From Isotropic to Anisotropic Side Chain Representations: Comparison of Three Models for Residue Contact Estimation

Understanding on the residue contact network using the log-normal cluster model and the multilevel wheel diagram

(2010) Weitao Sun et al.   BIOPOLYMERS

Structure prediction for the helical skeletons detected from the low resolution protein density map

(2010) Kamal Al Nasr et al.   BMC BIOINFORMATICS

Statistical potentials for fold assessment

(2010) Francisco Melo et al.   PROTEIN SCIENCE

MolProbity: all-atom structure validation for macromolecular crystallography

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

Reduction of the secondary structure topological space through direct estimation of the contact energy formed by the secondary structures

(2009) Weitao Sun et al.   BMC BIOINFORMATICS

Analysis of protein folds using protein contact networks

(2009) Pankaj Barah et al.   PRAMANA-JOURNAL OF PHYSICS

Protein elastic network models and the ranges of cooperativity

(2009) L. Yang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Native secondary structure topology has near minimum contact energy among all possible geometrically constrained topologies

(2009) Weitao Sun et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Four Distances between Pairs of Amino Acids Provide a Precise Description of their Interaction

(2009) Mati Cohen et al.   PLoS Computational Biology

Proteins As Networks: Usefulness of Graph Theory in Protein Science

(2008) Alessandro Giuliani et al.   CURRENT PROTEIN & PEPTIDE SCIENCE

Identifying folding nucleus based on residue contact networks of proteins

(2008) Jie Li et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

OPUS-PSP: An Orientation-dependent Statistical All-atom Potential Derived from Side-chain Packing

(2007) Mingyang Lu et al.   JOURNAL OF MOLECULAR BIOLOGY

Distance-scaled, finite ideal-gas reference state improves structure-derived potentials of mean force for structure selection and stability prediction

(2002) Hongyi Zhou et al.   PROTEIN SCIENCE