RNA backbone is rotameric

Proceedings of the National Academy of Sciences of the United States of America

Volumn 100, Issue SUPPL. 2, 2003, Pages 13904-13909

  Murray, Laura J W ^a   Arendall III, W Bryan ^a   Richardson, David C ^a   Richardson, Jane S ^a  

^a DUKE UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

All atom contacts; Backbone conformers; Quality filtering; RNA conformation; RNA structure

Indexed keywords

ARTICLE; CATALYSIS; CRYSTALLOGRAPHY; DATA BASE; NOISE; PRIORITY JOURNAL; PROTEIN CONFORMATION; RNA BINDING; RNA CONFORMATION; RNA STRUCTURE;

BIOPHYSICS; CRYSTALLOGRAPHY, X-RAY; DATABASES, NUCLEIC ACID; MODELS, MOLECULAR; NUCLEIC ACID CONFORMATION; RNA; RNA, RIBOSOMAL, 23S;

EID: 0344702704     PISSN: 00278424     EISSN: None     Source Type: Journal    
DOI: 10.1073/pnas.1835769100     Document Type: Article

References (31)

1. Kruger, K., Grabowski, P. J., Zaug, A. J., Sands, J., Gottschling, D. E. & Cech, T. R. (1982) Cell 31, 147-157.
2. Nissen, P., Hansen, J., Ban, N., Moore, P. B. & Steitz, T. A. (2000) Science 289, 920-930.
3. Joyce, G. F. (2002) Nature 418, 214-221.
4. Davis, P. W., Adamiak, R. W. & Tinoco, I. J. (1990) Biopolymers 29, 109-122.
5. Frank, J. (2001) BioEssays 23, 725-732.
6. Cate, J. H., Gooding, A. R., Podell, E., Zhou, K., Golden, B. L., Kundrot, C. E., Cech, T. R. & Doudna, J. A. (1996) Science 273, 1678-1685.
7. Ban, N., Nissen, P., Hansen, J., Moore, P. B. & Steitz, T. A. (2000) Science 289, 905-920.
8. Wimberly, B. T., Brodersen, D. E., Clemons, W. M. J., Morgan-Warren, R. J., Carter, A. P., Vonrhein, C., Hartsch, T. & Ramakrishnan, V. (2000) Nature 407, 327-339.
9. Schluenzen, F., Tocilj, A., Zarivach, R., Harms, J., Gluehmann, M., Janell, D., Bashan, A., Bartels, H., Agmon, I., Franceschi, F. & Yonath, A. (2000) Cell 102, 615-623.
10. Word, J. M., Lovell, S. C., LaBean, T. H., Taylor, H. C., Zalis, M. E., Presley, B. K., Richardson, J. S. & Richardson, D. C. (1999) J. Mol. Biol. 285, 1711-1733.
11. Reijmers, T. H., Wehrens, R. & Buydens, L. M. (2001) J. Chem. Inf. Comput. Sci. 41, 1388-1394.
12. Murthy, V. L., Srinivasan, R., Draper, D. E. & Rose, G. D. (1999) J. Mol. Biol. 291, 313-327.
13. Hershkovitz, E., Tannenbaum, E., Howerton, S. B., Sheth, A., Tannenbaum, A. & Williams, L. D. (2003) Nucleic Acids Res., in press.
14. Duarte, C. M. & Pyle, A. M. (1998) J. Mol. Biol. 284, 1465-1478.
15. Duarte, C. M., Wadley, L. M. & Pyle, A. M. (2003) Nucleic Acids Res. 31, 4755-4761.
16. Szép, S., Wang, J. & Moore, P. B. (2003) RNA 9, 44-51.
17. Murthy, V. L. & Rose, G. D. (2003) Nucleic Acids Res. 31, 502-504.
18. Richardson, J. S. & Richardson, D. C. (2002) in International Tables for Crystallography, eds. Rossmann, M. G. & Arnold, E. (Kluwer, Dordrecht, The Netherlands), Vol. F, pp. 727-730.
19. Richardson, J. S., Arendall, W. B., III & Richardson, D. C. (2003) in Methods in Enzymology: Macromolecular Crystallography, eds. Carter, C.W., Jr., & Sweet, R. M. (Academic, New York), Vol. 374, in press.
20. Lovell, S. C., Word, J. M., Richardson, J. S. & Richardson, D. C. (2000) Proteins 40, 389-408.
21. Lovell, S. C., Davis, I. W., Arendall, W. B., III., de Bakker, P. I. W., Word, J. M., Prisant, M. G., Richardson, J. S. & Richardson, D. C. (2003) Proteins 50, 437-450.
22. Berman, H. M., Olson, W. K., Beveridge, D. L., Westbrook, J., Gelbin, A., Demeny, T., Hsieh, S.-H., Srinivasan, A. R. & Schneider, B. (1992) Biophys. J. 63, 751-759.
23. Word, J. M. (2000) Ph.D. thesis (Duke Univ., Durham, NC).
24. Word, J. M., Lovell, S. C., Richardson, J. S. & Richardson, D. C. (1999) J. Mol. Biol. 285, 1735-1747.
25. Richardson, D. C. & Richardson, J. S. (1992) Protein Sci. 1, 3-9.
26. Malathi, R. & Yathindra, N. (1985) J. Biomol. Struct. Dyn. 3, 127-144.
27. Heus, H. A. & Pardi, A. (1991) Science 253, 191-194.
28. Leontis, N. B. & Westhof, E. (1998) J. Mol. Biol. 283, 571-583.
29. Word, J. M., Bateman, R. C., Jr., Presley, B. K., Lovell, S. C. & Richardson, D. C. (2000) Protein Sci. 9, 2251-2259.
30. Ponder, J. W. & Richards, F. M. (1987) J. Mol. Biol. 193, 775-791.
31. Dunbrack, R. L. & Cohen, F. E. (1997) Protein Sci. 6, 1661-1681.