A mutation data matrix for transmembrane proteins

FEBS Letters

Jones, D.T.¹  Taylor, W.R.²  Thornton, J.M.¹ 

[1] Biomolecular Structure and Modelling Unit, Department of Biochemistry and Molecular Biology, University College, Gower Street, London WC1E 6BT, UK;Laboratory of Mathematical Biology, The National Institute for Medical Research, The Ridgeway, Mill Hill, London NW7 1AA, UK

关键词: Amino acid;    Comparison matrix;    Mutation;    Evolution;    Membrane protein;    Transmembrane segment;   

DOI  :  10.1016/0014-5793(94)80429-X

学科分类：生物化学/生物物理

来源: John Wiley & Sons Ltd.

【 摘 要 】

The widely used Mutation Data Matrix (MDM), is an amino acid comparison matrix calculated from a study of the exchange probabilities (or odds) derived from an analysis of the evolutionary changes seen in groups of very similar proteins. In this work, a mutation data matrix is calculated for membrane spanning segments. This new mutation data matrix is found to be very different from matrices calculated from general sequence sets which are biased towards water-soluble globular proteins, and the differences are discussed in the context of specific structural requirements of membrane spanning segments. This new matrix will help improve the accuracy of integral membrane protein sequence alignments, and could also be of use in the rational design of site directed mutagenesis experiments for this class of proteins.

【 授权许可】

Unknown