Evaluation of predictions in the CASP10 model refinement category

Structure refinement of protein model decoys requires accurate side-chain placement

(2013) Mark A. Olson et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

3Drefine: Consistent protein structure refinement by optimizing hydrogen bonding network and atomic-level energy minimization

(2013) Debswapna Bhattacharya et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

CASP prediction center infrastructure and evaluation measures in CASP10 and CASP ROLL

(2013) Andriy Kryshtafovych et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Significant reduction in errors associated with nonbonded contacts in protein crystal structures: automated all-atom refinement withPrimeX

(2012) Jeffrey A. Bell et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

Elastic network normal modes provide a basis for protein structure refinement

(2012) Pawel Gniewek et al.   JOURNAL OF CHEMICAL PHYSICS

FlexE: Using Elastic Network Models to Compare Models of Protein Structure

(2012) Alberto Perez et al.   Journal of Chemical Theory and Computation

Protein Structure Refinement through Structure Selection and Averaging from Molecular Dynamics Ensembles

(2012) Vahid Mirjalili et al.   Journal of Chemical Theory and Computation

GRID: A high-resolution protein structure refinement algorithm

(2012) Mohsen Chitsaz et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Structure Refinement of Protein Low Resolution Models Using the GNEIMO Constrained Dynamics Method

(2012) In-Hee Park et al.   JOURNAL OF PHYSICAL CHEMISTRY B

The RCSB Protein Data Bank: new resources for research and education

(2012) Peter W. Rose et al.   NUCLEIC ACIDS RESEARCH

KoBaMIN: a knowledge-based minimization web server for protein structure refinement

(2012) J. P. G. L. M. Rodrigues et al.   NUCLEIC ACIDS RESEARCH

GalaxyWEB server for protein structure prediction and refinement

(2012) J. Ko et al.   NUCLEIC ACIDS RESEARCH

Comparison between self-guided Langevin dynamics and molecular dynamics simulations for structure refinement of protein loop conformations

(2011) Mark A. Olson et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

Automated protein structure modeling in CASP9 by I-TASSER pipeline combined with QUARK-based ab initio folding and FG-MD-based structure refinement

(2011) Dong Xu et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Refinement of protein termini in template-based modeling using conformational space annealing

(2011) Hahnbeom Park et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Assessment of protein structure refinement in CASP9

(2011) Justin L. MacCallum et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Atomic-Level Protein Structure Refinement Using Fragment-Guided Molecular Dynamics Conformation Sampling

(2011) Jian Zhang et al.   STRUCTURE

Reliable protein structure refinement using a physical energy function

(2010) Matthew S. Lin et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

MolProbity: all-atom structure validation for macromolecular crystallography

(2009) Vincent B. Chen et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

Assessment of the protein-structure refinement category in CASP8

(2009) Justin L. MacCallum et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

The other 90% of the protein: Assessment beyond the Cαs for CASP8 template-based and high-accuracy models

(2009) Daniel A. Keedy et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS