Modeling and analyzing three-dimensional structures of human disease proteins

Proceedings of the Pacific Symposium on Biocomputing 2006, PSB 2006

Volumn , Issue , 2006, Pages 439-450

  Ye, Yuzhen ^a   Li, Zhanwen ^a   Godzik, Adam ^a  

^a BURNHAM INSTITUTE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BINDING INTERFACE; FORM CLUSTERS; HOMOLOGY MODELING; HUMAN DISEASE; MOLECULAR MACHINES; NON-UNIFORM DISTRIBUTION; PROTEIN 3-D STRUCTURE; PROTEIN MODELS; PROTEIN SURFACE; PROTEIN-PROTEIN INTERACTIONS; RANDOMLY DISTRIBUTED; STRUCTURAL CHARACTERISTICS; THREE-DIMENSIONAL STRUCTURE;

DRUG THERAPY; PROTEINS; THREE DIMENSIONAL;

DISEASE CONTROL;

MULTIPROTEIN COMPLEX; PROTEIN;

ARTICLE; BIOLOGY; CHEMICAL STRUCTURE; CHEMISTRY; COMPUTER SIMULATION; GENETICS; HUMAN; MUTATION; PROTEIN CONFORMATION; PROTEIN DATABASE; SINGLE NUCLEOTIDE POLYMORPHISM;

COMPUTATIONAL BIOLOGY; COMPUTER SIMULATION; DATABASES, PROTEIN; HUMANS; MODELS, MOLECULAR; MULTIPROTEIN COMPLEXES; MUTATION; POLYMORPHISM, SINGLE NUCLEOTIDE; PROTEIN CONFORMATION; PROTEINS;

EID: 36348992229     PISSN: None     EISSN: None     Source Type: Conference Proceeding    
DOI: None     Document Type: Conference Paper

References (28)

1. M. Cargilf, D. Altshuler, J. Ireland, P. Sklar, K. Ardlie, N. Patil, N. Shaw, C.R. Lane, E.P. Lim, N. Kalyanaraman, J. Nemesh, L. Ziaugra, L. Friedland, A. Rolfe, J. Warrington, R. Lipshutz, G.Q. Daley, and E.S. Lander, Nature Genetics. 22(3), 231-238 (1999).
2. A.C. Martin, A.M. Facchiano, A.L. Cuff, T. Hemandez-Boussard, M. Olivier, P. Hainaut, and J.M. Thornton, Hum Mutat. 19(2), 149-164 (2002).
3. M.A. Fleming, J.D. Potter, C.J. Ramirez, G.K. Ostrander, and E.A. Ostrander, ProcNatlAcadSci USA. 100(3), 1151-1156 (2003).
4. P.C. Ng and S. Henikoff, Nucleic Acids Res. 31(13), 3812-3814 (2003).
5. S. Sunyaev, V. Ramensky, and P. Bork, Trends Genet. 16(5), 198-200 (2000).
6. Z. Wang and J. Moult, Hum Mutat. 17(4), 263-270 (2001).
7. A. Cavallo and A.C. Martin, Bioinformatics. 21(8), 1443-1450 (2005).
8. S.D. Mooney and R.B. Altman, Bioinformatics. 19(14), 1858-1860 (2003).
9. R. Karchin, M. Diekhans, L. Kelly, D.J. Thomas, U. Pieper, N. Eswar, D. Haussler, and A. Sali, Bioinformatics. 21(12), 2814-2820 (2005).
10. Y.L. Yip, H. Scheib, A.V. Diemand, A. Gattiker, L.M. Famiglietti, E. Gasteiger, and A. Bairoch, Hum Mutat. 23(5), 464-470 (2004).
11. L. Rychlewski, L. Jaroszewski, W. Li, and A. Godzik, Protein Science. 9, 232-241 (2000).
12. Z. Xiang and B. Honig, J Mol Biol. 311(2), 421-430 (2001).
13. A. Sali and T.L. Blundell, J Mol Biol. 234, 779-815 (1993).
14. L. Jaroszewski, K. Pawlowski, and A. Godzik,/Mol Model. 4, 294 - 309 (1998).
15. R. Schwarzenbacher, A. Godzik, S.K. Grzechnik, and L. Jaroszewski, Acta Crystatlogr D Biol Crystattogr. 60(Pt 7), 1229-1236 (2004).
16. B. Lee and F.M. Richards, J Mol Biol. 55, 379-400 (1971).
17. E. Minieka, Optimization algorithms for networks and graphs. New York: Marcel Dekker (1978).
18. I. Friedberg, L. Jaroszewski, Y. Ye, and A. Godzik, Curr Opin Struct Biol. 14(3), 307-312(2004).
19. K.R. Brown and I. Jurisica, Bioinformaties. 21(9), 2076-2082 (2005).
20. T. Pawson, Nature. 385(6617), 582-583 (1997).
21. W. Xu, S.C. Harrison, and M.J. Eck, Nature. 385(6617), 595-602 (1997).
22. P. Uetz, L. Giot, G. Cagney, T.A. Mansfield, R.S. Judson, J.R. Knight, D. Lockshon, V. Narayan, M. Srinivasan, P. Pochart, A. Qureshi-Emili, Y. Li, B. Godwin, D. Conover, T. Kalbfleisch, G. Vijayadamodar, M. Yang, M. Johnston, S. Fields, and J.M. Rothberg, Nature. 403(6770), 623-627 (2000).
23. C. von Mering, R. Krause, B. Snel, M. Cornell, S.G. Oliver, S. Fields, and P. Bork, Nature. 417(6887), 399-403 (2002).
24. H. Yu, N.M. Luscombe, H.X. Lu, X. Zhu, Y. Xia, J.D. Han, N. Berlin, S. Chung, M. Vidal, and M. Gerstein, Genome Res. 14(6), 1107-1118 (2004).
25. P. Aloy and R.B. Russell, Proc Nad Acad Sci USA. 99(9), 5896-5901 (2002).
26. L. Lu, A.K. Arakaki, H. Lu, and J. Skolnick, Genome Res. 16(6A), 1146- 1354 (2003).
27. E. Katchalski-Katzir, I. Shariv, M. Eisenstein, A.A. Friesem, C. Aflalo, and I. A. Vakser, Proc Natl Acad Sci USA. 89(6), 2195-2199 (1992).
28. R.B. Russell, F. Alber, P. Aloy, F.P. Davis, D. Korkin, M. Pichaud, M. Topf, and A. Sali, Curr Opin Struct Biol. 14(3), 313-324 (2004).