On the volume of macromolecules

Biopolymers

Volumn 41, Issue 7, 1997, Pages 785-797

  Paci, Emanuele ^a,c   Velikson, Boris ^a,b  

^a CEA SACLAY   (France)

^b UNIVERSITÉ GUSTAVE EIFFEL   (France)

^c UNIVERSITÉ DE STRASBOURG   (France)

Author keywords

Molecular simulation; Protein surface; Protein volume; Protein solvent interface

Indexed keywords

MACROMOLECULES; MOLECULAR STRUCTURE;

PROTEIN SURFACE; PROTEIN VOLUME;

PROTEINS;

PROTEIN; SOLVENT;

ARTICLE; COMPRESSION; GEOMETRY; MACROMOLECULE; MOLECULAR DYNAMICS; PROTEIN CONFORMATION; PROTEIN DENATURATION; PROTEIN STABILITY; PROTEIN STRUCTURE; VOLUMETRY;

EID: 0031172372     PISSN: 00063525     EISSN: None     Source Type: Journal    
DOI: 10.1002/(SICI)1097-0282(199706)41:7<785::AID-BIP7>3.0.CO;2-L     Document Type: Article

References (36)

1. Richards, F. M. (1974) J. Mol. Biol. 82, 1-14.
2. Harpaz, Y., Gerstein, M. & Chothia, C. (1994) Structure 2, 641-649.
3. Gekko, K. & Hasegawa, Y. (1986) Biochemistry 25, 6563-6571.
4. Kharakoz, D. P. & Sarvazyan, A. P. (1993) Biopolymers 33, 11-25.
5. Paci, E. & Marchi, M. (1996) Proc. Natl. Acad. Sci. USA 93, 11609-11614.
6. Rellick, L. M. & Becktel, W. J. (1995) Methods Enzym. 259, 377-395.
7. Bader, R. F. W. (1985) Acc. Chem. Res. 18, 9-15.
8. Drickamer, H. G. & Frank, C. W. (1973) Electronic Transitions and the High Pressure Chemistry and Physics of Solids, Chapman and Hall, London.
9. Kittel, C. (1946) J. Chem. Phys. 14, 614-624.
10. Richards, F. M. (1977) Ann. Rev. Biophys. Bioeng. 6, 151-176.
11. Richmond, T. J. (1984) J. Mol. Biol. 178, 63-89.
12. Voronoi, G. F. (1908) Z. Reine Angew. Math. 134, 198-287.
13. Ashcroft, N. W. & Mermin, N. D. (1976) Solid State Physics, Saunders College, Philadelphia, PA.
14. Gerstein, M., Tsai, J. & Levitt, M. (1995) J. Mol. Biol. 249, 955-966.
15. Gellatly, B. J. & Finney, J. L. (1982) J. Mol. Biol. 161, 305-322.
16. Gavish, B., Gratton, E. & Hardy, C. J. (1983) Proc. Natl. Acad. Sci. USA 80, 750-754.
17. Eden, D., Matthew, J. B., Rosa, J. J. & Richards, F. M. (1982) Proc. Natl. Acad. Sci. USA 79, 815-819.
18. Brooks, B. R., Bruccoleri, R. E., Olafson, B. D., States, D. J., Swaminathan, S. & Karplus, M. (1983) J. Comput. Chem. 4, 187-217.
19. Berendsen, H. J. C., Postma, J. P. M., vanGunsteren, W. F. & Hermans, J. (1981) in Intermolecular Forces, Pullman, B., Ed., Dordrecht, Reider, pp. 331-334.
20. McCammon, J. A., Wolynes, P. G. & Karplus, M. (1979) Biochemistry 18, 927-942.
21. Dodd, L. R. & Theodorou, D. N. (1991) Mol. Phys. 72, 1313-1345.
22. Connolly, M. L. (1983) J. Appl. Crystallog. 16, 548-558.
23. Procacci, P. & Scateni, R. (1992) Int. J. Quantum Chem. 42, 1515-1528.
24. Frauenfelder, H., Alberding, N. A., Ansari, A., Braunstein, D., Cowen, B. R., Hong, M. K., Iben, I. E. T., Johnson, J. B., Luck, S., Marden, M. C., Mourant, J. R., Ormos, P., Reinisch, L., Scholl, R., Shulte, A., Shyamsunder, E., Sorensen, L. B., Steinbach, P. J., Xie, A., Young, R. D. & Yue, K. T. (1990) J. Phys. Chem. 94, 1024-1037.
25. Noguti, T. & Go, N. (1989) Proteins 5, 97-103.
26. Pad, E. & Marchi, M. (1996) J. Phys. Chem. 100, 4314-4322.
27. Kundrot, C. E. & Richards, F. M. (1987) J. Mol. Biol. 193, 157-170.
28. Kitchen, D. B., Reed, L. H. & Levy, R. M. (1992) Biochemistry 31, 10083-10093.
29. Paci, E. (1996) Ph.D. thesis, Université Paris 6.
30. Schaefer, M. & Karplus, M. (1996) J. Phys. Chem. 100, 1578-1599.
31. Lavery, R., Pullman, A., & Pullman, B. (1981) Int. J. Quantum Chem. 20, 49-62.
32. Doucet, J.-P. & Weber, J. (1996) Computer-Aided Molecular Design: Theory and Applications, Academic Press, London.
33. Gerstein, M. & Lynden-Bell, R. M. (1993) J. Mol. Biol. 230, 641-650.
34. Connolly, M. L. (1985) J. Am. Chem. Soc. 107, 1118-1124.
35. Kharakoz, D. P. (1991) J. Phys. Chem. 95, 5634-5642.
36. Chalikian, T. V., Sarvazyan, A. P. & Breslauer, K. J. (1994) Biophys. Chem. 51, 89-109.