AAindex

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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Search AAindex AAindex1 AAindex2 AAindex3 by DBGET bfind for

(e.g. Hydrophobicity, MIRL960101)

• AAindex Help
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Figures and Lists

• Lists of the current database entries
• Current list of amino acid indices
• Current list of amino acid mutation matrices
• Current list of amino acid pair-wise contact potentials
• Kawashima et al.; Nucleic Acids Res. 36, D202-D205 (2008)
• Figure 1
• Tomii et al.; Protein Eng. 9, 27-36 (1996)
• Appendix
• Figure 4
• Figure 5 (upper)
• Figure 5 (lower)

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]