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Current Proteomics
ISSN (Print): 1570-1646
ISSN (Online): 1875-6247
VOLUME: 11
ISSUE: 1
DOI: 10.2174/1570164611666140412003128









Conserved Regions can Predict Protein Binding Regions

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Author(s): Raphael Finkel and Heinz Kohler
Pages 55-60 (6)
Abstract:
We demonstrate the Binary Identified Contact Domain (BICD) method for predicting binding sites for proteins that starts with amino-acid sequences of several species, finds regions that are evolutionarily conserved, and weights regions by their local hydrophilicity. The measure of conservation takes transversions as significant but transitions as insignificant, in keeping with a theory of original singlet codes. The BICD method correctly predicts several known binding sites for the BRCA2 protein with PABL2 and RAD51 as well as the binding sites of the MDM2-P53 complex.
Keywords:
Amino acids, binary code, binding sites, codons, conservation, evolution, genetic code, triplet.
Affiliation:
Dept. of Computer Science and Dept. of Microbiology and Immunology, University of Kentucky, USA.