Integrating protein structural dynamics and evolutionary analysis with Bio3D
Published 2014 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
Integrating protein structural dynamics and evolutionary analysis with Bio3D
Authors
Keywords
Protein structure, Protein dynamics, Allostery, Normal mode analysis, Molecular dynamics, Principal component analysis, Evolution
Journal
BMC BIOINFORMATICS
Volume 15, Issue 1, Pages -
Publisher
Springer Nature
Online
2014-12-10
DOI
10.1186/s12859-014-0399-6
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- Domain-Opening and Dynamic Coupling in the α-Subunit of Heterotrimeric G Proteins
- (2013) Xin-Qiu Yao et al. BIOPHYSICAL JOURNAL
- Evaluation of Protein Elastic Network Models Based on an Analysis of Collective Motions
- (2013) Edvin Fuglebakk et al. Journal of Chemical Theory and Computation
- PTRAJ and CPPTRAJ: Software for Processing and Analysis of Molecular Dynamics Trajectory Data
- (2013) Daniel R. Roe et al. Journal of Chemical Theory and Computation
- Divergent evolution of protein conformational dynamics in dihydrofolate reductase
- (2013) Gira Bhabha et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Effective Harmonic Potentials: Insights into the Internal Cooperativity and Sequence-Specificity of Protein Dynamics
- (2013) Yves Dehouck et al. PLoS Computational Biology
- Measuring and comparing structural fluctuation patterns in large protein datasets
- (2012) Edvin Fuglebakk et al. BIOINFORMATICS
- Determining Geometrically Stable Domains in Molecular Conformation Sets
- (2012) Julia Romanowska et al. Journal of Chemical Theory and Computation
- NMSim Web Server: integrated approach for normal mode-based geometric simulations of biologically relevant conformational transitions in proteins
- (2012) D. M. Kruger et al. NUCLEIC ACIDS RESEARCH
- An overview of the Amber biomolecular simulation package
- (2012) Romelia Salomon-Ferrer et al. Wiley Interdisciplinary Reviews-Computational Molecular Science
- ProDy: Protein Dynamics Inferred from Theory and Experiments
- (2011) A. Bakan et al. BIOINFORMATICS
- MAVENs: Motion analysis and visualization of elastic networks and structural ensembles
- (2011) Michael T Zimmermann et al. BMC BIOINFORMATICS
- Crystal structure of the β2 adrenergic receptor–Gs protein complex
- (2011) Søren G. F. Rasmussen et al. NATURE
- HMMER web server: interactive sequence similarity searching
- (2011) R. D. Finn et al. NUCLEIC ACIDS RESEARCH
- Structural flexibility of the G s -helical domain in the 2-adrenoceptor Gs complex
- (2011) G. H. Westfield et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Chaperonins: two rings for folding
- (2011) Hugo Yébenes et al. TRENDS IN BIOCHEMICAL SCIENCES
- Validating and improving elastic network models with molecular dynamics simulations
- (2010) Tod D. Romo et al. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
- Functional aspects of protein flexibility
- (2009) Kaare Teilum et al. CELLULAR AND MOLECULAR LIFE SCIENCES
- 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
- Dynamical networks in tRNA:protein complexes
- (2009) A. Sethi et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Sending Signals Dynamically
- (2009) R. G. Smock et al. SCIENCE
- Discovery Through the Computational Microscope
- (2009) Eric H. Lee et al. STRUCTURE
- Normal mode analysis for proteins
- (2008) Lars Skjaerven et al. JOURNAL OF MOLECULAR STRUCTURE-THEOCHEM
- Mapping the Nucleotide and Isoform-Dependent Structural and Dynamical Features of Ras Proteins
- (2008) Alemayehu A. Gorfe et al. STRUCTURE
Create your own webinar
Interested in hosting your own webinar? Check the schedule and propose your idea to the Peeref Content Team.
Create NowBecome a Peeref-certified reviewer
The Peeref Institute provides free reviewer training that teaches the core competencies of the academic peer review process.
Get Started