Modeling Structures and Motions of Loops in Protein Molecules

Sampling Multiple Scoring Functions Can Improve Protein Loop Structure Prediction Accuracy

(2011) Yaohang Li et al.   Journal of Chemical Information and Modeling

Assessing Protein Loop Flexibility by Hierarchical Monte Carlo Sampling

(2011) Jerome Nilmeier et al.   Journal of Chemical Theory and Computation

The FALC-Loop web server for protein loop modeling

(2011) J. Ko et al.   NUCLEIC ACIDS RESEARCH

KINARI-Web: a server for protein rigidity analysis

(2011) N. Fox et al.   NUCLEIC ACIDS RESEARCH

Mastering the Canonical Loop of Serine Protease Inhibitors: Enhancing Potency by Optimising the Internal Hydrogen Bond Network

(2011) Joakim E. Swedberg et al.   PLoS One

Sampling-based exploration of folded state of a protein under kinematic and geometric constraints

(2011) Peggy Yao et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Near-Native Protein Loop Sampling Using Nonparametric Density Estimation Accommodating Sparcity

(2011) Hyun Joo et al.   PLoS Computational Biology

Multiple copy sampling in protein loop modeling: Computational efficiency and sensitivity to dihedral angle perturbations

(2010) Qiang Zheng et al.   PROTEIN SCIENCE

Generating stereochemically acceptable protein pathways

(2010) Daniel W. Farrell et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Protein loop modeling by using fragment assembly and analytical loop closure

(2010) Julian Lee et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Loop residues of the receptor binding domain ofBacillus thuringiensisCry11Ba toxin are important for mosquitocidal activity

(2009) Supaporn Likitvivatanavong et al.   FEBS LETTERS

Sub-angstrom accuracy in protein loop reconstruction by robotics-inspired conformational sampling

(2009) Daniel J Mandell et al.   NATURE METHODS

Detection of Functional Modes in Protein Dynamics

(2009) Jochen S. Hub et al.   PLoS Computational Biology

A Self-Organizing Algorithm for Modeling Protein Loops

(2009) Pu Liu et al.   PLoS Computational Biology

Toward better refinement of comparative models: Predicting loops in inexact environments

(2008) Benjamin D. Sellers et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Coarse-grained models of protein folding: toy models or predictive tools?

(2007) Cecilia Clementi   CURRENT OPINION IN STRUCTURAL BIOLOGY