MODBASE, a database of annotated comparative protein structure models

Nucleic Acids Research

Volumn 28, Issue 1, 2000, Pages 250-253

  Pieper, Ursula ^a   Eswar, Narayanan ^a   Stuart, Ashley C ^a   Ilyin, Valentin A ^a   Sali, Andrej ^a  

^a ROCKEFELLER UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

PROTEIN;

AMINO ACID SEQUENCE; ARABIDOPSIS; CAENORHABDITIS ELEGANS; COMPUTER PROGRAM; DATA BASE; ESCHERICHIA; HUMAN; INFORMATION RETRIEVAL; INTERNET; NONHUMAN; PRIORITY JOURNAL; PROTEIN STRUCTURE; SACCHAROMYCES CEREVISIAE; SHORT SURVEY;

AMINO ACID SEQUENCE; DATABASES, FACTUAL; GENOME; INTERNET; MOLECULAR SEQUENCE DATA; PROTEIN CONFORMATION; PROTEINS; SEQUENCE HOMOLOGY, AMINO ACID; USER-COMPUTER INTERFACE;

ARABIDOPSIS; ARABIDOPSIS THALIANA; CAENORHABDITIS ELEGANS; ESCHERICHIA; ESCHERICHIA COLI; SACCHAROMYCES CEREVISIAE;

EID: 0343920731     PISSN: 03051048     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (55)

1. Collins, F.S., Patrinos, A., Jordan, E., Chakravarti, A., Gesteland, R. and Walters, L. (1998) Science, 282, 682-689.
2. Bork, P., Dandekar, T., Diaz-Lazcoz, Y., Eisenhaber, F., Huynen, M. and Yuan, Y. (1998) J. Mol. Biol. 283, 707-725.
3. Koonin, E.V., Tatusov, R.L. and Galperin, M.Y. (1998) Curr. Opin. Struct. Biol., 3, 355-363.
4. Benson, D.A., Boguski, M.S., Lipman, D.J., Ostell, J., Ouellette, B.F.F., Rapp, B.A. and Wheeler, D.L. (1999) Nucleic Acids Res. 27, 12-17. Updated article in this issue: Nucleic Acids Res. (2000), 28, 15-18.
5. Benson, D.A., Boguski, M.S., Lipman, D.J., Ostell, J., Ouellette, B.F.F., Rapp, B.A. and Wheeler, D.L. (1999) Nucleic Acids Res. 27, 12-17. Updated article in this issue: Nucleic Acids Res. (2000), 28, 15-18.
6. Abola, E.E., Bernstein, F.C., Bryant, S.H., Koetzle, T. and Weng, J. (1987) In Allen, F.H., Bergerhoff, G. and Sievers, R. (eds), Crystallographic Databases Information, Content, Software systems, Scientific applications. Data Commission of the International Union of Crystallography Bonn/Cambridge/Chester, pp. 107-132.
7. Johnson, M.S., Srinivasan, N., Sowdhamini, R. and Blundell, T.L. (1994) CRC Crit. Rev. Biochem. Mol. Biol., 29, 1-68.
8. Martí-Renom, M.A., Stuart, A., Fiser, A., Sánchez, R., Melo, F. and Sǎli, A. (2000) Annu. Rev. Biophys. Biomol. Struct., in press.
9. Guex, N., Diemand, A. and Peitsch, M.C. (1999) Trends Biochem. Sci., 24, 364-367.
10. Fischer, D. and Eisenberg, D. (1997) Proc. Natl Acad. Sci. USA, 94, 11929-11934.
11. Sanchez, R. and Sali, A. (1998) Proc. Natl Acad. Sci. USA, 95, 13597-13602.
12. Rychlewski, L., Zhang, B. and Godzik, A. (1998) Fold. Des., 3, 229-238.
13. Huynen, M., Doerks, T., Eisenhaber, F., Orengo, C., Sunyaev, S., Yuan, Y. and Bork, P. (1998) J. Mol. Biol. 280, 323-326.
14. Grandori, R. (1998) Protein Eng., 11, 1129-1135.
15. Teichmann, S.A., Park, J. and Chothia, C. (1998) Proc. Natl Acad. Sci. USA, 22, 14658-14663.
16. Jones, D.T. (1999) J. Mol. Biol., 287, 797-815.
17. Hubbard, T.J.P., Ailey, B., Brenner, S.E., Murzin, A.G. and Chothia, C. (1999) Nucleic Acids Res., 27, 254-256. Updated article in this issue: Nucleic Acids Res. (2000), 28, 257-259.
18. Hubbard, T.J.P., Ailey, B., Brenner, S.E., Murzin, A.G. and Chothia, C. (1999) Nucleic Acids Res., 27, 254-256. Updated article in this issue: Nucleic Acids Res. (2000), 28, 257-259.
19. Orengo, C.A., Pearl, F.M.G., Bray, J.E., Todd, A.E., Martin, A.C., Conte, L.L., and Thornton, J.M. (1999) Nucleic Acids Res., 27, 275-279. Updated article in this issue: Nucleic Acids Res. (2000), 28, 277-282.
20. Orengo, C.A., Pearl, F.M.G., Bray, J.E., Todd, A.E., Martin, A.C., Conte, L.L., and Thornton, J.M. (1999) Nucleic Acids Res., 27, 275-279. Updated article in this issue: Nucleic Acids Res. (2000), 28, 277-282.
21. Holm, L. and Sander, C. (1999) Nucleic Acids Res., 27, 244-247.
22. Holm, L. and Sander, C. (1996) Science, 273, 595-602.
23. Terwilliger, T.C., Waldo, G., Peat, T.S., Newman, J.M., Chu, K. and Berendzen, J. (1998) Protein Sci., 7, 1851-1856.
24. Šali, A. (1998) Nature Struct. Biol., 5, 1029-1032.
25. Zarembinski, T.I., Hung, L.W., Mueller-Dieckmann, H.J., Kim, K.K., Yokota, H., Kim, R. and Kim, S.H. (1998) Proc. Natl. Acad. Sci. USA, 95, 15189-15193.
26. Burley, S.K., Almo, S.C., Bonanno, J.B., Capel, M., Chance, M.R., Gaasterland, T., Lin, D., Šali, A., Studier, F.W. and Swaminathan, S. (1999) Nature Genet., 23, 151-157.
27. Montelione, G.T. and Anderson, S. (1999) Nature Struct. Biol., 6, 11-12.
28. Cort, J.R., Koonin, E.V., Bash, P.A. and Kennedy, M.A. (1999) Nucleic Acids Res., 27, 4018-4027.
29. Peitsch, M.C., Wilkins, M.R., Tonella, L., Sanchez, J.C., Appel, R.D. and Hochstrasser, D.F. (1997) Electrophoresis, 18, 498-501.
30. Bairoch, A. and Apweiler, R. (1999) Nucleic Acids Res., 27, 49-54. Updated article in this issue: Nucleic Acids Res. (2000), 28, 45-48.
31. Bairoch, A. and Apweiler, R. (1999) Nucleic Acids Res., 27, 49-54. Updated article in this issue: Nucleic Acids Res. (2000), 28, 45-48.
32. Sánchez, R. and Sali, A. (1999) J. Comp. Phys., 151, 388-401.
33. Altschul, S.F., Madden, T.L., Schaffer, A.A., Zhang, J.Z., Miller, W. and Lipman, D.J. (1997) Nucleic Acids Res., 25, 3389-3402.
34. Šali, A. and Blundell, L. (1993) J. Mol. Biol., 234, 779-815.
35. Lüthy, R., Bowie, J.U. and Eisenberg, D. (1992) Nature, 356, 83-85.
36. Sippl, M.J. (1993) Proteins, 17, 355-362.
37. Orengo, C.A., Jones, D.T. and Thornton, J.M. (1994) Nature, 372, 631-634.
38. Guenther, B., Onrust, R., Sali, A., O'Donnell, M. and Kuriyan, J. (1997) Cell, 91, 335-345.
39. Chervitz, S.A., Hester, E.T., Ball, C.A., Dolinski, K., Dwight, S.S., Harris, M.A., Juvik, G., Malekian, A., Roberts, S., Roe, T., Scafe, C., Schroeder, M., Sherlock, G., Weng, S., Zhu, Y., Cherry, J.M. and Botstein, D. (1999) Nucleic Acids Res., 27, 74-78. Updated article in this issue: Nucleic Acids Res. (2000), 28, 77-80.
40. Chervitz, S.A., Hester, E.T., Ball, C.A., Dolinski, K., Dwight, S.S., Harris, M.A., Juvik, G., Malekian, A., Roberts, S., Roe, T., Scafe, C., Schroeder, M., Sherlock, G., Weng, S., Zhu, Y., Cherry, J.M. and Botstein, D. (1999) Nucleic Acids Res., 27, 74-78. Updated article in this issue: Nucleic Acids Res. (2000), 28, 77-80.
41. Sayle, R. and Milner-White, E.J. (1995) Trends Biochem. Sci., 20, 374.
42. Xu, L.Z., Sánchez, R., Šali, A. and Heintz, N. (1996) J. Biol. Chem., 271, 24711-24719.
43. Matsumoto, R., Šali, A., Ghildyal, N., Karplus, M. and Stevens, R.L. (1995) J. Biol. Chem., 270, 19524-19531.
44. Caputo, A., James, M.N.G., Powers, J.C., Hudig, D. and Bleackley, R.C. (1994) Nature Struct. Biol., 1, 364-367.
45. Ring, C.S., Sun, E., McKerrow, J.H., Lee, G.K., Rosenthal, P.J., Kuntz, I.D. and Cohen, F.E. (1993) Proc. Natl Acad. Sci. USA, 90, 3583-3587.
46. Vakser, I.A. (1997) Proteins Suppl., 1, 226-230.
47. Carson, M., Bugg, C.E., Delucas, L. and Narayana, S. (1994) Acta Crystallogr., D50, 889-899.
48. Nagata, T., Gupta, V., Kim, W.-Y., Šali, A., Chait, B.T., Shigesada, K., Ito, Y. and Werner, M.H. (1999) Nature Struct. Biol., 6, 615-619.
49. Wallace, A., Borkakoti, N. and Thornton, J.M. (1997) Protein Sci., 6, 2308-2323.
50. Fetrow, J.S. and Skolnick, J. (1998) J. Mol. Biol., 281, 949-968.
51. Kleywegt, G.J. (1999) J. Mol. Biol., 285, 1887-1897.
52. Dunbrack, R.L., Jr, Gerloff, D.L., Bower, M., Chen, X., Lichtarge, O. and Cohen, F.E. 1997) Folding Des., 2, R27-R42.
53. Koehl, P. and Levitt, M. (1999) Nature Struct. Biol., 6, 108-111.
54. Jones, D. (1997) Curr. Opin. Struct. Biol., 7, 377-387.
55. Eddy, S.R. (1996) Curr. Opin. Struct. Biol., 6, 361-365.