Improving the quality of a given protein structure can serve as the ultimate solution for
accurate protein structure prediction, and seeking such a method is currently a challenge in …

Protein structure prediction has matured over years, particularly those which use structure
templates for building a model. It can build a model with correct overall conformation in …

Protein structures are essential in modern biology yet experimental methods are far from
being able to catch up with the rapid increase in available genomic data. Computational …

Protein structure refinement during CASP11 by the Feig group was described. Molecular
dynamics simulations were used in combination with an improved selection and averaging …

We used molecular dynamics (MD) simulations for structure refinement of Critical
Assessment of Techniques for Protein Structure Prediction 10 (CASP10) targets. Refinement …

Advances in protein model refinement techniques are required as diverse sources of protein
structure information are available from low‐resolution experiments or informatics‐based …

For protein structure modeling in the CASP12 experiment, we have developed a new
protocol based on our previous CASP11 approach. The global optimization method of …

Refinement of protein structure models is a long-standing problem in structural
bioinformatics. Molecular dynamics-based methods have emerged as an avenue to achieve …

Protein model refinement has been an essential part of successful protein structure
prediction. Molecular dynamics simulation‐based refinement methods have shown …

One of the major limitations of computational protein structure prediction is the deviation of
predicted models from their experimentally derived true, native structures. The limitations …