ArticleJournal of the Royal Society, Interface2006
A multi-objective evolutionary approach to the protein structure prediction problem.
Article in Journal of the Royal Society, Interface, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed.
- Naive Prediction of Protein Backbone Phi and Psi Dihedral Angles Using Deep Learning.Molecules (Basel, Switzerland) · 2023Article
- Secondary structure specific simpler prediction models for protein backbone angles.BMC bioinformatics · 2022Article
- Enhancing protein backbone angle prediction by using simpler models of deep neural networks.Scientific reports · 2020Article
- Reliable Generation of Native-Like Decoys Limits Predictive Ability in Fragment-Based Protein Structure Prediction.Biomolecules · 2019Article
- Searching for the Pareto frontier in multi-objective protein design.Biophysical reviews · 2017Review
- Article
- Rapid sampling of local minima in protein energy surface and effective reduction through a multi-objective filter.Proteome science · 2013Article
- Article
- Generalized pattern search algorithm for Peptide structure prediction.Biophysical journal · 2008Article
- A comparative study of the reported performance of ab initio protein structure prediction algorithms.Journal of the Royal Society, Interface · 2008Article
- Introduction: statistical mechanics of molecular and cellular biological systems.Journal of the Royal Society, Interface · 2006Article
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Authors and funding
3 authors.
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Abstract
The protein structure prediction (PSP) problem is concerned with the prediction of the folded, native, tertiary structure of a protein given its sequence of amino acids. It is a challenging and computationally open problem, as proven by the numerous methodological attempts and the research effort applied to it in the last few years. The potential energy functions used in the literature to evaluate the conformation of a protein are based on the calculations of two different interaction energies: local (bond atoms) and non-local (non-bond atoms). In this paper, we show experimentally that those types of interactions are in conflict, and do so by using the potential energy function Chemistry at HARvard Macromolecular Mechanics. A multi-objective formulation of the PSP problem is introduced and its applicability studied. We use a multi-objective evolutionary algorithm as a search procedure for exploring the conformational space of the PSP problem.
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