A similarity search algorithm to predict protein structures


Autoria(s): An, Jiyuan; Chen, Yi-Ping Phoebe
Data(s)

01/01/2006

Resumo

Accurate prediction of protein structures is very important for many applications such as drug discovery and biotechnology. Building side chains is an essential to get any reliable prediction of the protein structure for any given a protein main chain conformation. Most of the methods that predict side chain conformations use statistically generated data from known protein structures. It is a computationally intractable problem to search suitable side chains from all possible rotamers simultaneously using information of known protein structures. Reducing the number of possibility is a main issue to predict side chain conformation. This paper proposes an enumeration based similarity search algorithm to predict side chain conformations. By introducing “beam search” technique, a significant number of unrelated side chain rotamers can easily be eliminated. As a result, we can search for suitable residue side chains from all possible side chain conformations.<br />

Identificador

http://hdl.handle.net/10536/DRO/DU:30003692

Idioma(s)

eng

Publicador

Springer-Verlag

Relação

http://dro.deakin.edu.au/eserv/DU:30003692/n20060571.pdf

http://dx.doi.org/10.1007/11893004_165

Direitos

2006, Springer-Verlag Berlin Heidelberg

Tipo

Journal Article