Classification and prediction of β-turn types

Journal of Protein Chemistry

Volumn 16, Issue 6, 1997, Pages 575-595

  Chou, Kou Chen ^a   Blinn, James R ^a  

^a Pharmacia and Upjohn ^*  (United States)

Author keywords

Jackknife; Residue coupled model; Resubstitution

Indexed keywords

AMINO ACID SEQUENCE; AMINO ACID SUBSTITUTION; ARTICLE; CONFORMATIONAL TRANSITION; PROTEIN CONFORMATION;

ALGORITHMS; AMINO ACID SEQUENCE; MODELS, CHEMICAL; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; OLIGOPEPTIDES; PROTEIN CONFORMATION;

EID: 0030808140     PISSN: 02778033     EISSN: None     Source Type: Journal    
DOI: 10.1023/A:1026366706677     Document Type: Article

References (19)

1. Bhat, U. N. (1984). In Elements of Applied Stochastic Processes, Chap. 3, John Wiley & Sons, New York.
2. Chou, K. C. (1997). Prediction of β-turns, J. Peptide Res. 49, 120-144.
3. Chou, K. C., and Zhang, C. T. (1995). Prediction of protein structural classes, Crit. Rev. Biochem. Mol. Biol. 30, 275-349.
4. Chou, P. Y., and Fasman, G. D. (1974). Conformational parameters for amino acids in helical, β-sheet and random coil regions calculated from proteins, Biochemistry, 13, 211-223.
5. Chou, P. Y., and Fasman, G. D. (1979). Prediction of β-turns, Biophys. J. 26, 367-384.
6. Cohen, F. E., Abarbanel, R. M., Kuntz, I. D., and Fletterick, R. J. (1986). The prediction in proteins using a pattern-matching approach. Biochemistry, 25, 266-275,
7. Dyson, H. J., Rance, M., Houghten, R. A., Lerner, R. A., and Wright, P. E. (1988). Folding of immunogenic peptide fragments of proteins in water solution: I. Sequence requirements for the formation of a reverse turn, J. Mol. Biol. 201, 161-200.
8. Garnier, J., Osguthorpe, D. J., and Robson, B. (1978). Analysis of the accuracy and implications of simple methods for predicting the secondary structure of globular proteins, J. Mol. Biol. 120, 97-120.
9. Herriott, J. R., Sieker, L. C., Jensen, L. H., and Lovenberg, W. (1970). Structure or rubredoxin. An x-ray study to 2.5 angstroms resolution, J. Mol. Biol. 50, 391-406.
10. Hutchinson, E. G., and Thornton, J. M. (1994). A revised set of potentials for β-turn formation in proteins. Protein Sci. 3, 2207-2216.
11. Kabsch, W., and Sander, C. (1983). Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features, Biopolymers, 22, 2577-2637.
12. Klein, P. (1986). Prediction of protein structural class by discriminant analysis, Biochem. Biophys. Acta 874, 205-215.
13. Lewis, P. N., Momany, F. A., and Scheraga, H. A. (1973). Chain reversals in proteins, Biochim. Biophys. Acta 303, 211-229.
14. Mardia, K. V., Kent, J. T., and Bibby, J. M. (1979). Multivariate Analysis, Academic Press, London, pp. 322, 381.
15. McGregor, M. J., Flores, T. P., and Sternberg, M. J. E. (1989). Prediction of β-turns in proteins using neural networks, Protein Eng 2, 521-526.
16. Richardson, J. S. (1981). The anatomy and taxonomy of protein structure. Adv. Protein Chem. 34, 167-339.
17. Rose, G. D., Gierasch, L. M., and Smith, J. A. (1985). Turns in peptides and proteins. Adv. Protein Chem., 37, 1-109.
18. Venkatachalam, C. M. (1968). Stereochemical criteria for polypeptides and proteins. V. Conformation of a system of three linked peptide units, Biopolymers 6, 1425-1436.
19. Wilmot, C. M., and Thornton, J. M. (1988). Analysis and prediction of the different types of β-turn in proteins, J. Mol. Biol. 203, 221-232.