Knowledge-based potentials for protein folding: What can we learn from known protein structures?

Structure

Volumn 4, Issue 4, 1996, Pages 363-366

  Godzik, Adam ^a  

^a SCRIPPS RESEARCH INSTITUTE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

PROTEIN;

CHEMICAL STRUCTURE; CHEMISTRY; COMPARATIVE STUDY; COMPUTER SIMULATION; PROTEIN CONFORMATION; PROTEIN FOLDING; REVIEW;

COMPUTER SIMULATION; MODELS, MOLECULAR; PROTEIN CONFORMATION; PROTEIN FOLDING; PROTEINS;

EID: 0030584681     PISSN: 09692126     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0969-2126(96)00041-X     Document Type: Article

References (14)

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3. Kolinski, A. & Skolnick, J. (1994). Monte Carlo simulations of protein folding II. Application to Protein A, ROP and Crambin. Proteins 18, 353-366
4. Srinivasan, R. & Rose, G.D. (1995). LINUS: a hierarchical procedure to predict the fold of a protein. Proteins 22, 81-99.
5. Tanaka, S. & Scheraga, H.A. (1976). Medium and long range interaction parameters between amino acids for predicting three-dimensional structures of proteins. Macromolecules 9, 945-950.
6. Rooman, M.J. & Wodak, S.J. (1995). Are database-derived potentials valid for scoring both forward and inverted protein folding? Protein Eng. 8, 849-858.
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8. Godzik, A. (1996). A compilation of empirical interaction energy parameter sets. Available via anonymous ftp from ftp.scripps.edu or via author's home page at http://www.scripps.edu.
9. McQuarrie, D. (1973). Statistical Mechanics. Harper & Row, New York.
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11. Godzik, A., Skolnick, J. & Kolinski, A. (1992). A topology fingerprint approach to the inverse folding problem. J. Mol. Biol. 227, 227-238
12. Maiorov, V.N. & Crippen, G.M. (1992). Contact potential that recognizes the correct folding of globular proteins. J. Mol. Biol. 277, 876-888.
13. Tropsha, A., Singh, R.K., Vaisman, I.I. & Zheng. W. (1996). Statistical geometry analysis of proteins: implications for inverted structure predictions. In Pacific Symposium on Biocomputing. (Hunter, L. & Klein, T.E., eds), pp.614-623, World Scientific Press, Singapore.
14. Cornette, J.L., Cease, K.B., Margalit, H., Spouge, J.L., Berzofsky, J.A. & DeLisi, C. (1987). Hydrophobicity scales and computational techniques for detecting amphipathic structures in proteins. J. Mol. Biol. 195, 659-685.