998). Extension of life-span by introduction of telomerase into normal human cells. Science 279, 349-352.
4. Brünger, A.T. (1993). X-PLOR Manual Version 3.1: A System for X-Ray Crystallography and NMR (New Haven: Yale University Press).
5. Brünger, A.T., Adams, P.D., Clore, G.M., DeLano, W.L., Gros, P., Grosse-Kunstleve, R.W., Jiang, J.S., Kuszewski, J., Nilges, M., Pannu, N. S., et al. (1998). Crystallography and NMR system: a new software suite for macromolecular structure determination. Acta Crystallogr. D 54, 905-921.
6. Chen, Z.G., Stauffacher, C., Li, Y., Schmidt, T., Bomu, W., Kamer, G., Shanks, M., Lomonossoff, G., and Johnson, J.E. (1989). Protein-RNA interactions in an icosahedral virus at 3.0 Å resolution. Science 245, 154-159.
7. Cowtan, K., and Main, P. (1998). Miscellaneous algorithms for density modification. Acta Crystallogr. D 54, 487-493.
8. Dougherty, D.A. (1996). Cation-pi interactions in chemistry and biology:a new view of benzene, Phe, Tyr, and Trp. Science 271, 163-168.
9. Fang, G.W., and Cech, T.R. (1991). Molecular cloning of telomere-binding protein genes from Stylonychia mytilis. Nucleic Acids Res. 19, 5515-5518.
10. Fang, G., and Cech, T.R. (1993a). The beta subunit of Oxytricha telomere-binding protein promotes G-quartet formation by telomeric DNA. Cell 74, 875-885.
11. Fang, G., and Cech, T.R. (1993b). Oxytricha telomere-binding protein: DNA-dependent dimerization of the alpha and beta subunits. Proc. Natl. Acad. Sci. USA 90, 6056-6060.
12. Fang, G., Gray, J.T., and Cech, T.R. (1993). Oxytricha telomere-binding protein: separable DNA-binding and dimerization domains of the alpha-subunit. Genes Dev. 7, 870-882.
13. Freemont, P.S., Friedman, J.M., Beese, L.S., Sanderson, M.R., and Steitz, T.A. (1988). Cocrystal structure of an editing complex of Klenow fragment with DNA. Proc. Natl. Acad. Sci. USA 85, 8924-8928.
14. Froelich-Ammon, S.J., Dickinson, B.A., Bevilacqua, J.M., Schultz, S.C., and Cech, T.R. (1998). Modulation of telomerase activity by telomere DNA-binding proteins in Oxytricha. Genes Dev. 12, 1504-1514.
15. Gottschling, D.E., and Zakian, V.A. (1986). Telomere proteins: specific recognition and protection of the natural termini of Oxytricha macronuclear DNA. Cell 47, 195-205.
16. Gray, J.T., Celander, D.W., Price, C.M., and Cech, T.R. (1991). Cloning and expression of genes for the Oxytricha telomere-binding protein: specific subunit interactions in the telomeric complex. Cell 67, 807-814.
17. Greider, C.W., and Blackburn, E.H. (1985). Identification of a specific telomere terminal transferase activity in Tetrahymena extracts. Cell 43, 405-413.
18. Guschlbauer, W., Fric, I., and Holy, A. (1972). Oligonucleotide conformations. Optical studies on GpU analogues with modified-uridine residues. Eur. J. Biochem. 31, 1-13.
19. Harley, C.B., Futcher, A.B., and Greider, C.W. (1990). Telomeres shorten during ageing of human fibroblasts. Nature 345, 458-460.
20. Henderson, E.R., and Blackburn, E.H. (1989). An overhanging 3́ terminus is a conserved feature of telomeres. Mol. Cell. Biol. 9, 345-38.
21. Hicke, B.J., Willis, M.C., Koch, T.H., and Cech, T.R. (1994). Telomeric protein-DNA point contacts identified by photo-cross-linking using 5-bromodeoxyuridine. Biochemistry 33, 3364-3373.
22. Janin, J., Miller, S., and Chothia, C. (1988). Surface, subunit interfaces and interior of oligomeric proteins. J. Mol. Biol. 204, 155-164.
23. Jones, T.A., Zou, J.Y., Cowan, S.W., and Kjeldgaard (1991). Improved methods for building protein models in electron density maps and the location of errors in these models. Acta Crystallogr. A 47, 110-119.
24. Klobutcher, L.A., Swanton, M.T., Donini, P., and Prescott, D.M. (1981). All gene-sized DNA molecules in four species of hypotrichs have the same terminal sequence and an unusual 3′ terminus. Proc. Natl. Acad. Sci. USA 78, 3015-3019.
25. Lee, M.S., Gallagher, R.C., Bradley, J., and Blackburn, E.H. (1993). In vivo and in vitro studies of telomeres and telomerase. Cold Spring Harbor Symp. Quant. Biol. 58, 707-718.
26. Lin, J.J., and Zakian, V.A. (1996). The Saccharomyces CDC13 protein is a single-strand TG1-3 telomeric DMA-binding protein in vitro that affects telomere behavior in vivo. Proc. Natl. Acad. Sci. USA 93, 13760-13765.
27. Lingner, J., and Cech, T.R. (1996). Purification of telomerase from Euplotes aediculatus: requirement of a primer 3′ overhang. Proc. Natl. Acad. Sci. USA 93, 10712-10717.
28. Lundblad, V., and Szostak, J.W. (1989). A mutant with a defect in telomere elongation leads to senescence in yeast. Cell 57, 633-643.
29. Marcotrigiano, J., Gingras, A.C., Sonenberg, N., and Burley, S.K. (1997). Cocrystal structure of the messenger RNA 5′ cap-binding protein (elF4E) bound to 7-methyl-GDP. Cell 89, 951-961.
30. McClintock, B. (1941). The stability of broken ends of chromosomes in Zea mays. Genetics 26, 234-282.
31. McElligott, R., and Wellinger, R.J. (1997). The terminal DNA structure of mammalian chromosomes. EMBO J. 16, 3705-3714.
32. Murzin, A.G. (1993). OB (oligonucleotide/oligosaccharide binding)-fold: common structural and functional solution for non-homologous sequences. EMBO J. 12, 861-867.
33. Nugent, C.I., Hughes, T.R., Lue, N.F., and Lundblad, V. (1996). Cdc13p: a single-strand telomeric DNA-binding protein with a dual role in yeast telomere maintenance. Science 274, 249-252.
34. Otwinowski, Z. (1991). Maximum likelihood refinement of heavy atom parameters. In Isomorphous Replacement and Anomalous Scattering, W. Wolf, P.R. Evans, and A.G.W. Leslie, eds. (Daresbury UK: Daresbury Laboratory).
35. Otwinowski, Z., and Minor, W. (1996). Processing of x-ray diffraction data collectin in oscillation mode. Methods Enzmol. 276, 307-326.
36. Oubridge, C., Ito, N., Evans, P.R., Teo, C.H., and Nagai, K. (1994). Crystal structure at 1.92 Å resolution of the RNA-binding domain of the U1A spliceosomal protein complexed with an RNA hairpin. Nature 372, 432-438.
37. Price, C.M., and Cech, T.R. (1987). Telomeric DNA-protein interactions of Oxytricha macronuclear DNA. Genes Dev. 1, 783-793.
38. Price, S.R., Evans, P.R., and Nagai, K. (1998). Crystal structure of the spliceosomal U2B"-U2A' protein complex bound to a fragment of U2 small nuclear RNA. Nature 394, 645-650.
39. Raghuraman, M.K., and Cech, T.R. (1990). Effect of monovalent cation-induced telomeric DNA structure on the binding of Oxytricha telomeric protein. Nucleic Acids Res. 18, 4543-4552.
40. Read, R.J. (1986). Improved fourier coefficients for maps using phases from partial structures with errors. Acta Crystallogr. A 42, 140-149.
41. Rould, M.A., Perona, J.J., Soll, D., and Steitz, T.A. (1989). Structure of E. coli glutaminyl-tRNA synthetase complexed with tRNA(GIn) and ATP at 2.8 Å resolution. Science 246, 1135-1142.
42. Ruff, M., Krishnaswamy, S., Boeglin, M., Poterszman, A., Mitschler, A., Podjarny, A., Rees, B., Thierry, J.C., and Moras, D. (1991). Class II aminoacyl transfer RNA synthetases: crystal structure of yeast aspartyl-tRNA synthetase complexed with tRNA(Asp). Science 252, 1682-1689.
43. Saenger, W. (1984). Principles of Nucleic Acid Structure (New York: Springer-Verlag).
44. Shamoo, Y., Friedman, A.M., Parsons, M.R., Konigsberg, W.H., and Steitz, T.A. (1995). Crystal structure of a replication fork single-stranded DNA binding protein (T4 gp32) complexed to DNA. Nature 376, 362-366.
45. Shore, D. (1997). Telomerase and telomere-binding proteins: controlling the endgame. Trends Biochem. Sci. 22, 233-235.
46. Son, T.D., Guschlbauer, W., and Gueron, M. (1972). Flexibility and conformations of guanosine monophosphates by the Overhauser effect. J. Am. Chem. Soc. 94, 7903-7911.
47. Spolar, R.S., and Record, M.T., Jr. (1994). Coupling of local folding to site-specific binding of proteins to DNA. Science 263, 777-784.
48. Sundquist, W.I., and Klug, A. (1989). Telomeric DNA dimerizes by formation of guanine tetrads between hairpin loops. Nature 342, 825-829.
49. Vermeesch, J.R., and Price, C.M. (1994). Telomeric DNA sequence and structure following de novo telomere synthesis in Euplotes crassus. Mol. Cell. Biol. 14, 554-566.
50. Virta-Pearlman, V., Morris, D.K., and Lundblad, V. (1996). Est1 has the properties of a single-stranded telomere end-binding protein. Genes Dev. 10, 3094-3104.
51. Wang, W., Skopp, R., Scofield, M., and Price, C. (1992). Euplotes crassus has genes encoding telomere-binding proteins and telomere-binding protein homologs. Nucleic Acids Res. 20, 6621-6629.
52. Williamson, J.R., Raghuraman, M.K., and Cech, T.R. (1989). Monovalent cation-induced structure of telomeric DNA: the G-quartet model. Cell 59, 871-880.
53. Yu, G.L., Bradley, J.D., Attardi, L.D., and Blackburn, E.H. (1990). In vivo alteration of telomere sequences and senescence caused by mutated Tetrahymena telomerase RNAs. Nature 344, 126-132.
54. Zakian, V.A. (1995). Telomeres: beginning to understand the end. Science 270, 1601-1607.