Classification modeling and recognition of protein fold type

Wuli Huaxue Xuebao/ Acta Physico - Chimica Sinica

Volumn 25, Issue 12, 2009, Pages 2558-2564

  Liu, Yue ^a   Li, Xiao Qin ^a   Xu, Hai Song ^a   Qiao, Hui ^a  

^a BEIJING UNIVERSITY OF TECHNOLOGY   (China)

Author keywords

Fold recognition; Hierarchical clustering; Profile HMM; Protein fold type; RMSD

Indexed keywords

EID: 71449089473     PISSN: 10006818     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (31)

1. Baker, D.; Sali, A. Science, 2001, 294(5540): 93
2. Torda, A. E. Curr. Opin. Struct. Biol., 1997, 7(2): 200
3. Chothia, C. Nature, 1992, 357(6379): 543
4. Daggett, V.; Fersht, A. Nat. Rev. Mol. Cell. Biol., 2003, 4(6): 497
5. Daggett, V.; Fersht, A. Trends Biochem. Sci., 2003, 28(1): 18
6. Gianni, S.; Guydosh, N. R.; Khan, F. Proc. Natl. Acad. Sci. U. S. A., 2003, 100(23): 13286
7. Onuchic, J. N.; Wolynes, P. G. Curr. Opin. Struct. Biol., 2004, 14 (1): 70
8. Dubchak, I.; Muchnik, I.; Holbrook, S. R.; Kim, S. H. Proc. Natl. Acad. Sci. U. S. A., 1995, 92(19): 8700
9. Dubchak, I.; Muchnik, I.; Mayor, C.; Dralyuk, I.; Kim, S. H. Proteins: Structure, Function and Genetics, 1999, 35(4): 401
10. Ding, C. H. Q.; Dubchak, I. Bioinformatics, 2001, 17(4): 349
11. Karplus, K.; Sjölander, K.; Barrett, C. Proteins: Structure, Function and Genetics, 1997, (Suppl 1): 134
12. Matsuda, K.; Nishioka, T.; Kinoshita, K. Protein Science, 2003, 12 (10): 2239
13. Novotny, M.; Madsen, D.; Kleywegt, G. J. Proteins, 2004, 54(2): 260
14. Chen, Y.; Crippen, G. M. J. Comput. Biol., 2006, 13(9): 1565
15. Luo, L. F.; Li, X. Q. Proteins, 2000, 39(1): 9
16. Liu, X. H.; Li, X. Q.; Xu, H. S.; Ren, W. K. Chinese Journal of Biochemistry and Molecular Biology, 2008, 24(8): 761
17. Zhang, W.; Li, X. Q. Acta Biophysica Sinica, 2008, 24(1): 65
18. Ren, W. K.; Xu, H. S.; Li, X. Q. Progress in Biochemistry and Biophysics, 2008, 35(5): 548
19. Brüschweiler, R. Proteins: Structure, Function and Genetics, 2003,50(1): 26
20. Maiorov, V. N.; Crippen, G. M. J. Mol. Biol., 1994, 235(2): 625
21. Konagurthu, A. S.; Whisstock, J. C. Proteins: Structure Function and Bioinformatics, 2006, 64(3): 559
22. Su, J. M.; Ruan, S. Y. A practical guide of MATLAB 6.1(Vol.2). Beijing: Publishing House of Electronics Industry, 2002: 435-454
23. Eddy, S. R. Bioinformatics, 1998, 14(9): 755
24. Li, H.; Helling, R.; Tang, C.; Wingreen, N. Science, 1996, 273 (5275): 666
25. Konagurthu, A. S.; Whisstock, J. C.; Stuckey, P. J.; Lesk, A. M. Proteins, 2006, 64(3): 559
26. Notredame, C. PharmacoGenomics, 2002, 3(1): 131
27. Holm, L.; Sander, C. J. Mol. Biol., 1993, 233(1): 123
28. Durbin, R.; Eddy, S. R.; Krogh, A. Biological sequence analysis: probabilistic models of proteins and nucleic acids. Cambridge: Cambridge University Press, 1998: 100
29. Zhang, S.; Huang, B.; Xia, X. F.; Sun, Z. R. Prog. Biochem. Biophys., 2007, 34(6): 573
30. Metz, C. E.; Herman, B. A.; Shen, J. H. Stat. Med., 1998, 17(9): 1033
31. Bamber, D. J. Math. Psychol., 1975, 12(4): 387