Conformational analysis of retinoids and restriction of their dynamics by retinoid-binding proteins

Biochemical Journal

Volumn 319, Issue 2, 1996, Pages 543-550

  Van Aalten, Daan M F ^a   De Groot, Bert L ^b   Berendsen, Herman J C ^b   Findlay, John B C ^a  

^a UNIVERSITY OF LEEDS   (United Kingdom)

^b UNIVERSITY OF GRONINGEN   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

RETINOID; RETINOID BINDING PROTEIN; RETINOL;

ARTICLE; CONFORMATIONAL TRANSITION; MOLECULAR DYNAMICS; MOLECULAR MODEL; PRIORITY JOURNAL; PROTEIN BINDING; PROTEIN CONFORMATION; PROTEIN PROTEIN INTERACTION;

MUS;

EID: 0029824793     PISSN: 02646021     EISSN: None     Source Type: Journal    
DOI: 10.1042/bj3190543     Document Type: Article

References (54)

1. Henderson, R., Baldwin, J. M., Ceska, T. A., Zemlin, F., Beckmann, E. and Downing, K. H. (1990) J. Mol. Biol. 213, 899-929
2. Schertler, G. F. X., Villa, C. and Henderson, R. (1993) Nature (London) 362, 770-772
3. Unger, V. M. and Schertler, G. F. X. (1995) Biophys. J. 68, 5370-5375
4. Ulrich, A. S., Heyn, M. P. and Watts, A. (1992) Biochemistry 31, 10390-10399
5. Ulrich, A. S., Watts, A., Wallat, I. and Heyn, M. P. (1994) Biochemistry 33, 5370-5375
6. Ulrich, A. S., Wallat, I., Heyn, M. P. and Watts, A. (1995) Nat. Struct. Biol. 2, 190-192
7. Honig, B., Greenberg, A. D., Dinur, U. and Ebrey, T. G. (1976) 15, 4593-4599
8. Amadei, A., Linssen, A. B. M. and Berendsen, H. J. C. (1993) Proteins 17, 412-425
9. van Aalten, D. M. F., Amadei, A., Vriend, G., Linssen, A. B. M., Venema, G., Berendsen, H. J. C. and Eijsink, V. G. H. (1995) Proteins 22, 45-54
10. van Aalten, D. M. F., Findlay, J. B. C., Amadei, A. and Berendsen, H. J. C. (1996) Prot. Eng. 8, 1129-1135
11. van Aalten, D. M. F., Amadei A., Bywater, R., Findlay, J. B. C., Berendsen, H. J. C., Sander, C. and Stouten, P. F. W. (1996) Biophys. J. 70, 684-692
12. Amadei, A., Linssen, A. B. M., de Groot, B. L., van Aalten, D. M. F. and Berendsen, H. J. C. (1996) J. Biomol. Struct. Dyn. 13, 615-625
13. van Gunsteren, W F. and Berendsen, H. J. C. (1987) Gromos manual. BIOMOS, Biomolecular Software, Laboratory of Physical Chemistry, University of Gröningen, The Netherlands
14. Cowan, C. W., Newcomer, M. E. and Jones, T. A. (1993) J. Mol. Biol. 230, 442-446
15. Ryckaert, J. P., Ciccotti, G. and Berendsen, H. J. C. (1977) J. Comp. Phys. 23, 327-341
16. Berendsen, H. J. C., Postma, J. P. M., DiNola, A. and Haak, J. R. (1984) J. Chem. Phys. 81, 3684-3690
17. Vriend, G. (1990) J. Mol. Graph. 8, 52-56
18. Hamanaka, T. and Mitsui, T. (1972) Acta. Crystallogr b28, 214-222
19. Gilardi, R., Karle, I. K., Karle, J. and Sperling, W. (1971) Nature (London) 232, 187-189
20. Honig, B., Hudson, B., Sykes, B. D. and Karplus, M. (1971) Proc. Nat. Acad. Sci. USA 68, 1289-1293
21. Ippel, J. H., Spijker-Assing, M. B., Groesbeek, M., van der Steen, R., Altona, R. and Lugtenburg, J. (1994) Recl. Trav. Chim. Pays-Bas 113, 99-108
22. Anet, F. A. L. and Haq, M. Z. (1965) J. Am. Chem. Soc. 87, 3147-3150
23. Saebo, S. and Boggs, J. E. (1981) J. Mol. Struct. 73, 137-144
24. de Groot, B. L., Amadei, A., van Aalten, D. M. F. and Berendsen, H. J. C. (1996) J. Biomol. Struct. Dyn. 13, 741-751
25. Bernstein, F. C., Koetzle, T. F., Williams, G. J. B., Meyer, E. F., Brice, M. D., Rodgers, J. R., Kennard, O., Shimanouchi, T. and Tasumi, M. (1977) J. Mol. Biol. 112, 535-542
26. Zanotti, G., Ottonello, S., Berni, R. and Monaco, H. L. (1993) J. Mol. Biol. 230, 613-624
27. Zanotti, G., Berni, R. and Monaco, H. L. (1993) J. Biol. Chem. 268, 10728-10738
28. Cowan, S. W., Newcomer, M. E. and Jones, T. A. (1990) Proteins 8, 44-61
29. Zanotti, G., Marcello, M., Malpeli, G., Folli, C., Sartori, G. and Berni, R. (1994) J. Biol. Chem. 269, 29613-29620
30. Winter, N. S., Bratt, J. M. and Banaszak, L. J. (1993) J. Mol. Biol. 230, 1247-1259
31. Kleywegt, G. J., Bergfors, T., Senn, H., Lemotte, P., Gsell, B., Shudo, K. and Jones, T. A. (1994) Structure 2, 1241-1258
32. Kauzmann, W. (1959) Adv. Prot. Chem. 14, 1-64
33. Eisenberg, D. and McLachlan, A. D. (1986) Nature (London) 319, 199-203
34. Langlet, J., Pullman, B. and Berthod, H. (1970) J. Mol. Struct. 6, 139-144
35. Poirier, R. A. and Yadav, A. (1989) Chem. Phys. Lett. 156, 122-124
36. Beppu, Y. and Kakitani, T. (1990) Chem. Phys. 148, 333-346
37. Aqvist, J., Sandblom, P., Jones, T. A., Newcomer, M. E., van Gunsteren, W. F. and Tapia, O. (1986) J. Mol. Biol. 192, 593-604
38. Levitt, M., Sander, C. and Stern, P. S. (1985) J. Mol. Biol. 181, 423-447
39. Ong, D. E. and Chytil, F. (1978) J. Biol. Chem. 253, 828-832
40. Ong, D. E. (1984) J. Biol. Chem. 259, 1476-1482
41. MacDonald, P. N. and Ong, D. E. (1987) J. Biol. Chem. 262, 10550-10556
42. Levin, M. S., Locke, B., Yang, N. C., Li, E. and Gordon, J. I. (1988) J. Biol. Chem. 263, 17715-17723
43. Braude, E. A., Jones, E. R. H., Koch, H. P., Richardson, R. W., Sondheimer, F. and Toogood, J. B. (1949) J. Chem. Soc. 1890-1897
44. Oroshnik, W., Karmas, G. and Mebane, A. D. (1952) J. Am. Chem. Soc. 74, 295-304
45. Sivaprasadarao, A. and Findlay, J. B. C. (1994) Biochem. J. 300, 437-442
46. Herr, F. M. and Ong, D. E. (1992) Biochemistry 31, 6748-6755
47. Schreckenbach, T., Walckhoff, B. and Oesterhelt, D. (1977) Eur. J. Biochem. 76, 499-511
48. Childs, R. F., Shaw, G. S. and Wasylishen, R. E. (1987) J. Am. Chem. Soc. 109, 5362-5366
49. Honig, B., Dinur, U., Nakanishi, K., Balogh-Nair, V., Gawinowicz, M. A., Arnaboldi, M. and Motto, M. G. (1979) J. Am. Chem. Soc. 101, 7084-7086
50. Nakanishi, K., Balogh-Nair, V., Arnaboldi, M., Tsujimoto, K. and Honig, B. (1980) J. Am. Chem. Soc. 102, 7945-7947
51. Motto, M. G., Sheves, M., Tsujimoto, K., Balogh-Nair, V. and Nakanishi, K. (1980) J. Am. Chem. Soc. 102, 7947-7949
52. Vijayakumar, E. K. S. and Balaram, P. (1984) Photochem. Photobiol. 39, 667-672
53. Creuzet, F. C., McDermott, A., Gebhard, R., van der Hoef, K., Spijker-Assink, M. B., Herzfeld, J., Lugtenburg, J., Levitt, M. H. and Griffin, R. G. (1991) Science 251, 783-786
54. DiNola, A., Roccatano, D. and Berendsen, H. J. C. (1994) Proteins 19, 174-182