论文信息 - Simplified Lattice Models for Protein Structure Prediction: How Good Are They?

Simplified Lattice Models for Protein Structure Prediction: How Good Are They?

In this paper, we present a local search framework for lattice fit problem of proteins. Our algorithm significantly improves state-of-the-art results and justifies the significance of the lattice models. In addition to these, our analysis reveals the weakness of several energy functions used.

Abdul Sattar | Swakkhar Shatabda | M. A. Hakim Newton

[1] Federico Fogolari,et al. Amino acid empirical contact energy definitions for fold recognition in the space of contact maps , 2003, BMC Bioinformatics.

[2] R. Jernigan,et al. Estimation of effective interresidue contact energies from protein crystal structures: quasi-chemical approximation , 1985 .

[3] K. Dill,et al. A lattice statistical mechanics model of the conformational and sequence spaces of proteins , 1989 .

[4] M. Levitt,et al. The complexity and accuracy of discrete state models of protein structure. , 1995, Journal of molecular biology.

[5] Charlotte M. Deane,et al. Producing High-Accuracy Lattice Models from Protein Atomic Coordinates Including Side Chains , 2012, Adv. Bioinformatics.

[6] Michael J. Maher,et al. Kangaroo: An Efficient Constraint-Based Local Search System Using Lazy Propagation , 2011, CP.