4.6 Article

ProteinVolume: calculating molecular van der Waals and void volumes in proteins

Related references

Note: Only part of the references are listed.
Article Biochemical Research Methods

GROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit

Sander Pronk et al.

BIOINFORMATICS (2013)

Article Multidisciplinary Sciences

Cavities determine the pressure unfolding of proteins

Julien Roche et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2012)

Article Biochemistry & Molecular Biology

Statistical analysis of protein structures suggests that buried ionizable residues in proteins are hydrogen bonded or form salt bridges

Jeffrey Bush et al.

PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2011)

Article Biochemistry & Molecular Biology

Energetics of charge-charge interactions between residues adjacent in sequence

Vakhtang V. Loladze et al.

PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS (2011)

Article Biochemistry & Molecular Biology

McVol - A program for calculating protein volumes and identifying cavities by a Monte Carlo algorithm

Mirco S. Till et al.

JOURNAL OF MOLECULAR MODELING (2010)

Article Biochemistry & Molecular Biology

3V: cavity, channel and cleft volume calculator and extractor

Neil R. Voss et al.

NUCLEIC ACIDS RESEARCH (2010)

Article Biochemistry & Molecular Biology

Universal Convergence of the Specific Volume Changes of Globular Proteins upon Unfolding

Katrina L. Schweiker et al.

BIOCHEMISTRY (2009)

Review Chemistry, Multidisciplinary

CHARMM: The Biomolecular Simulation Program

B. R. Brooks et al.

JOURNAL OF COMPUTATIONAL CHEMISTRY (2009)

Article Biochemistry & Molecular Biology

Voronoia: analyzing packing in protein structures

Kristian Rother et al.

NUCLEIC ACIDS RESEARCH (2009)

Article Chemistry, Physical

On the molecular origins of volumetric data

Tigran V. Chalikian

JOURNAL OF PHYSICAL CHEMISTRY B (2008)

Article Biochemistry & Molecular Biology

Analysis of void volumes in proteins and application to stability of the p53 tumour suppressor protein

AL Cuff et al.

JOURNAL OF MOLECULAR BIOLOGY (2004)

Article Biochemistry & Molecular Biology

VADAR: a web server for quantitative evaluation of protein structure quality

L Willard et al.

NUCLEIC ACIDS RESEARCH (2003)

Article Multidisciplinary Sciences

The weighted-volume derivative of a space-filling diagram

H Edelsbrunner et al.

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2003)

Review Biochemistry & Molecular Biology

Evolutionary aspects of protein structure and folding

EN Trifonov et al.

CURRENT OPINION IN STRUCTURAL BIOLOGY (2003)

Review Biochemistry & Molecular Biology

Revisiting volume changes in pressure-induced protein unfolding

CA Royer

BIOCHIMICA ET BIOPHYSICA ACTA-PROTEIN STRUCTURE AND MOLECULAR ENZYMOLOGY (2002)

Article Biochemistry & Molecular Biology

Protein packing: Dependence on protein size, secondary structure and amino acid composition

PJ Fleming et al.

JOURNAL OF MOLECULAR BIOLOGY (2000)