Journal of applied mathematics & informatics

The Korean Society for Computational and Applied Mathematics (한국전산응용수학회)
권호 표지

A QUADRATIC APPROXIMATION FOR PROTEIN SEQUENCE TO STRUCTURE MAPPING

  • Oh, Se-Young (Department of Mathematics, Chungnam National University) ;
  • Yun, Jae-Heon (Department of Mathematics, College of Natural Science, Chungnam National University) ;
  • Chung, Sei-Young (Department of Mathematics, Chungnam National University)
  • Published : 2003.05.01

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Abstract

A method is proposed to predict the distances between given residue pairs (between C$\sub$${\alpha}$/ atoms) of a protein using a sequence to structure mapping by indefinite quadratic approximation. The prediction technique requires a data fitting in three dimensional space with coordinates of the residues of known structured proteins and leads to a numerical ref resentation of 20 amino acids by minimizing a large least norm iteratively. These approximations are used in distance prediction for given residue pairs. Some computational experience on a test set of small proteins from Brookhaven Protein Data Bank are given.

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