Sausage: Protein threading with flexible force fields

Bioinformatics

Volumn 15, Issue 12, 1999, Pages 1064-1065

  Huber, Thomas ^a   Russell, Anthony J ^a   Ayers, Daniel ^a   Torda, Andrew E ^a  

^a AUSTRALIAN NATIONAL UNIVERSITY   (Australia)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID; PROTEIN;

AMINO ACID SEQUENCE; COMPUTER PROGRAM; INTERNET; PRIORITY JOURNAL; PROTEIN STRUCTURE; SHORT SURVEY;

EID: 0033500010     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/15.12.1064     Document Type: Short Survey

References (14)

1. Ayers, D.J., Huber, T. and Torda, A.E. (1999a) Protein fold recognition score functions: unusual construction strategies. Proteins, 36, 454-461.
2. Ayers, D.J., Gooley, P.R., Widmer-Cooper, A. and Torda, A.E. (1999b) Enhanced protein fold recognition using secondary structure information from NMR. Protein Sci., 8, 1127-1133.
3. Godzik, A., Kolinski, A. and Skolnick, J. (1992) Topology fingerprint approach to the inverse protein folding problem. J. Mol. Biol., 227, 227-238.
4. Gotoh, O. (1982) An improved algorithm for matching biological sequences. J. Mol. Biol., 162, 705-708.
5. Huber, T. and Torda, A.E. (1998) Protein fold recognition without Boltzmann statistics or explicit physical basis. Protein Sci., 7, 142-149.
6. Huber, T. and Torda, A.E. (1999) Protein sequence threading, the alignment problem and a two step strategy. J. Comput. Chem., 20, 1455-1467.
7. Jones, D.T., Taylor, W.R. and Thornton, J.M. (1992) A new approach to protein fold recognition. Nature, 358, 86-89.
8. Lathrop, R.H. (1994) The protein threading problem with sequence amino acid interaction preferences is NP-complete. Protein Eng., 7, 1059-1068.
9. Needleman, S.B. and Wunsch, C.D. (1970) A general method applicable to the search for similarities in the amino acid sequence of two proteins. J. Mol. Biol., 48, 443-453.
10. Rost, B., Sander, C. and Schneider, R. (1994) PHD - an automatic mail server for protein secondary structure prediction. Comput. Appl. Biosci., 10, 53-60.
11. Sippl, M.J. (1990) Calculation of conformational ensembles from potentials of mean force. An approach to the knowledge-based prediction of local structures in globular proteins. J. Mol. Biol., 213, 859-883.
12. Sippl, M.J. (1993) Boltzmann's principle, knowledge-based mean fields and protein folding. An approach to the computational determination of protein structures. J. Comput. Aided Mol. Des., 7, 473-501.
13. Sternberg, M.J. E. (1996) Protein Structure Prediction: A Practical Approach. IRL Press, Oxford.
14. Westhead, D.R. and Thornton, J.M. (1998) Protein structure prediction. Curr. Opin. Biotech., 9, 383-389.