Premium
Prediction of protein surface accessibility with information theory
Author(s) -
NaderiManesh Hossein,
Sadeghi Mehdi,
Arab Shahriar,
Moosavi Movahedi Ali A.
Publication year - 2001
Publication title -
proteins: structure, function, and bioinformatics
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 1.699
H-Index - 191
eISSN - 1097-0134
pISSN - 0887-3585
DOI - 10.1002/1097-0134(20010301)42:4<452::aid-prot40>3.0.co;2-q
Subject(s) - jackknife resampling , pairwise comparison , residue (chemistry) , amino acid residue , amino acid , set (abstract data type) , chemistry , computer science , position (finance) , biological system , mathematics , data mining , artificial intelligence , biochemistry , statistics , peptide sequence , biology , estimator , gene , programming language , finance , economics
Abstract A new, simple method based on information theory is introduced to predict the solvent accessibility of amino acid residues in various states defined by their different thresholds. Prediction is achieved by the application of information obtained from a single amino acid position or pair‐information for a window of seventeen amino acids around the desired residue. Results obtained by pairwise information values are better than results from single amino acids. This reinforces the effect of the local environment on the accessibility of amino acid residues. The prediction accuracy of this method in a jackknife test system for two and three states is better than 70 and 60%, respectively. A comparison of the results with those reported by others involving the same data set also testifies to a better prediction accuracy in our case. Proteins 2001;42:452–459. © 2001 Wiley‐Liss, Inc.