Hybrid Protein Model (HPM): a method to compact protein 3D-structures information and physicochemical properties. - Inserm - Institut national de la santé et de la recherche médicale Access content directly
Conference Papers Proceedings of the Seventh International Symposium on String Processing Information Retrieval Year : 2000

Hybrid Protein Model (HPM): a method to compact protein 3D-structures information and physicochemical properties.

Abstract

The transformation of protein 1D-sequence to protein 3D-structure is one of the main difficulties of the structural biology. A structural alphabet had been previously defined from dihedral angles describing the protein backbone as structural information by using an unsupervised classifier. The 16 Protein Blocks (PBs), basis element of the structural alphabet, allows a correct 3D structure approximation. Local prediction had been estimated by a Bayesian approach and shown that sequence information induces strongly the local fold, but stays coarse (prediction rate of 40.7 % with one PB, 75.8 % with the four most probable PBs). The Hybrid Protein Model presented in this study learns both sequence and structure of the proteins. The analysis made along the hybrid protein has permitted to appreciate more precisely the spatial location of some types of amino acid residues in the secondary structures and their flanking regions. This study leads to a fuzzy model of dependence between sequence and structure.
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Dates and versions

inserm-00132863 , version 1 (27-02-2007)

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Alexandre de Brevern, Serge A. Hazout. Hybrid Protein Model (HPM): a method to compact protein 3D-structures information and physicochemical properties.. 2000, pp.49-54, ⟨10.1109/SPIRE.2000.878179⟩. ⟨inserm-00132863⟩

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