conserved amino acid changes

Alberto I Roca roca at macc.wisc.edu
Wed May 19 12:07:22 EST 1993


these are the references i have regarding conservative amino acid
replacements.
these methods are based upon chemical functionality:

Karlin, S., and Ghandour, G., (1985). Multiple!alphabet amino acid
sequence comparison of the immunoglobulin k!chain constant domain.
Proceedings of the National Academy of Sciences of the United States of
America. 82, 8597-8601.

amino acid classes:
chemical: acidic (DE), aliphatic (AGILV), amide (NQ), aromatic (FWY),
basic (RHK), hydroxyl (ST), imino (P), sulfur (CM);

functional: acidic, basic, hydrophobic (AILMFPWV), polar (NCQGSTY);

charge: acidic, basic, neutral;

structural: ambivalent (ACGPSTWY), external (RNDQEHK), internal (ILMFV)


the following paper created Venn diagrams of the different amino acids.
This reflects the
the overlapping relationships that exist between different amino acid
classes.

Taylor, W. R., (1986). The classification of amino acid conservation.
Journal of Theoretical Biology. 119, 205-218.
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Alberto I. Roca                 Internet: roca at macc.wisc.edu
Biochemistry                    Bitnet:   roca at wiscmacc
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University of Wisconsin-Madison
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