Identification proteins of globin-like fold

Progress in Biochemistry and Biophysics

Volumn 35, Issue 5, 2008, Pages 548-554

  Ren, Wen Ke ^a   Xu, Hai Song ^a   Li, Xiao Qin ^a  

^a BEIJING UNIVERSITY OF TECHNOLOGY   (China)

Author keywords

Fold identify; Globin like; Profile HMM; Protein; Structure alignment

Indexed keywords

EID: 48249130080     PISSN: 10003282     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (20)

1. Eisenberg D. Into the black of night. Nature Structural Biology, 1997, 4: 95-97
2. Shortle D. Structure Prediction: Folding proteins by pattern recognition. Current Biology, 1997, 7(3): 151-154
3. Chothia C. One thousand families for the molecular biologist. Nature, 1992, 357(6379): 543-544
4. David B. A surprising simplicity to protein folding. Nature, 2000, 405(6782): 39-42
5. Novotny M, Madsen D, Kleywegt G J. Evaluation of protein fold comparison servers. Proteins, 2004, 54(2): 260-270
6. Matsuda K, Nishioka T, Kinoshita K. Finding evolutionary relations beyond superfamilies: Fold-based superfamilies. Protein Science, 2003, 12(10): 2239-2251
7. Liu X H, Li X Q. Acta Biophys Sin, 2006, 22(Suppl): 370-371
8. Zhang W, Li X Q. Acta Biophys Sin, 2006, 22(Suppl): 387-388
9. Ding C H Q, Dubchak I. Multi-class protein fold recognition using support vector machines and neural networks. Bioinformatics, 2001, 17(4): 349-358
10. Shi J Y, Pan Q. Prog Biochem Biophys, 2006, 33(2): 155-162
11. Dunbrack R L. Sequence comparison and protein structure prediction. Curr Opin Struc Biol, 2006, 16(3): 374-384
12. Li J, Wang W. Science in China Series C-Life Sciences, 2006, 36(6): 552-562
13. Konagurthu A S, Whisstock J C, Stuckey P J, et al. MUSTANG: A multiple structural alignment algorithm. PROTEINS-Structure Function and Bioinformatics, 2006, 64(3): 559-574
14. Hall T A. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symposium Series, 1999, 41: 95-98
15. Holm L, Sander C. Mapping the protein universe. Science, 1996, 273(5275): 595-602
16. Eddy S R. Profile hidden Markov models. Current Opinion in Structural Biology, 1996, 6(3): 361-365
17. Karplus K, Barrett C, Hughey R. Hidden Markov models for detecting remote protein homologies. Bioinformatics, 1998, 14(10): 846-856
18. Madera M, Vogel C, Chothia C. The SUPERFAMILY database in 2004: additions and improvements. Nucleic Acids Research, 2004, 32(Database issue): 235-239
19. Durbin R, Eddy S, Krogh A. Biological Sequence Analysis: Probabilistic Models of Proteins and Nucleic Acids. Cambridge: Cambridge University Press, 1998. 100-132
20. Finn R D, Mistry J, Benjamin Schuster-Böckler. Pfam: clans, web tools and services. Nucleic Acids Research, 2006, 34 (Database issue): 247-251