Too packed to change: side-chain packing and site-specific substitution rates in protein evolution

RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

(2014) Alexandros Stamatakis   BIOINFORMATICS

A mechanistic stress model of protein evolution accounts for site-specific evolutionary rates and their relationship with packing density and flexibility

(2014) Tsun-Tsao Huang et al.   BMC EVOLUTIONARY BIOLOGY

Predicting Evolutionary Site Variability from Structure in Viral Proteins: Buriedness, Packing, Flexibility, and Design

(2014) Amir Shahmoradi et al.   JOURNAL OF MOLECULAR EVOLUTION

Biophysics of protein evolution and evolutionary protein biophysics

(2014) T. Sikosek et al.   Journal of the Royal Society Interface

Local Packing Density Is the Main Structural Determinant of the Rate of Protein Sequence Evolution at Site Level

(2014) So-Wei Yeh et al.   Biomed Research International

Site-Specific Structural Constraints on Protein Sequence Evolutionary Divergence: Local Packing Density versus Solvent Exposure

(2013) So-Wei Yeh et al.   MOLECULAR BIOLOGY AND EVOLUTION

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Maximum Allowed Solvent Accessibilites of Residues in Proteins

(2013) Matthew Z. Tien et al.   PLoS One

The interface of protein structure, protein biophysics, and molecular evolution

(2012) David A. Liberles et al.   PROTEIN SCIENCE

Evolutionary information hidden in a single protein structure

(2012) Chien-Hua Shih et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

The Relationship Between Relative Solvent Accessibility and Evolutionary Rate in Protein Evolution

(2011) Duncan C. Ramsey et al.   GENETICS

Solvent Exposure Imparts Similar Selective Pressures across a Range of Yeast Proteins

(2009) G. C. Conant et al.   MOLECULAR BIOLOGY AND EVOLUTION

Structural Determinants of Protein Evolution Are Context-Sensitive at the Residue Level

(2009) E. A. Franzosa et al.   MOLECULAR BIOLOGY AND EVOLUTION

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

A perturbative view of protein structural variation

(2009) Julián Echave et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Evolutionary divergence of protein structure: The linearly forced elastic network model

(2008) Julián Echave   CHEMICAL PHYSICS LETTERS

Deriving protein dynamical properties from weighted protein contact number

(2008) Chih-Peng Lin et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS