AAindex is a database of numerical indices representing various
physicochemical and biochemical properties of amino acids and pairs
of amino acids. AAindex consists of three sections now:
AAindex1 for the amino acid index of 20 numerical values, AAindex2
for the amino acid mutation matrix and AAindex3 for the statistical
protein contact potentials. All data are derived from published literature.
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(e.g. Hydrophobicity, MIRL960101)
References
- Nakai, K., Kidera, A., and Kanehisa, M.;
Cluster analysis of amino acid indices for prediction of protein structure and function. Protein Eng. 2, 93-100 (1988).
[PMID:3244698]
- Tomii, K. and Kanehisa, M.;
Analysis of amino acid indices and mutation matrices for sequence comparison and structure prediction of proteins. Protein Eng. 9, 27-36 (1996).
[PMID:9053899]
- Kawashima, S., Ogata, H., and Kanehisa, M.; AAindex: amino acid index database. Nucleic Acids Res. 27, 368-369 (1999).
[PMID:9847231]
- Kawashima, S. and Kanehisa, M.; AAindex: amino acid index database. Nucleic Acids Res. 28, 374 (2000).
[PMID:10592278]
- Kawashima, S., Pokarowski, P., Pokarowska, M., Kolinski, A., Katayama, T., and Kanehisa, M.; AAindex: amino acid index database, progress report 2008. Nucleic Acids Res. 36, D202-D205 (2008).
[PMID:17998252]