A new approach to clustering the amino acids

Journal of Theoretical Biology

Volumn 183, Issue 2, 1996, Pages 195-205

  Stanfel, Larry E ^a  

^a UNIVERSITY OF ALABAMA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID;

AMINO ACID SEQUENCE; AMINO ACID SUBSTITUTION; ARTICLE; HYDROGEN BOND; HYDROPHILICITY; PRIORITY JOURNAL;

EID: 0030597348     PISSN: 00225193     EISSN: None     Source Type: Journal    
DOI: 10.1006/jtbi.1996.0213     Document Type: Article

References (26)

1. BAKER, E. & HUBBARD, R. (1984). Hydrogen bonding in globular proteins. Prog. Biophys. Molec. Biol. 44, 97-179.
2. BRIAN, E. (1993). Cluster Analysis, 3rd Edn. New York: Halstead Press.
3. CHOTHIA, C. (1984). Principles that determine the structure of proteins. Ann. Rev. Biochem. 53, 537-572.
4. CLARKE, B. (1970). Selective constraints on amino-acid substitutions during the evolution of proteins. Nature 228, 159-160.
5. DAYHOFF, M., SCHWARTZ, R. & ORCUTT, B. (1978). A model of evolutionary change in proteins. In: Atlas of Protein Sequence and Structure, pp. 345-352. Silver Spring, MD: National Biomedical Research Foundation.
6. DEO, N. (1974). Graph Theory with Applications. Englewood Cliffs, NJ: Prentice-Hall.
7. DURAN, B. and ODELL, P. (1974). Cluster Analysis, A Survey. Berlin: Springer.
8. ENGELMAN, D. et al. (1986). Ann. Rev. Biophys. Biophys. Chem. 15, 321-353.
9. EPSTEIN, C. (1967). Non-randomness of amino-acid changes in the evolution of homologous proteins. Nature, 215, 355-359.
10. GERSTEIN, M., SONNHAMMER, E., CHOTHIA, C. (1994). "Volume changes in protein evolution," J. Mol. Biol., 236, 4, 1067-1078.
11. GRANTHAM, R. (1974). Amino acid difference formula to help explain protein evolution, Science, 185, 862-864.
12. HARTIGAN, J. (1975). Clustering Algorithms. New York: J. Wiley.
13. JAIN, A. (1988). Algorithms for Clustering Data. Englewood Cliffs, NJ: Prentice-Hall.
14. KAUFMAN, L. (1990). Finding Groups in Data. New York: J. Wiley.
15. KING, J. and JUKES, T. (1969). Non-Darwinian evolution, Science, 164, 788-798.
16. LESK, A. and CHOTHIA, C. (1980). How different amino acid sequences determine similar protein structures: the structure and evolutionary dynamics of the globins. J. Mol. Biol., 136, 225-270.
17. MCLACHLAN, A. (1972). Repeating sequences and gene duplication in proteins. J. Mol. Biol., 64, 417.
18. MURTAGH, F. (1985). Multidimensional Clustering Algorithms, Vienna: Physica-Verlag.
19. PRIM, R. (1957). Shortest connection networks and some generalizations. Bell System Tech. J., 36, 1389-1401.
20. PTITSYN, O. and VOLKENSTEIN, M. (1986). Protein structures and neutral theory of evolution," J. Biomol. Struct. Dynamics 4, 1, 137-155.
21. SNEATH, P. (1966). Relations between Chemical and Biological Activity in Peptides. J. theor. Biol. 12, 157-195.
22. SNEATH, P. and SOKAL, R. (1973). Numerical Taxonomy, San Francisco: W. H. Freeman.
23. STANFEL, L. (1986). Applications of Clustering Theory to Cancer Mortality Data. Computers and Biomedical Research, 19, 117-141.
24. STANFEL, L. (1993). A Theory of Clustering. In: Proc. Eleventh Annual Conference of the A. O. M. (W. Hamel, ed.) Vol. 11, pp. 29-35. Newport, VA: Maximilian Press.
25. STRYER, L. (1988). Biochemistry. New York: W. H. Freeman.
26. TAYLOR, W. (1986). The Classification of Amino Acid Conservation. J. theor. Biol. 119, 205-218.