Current Bioinformatics

Yi-Ping Phoebe Chen
Department of Computer Science and Information Technology
La Trobe University
Melbourne
Australia

Back

Computational Methods for the Prediction of the Structure and Interactions of Coiled-Coil Peptides

Author(s): Neha S. Gandhi, Ricardo L. Mancera.

Abstract:

The past several years have seen significant advances in the development of computational methods for the prediction of the structure and interactions of coiled-coil peptides. These methods are generally based on pairwise correlations of amino acids, helical propensity, thermal melts and the energetics of sidechain interactions, as well as statistical patterns based on Hidden Markov Model (HMM) and Support Vector Machine (SVM) techniques. These methods are complemented by a number of public databases that contain sequences, motifs, domains and other details of coiled-coil structures identified by various algorithms. Some of these computational methods have been developed to make predictions of coiled-coil structure on the basis of sequence information; however, structural predictions of the oligomerisation state of these peptides still remains largely an open question due to the dynamic behaviour of these molecules. This review focuses on existing in silico methods for the prediction of coiled-coil peptides of functional importance using sequence and/or three-dimensional structural data.

Keywords: Coiled-coil peptides, hidden Markov model, oligomerisation, heptad, Crick's model, knobs-into-holes, Velcro hypothesis, leucine zipper

Order Reprints Order Eprints Rights & PermissionsPrintExport

Article Details

VOLUME: 3
ISSUE: 3
Year: 2008
Page: [149 - 161]
Pages: 13
DOI: 10.2174/157489308785909205
Price: $58