Poster reception---N-Body simulation on GPUs
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conference
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January 2006 |
Structure of the complex between adenylate kinase from Escherichia coli and the inhibitor Ap5A refined at 1.9 Å resolution
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journal
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March 1992 |
Ligand configurational entropy and protein binding
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journal
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January 2007 |
Molecular dynamics of ferrocytochrome c
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journal
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December 1981 |
Principal Component Analysis for Protein Folding Dynamics
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journal
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January 2009 |
Zipping and Unzipping of Adenylate Kinase: Atomistic Insights into the Ensemble of Open↔Closed Transitions
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journal
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November 2009 |
Robust probabilistic superposition and comparison of protein structures
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journal
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July 2010 |
A solution for the best rotation to relate two sets of vectors
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journal
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September 1976 |
Large Amplitude Conformational Change in Proteins Explored with a Plastic Network Model: Adenylate Kinase
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journal
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September 2005 |
NMR Identification of Transient Complexes Critical to Adenylate Kinase Catalysis
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journal
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November 2007 |
Clustering Molecular Dynamics Trajectories: 1. Characterizing the Performance of Different Clustering Algorithms
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journal
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October 2007 |
The energy landscapes and motions of proteins
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journal
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December 1991 |
Superimposition of protein structures with dynamically weighted RMSD
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journal
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July 2009 |
Evaluation and Reparametrization of the OPLS-AA Force Field for Proteins via Comparison with Accurate Quantum Chemical Calculations on Peptides †
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journal
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July 2001 |
Crystal structure of ADP/AMP complex of Escherichia coli adenylate kinase
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journal
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November 2005 |
Hierarchical analysis of conformational dynamics in biomolecules: Transition networks of metastable states
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journal
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April 2007 |
Noncooperative Folding of Subdomains in Adenylate Kinase †
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journal
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March 2009 |
High-Order Contrasts for Independent Component Analysis
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journal
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January 1999 |
Dynamic personalities of proteins
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journal
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December 2007 |
Scalable Algorithms for Molecular Dynamics Simulations on Commodity Clusters
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conference
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November 2006 |
Adenylate kinase motions during catalysis: an energetic counterweight balancing substrate binding
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journal
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February 1996 |
Biomolecular Modeling: Goals, Problems, Perspectives
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journal
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June 2006 |
A fast SHAKE algorithm to solve distance constraint equations for small molecules in molecular dynamics simulations
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journal
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January 2001 |
Insights into the Dynamics of HIV-1 Protease: A Kinetic Network Model Constructed from Atomistic Simulations
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journal
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June 2011 |
Robust online appearance models for visual tracking
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journal
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October 2003 |
A hierarchy of timescales in protein dynamics is linked to enzyme catalysis
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journal
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November 2007 |
Thermal motions and function of bacteriorhodopsin in purple membranes: effects of temperature and hydration studied by neutron scattering.
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journal
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October 1993 |
Crystal structures ofBacillus stearothermophilus adenylate kinase with bound Ap5A, Mg2+ Ap5A, and Mn2+ Ap5A reveal an intermediate lid position and six coordinate octahedral geometry for bound Mg2+ and Mn2+
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journal
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August 1998 |
Anton, a special-purpose machine for molecular dynamics simulation
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journal
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June 2007 |
Dynamical transition of myoglobin revealed by inelastic neutron scattering
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journal
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February 1989 |
Escherichia coli adenylate kinase dynamics: Comparison of elastic network model modes with mode-coupling 15N-NMR relaxation data
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journal
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July 2004 |
Atomistic protein folding simulations on the submillisecond time scale using worldwide distributed computing
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journal
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December 2002 |
Progress and challenges in the automated construction of Markov state models for full protein systems
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journal
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September 2009 |
Gaussian-Weighted RMSD Superposition of Proteins: A Structural Comparison for Flexible Proteins and Predicted Protein Structures
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journal
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June 2006 |
Linkage between dynamics and catalysis in a thermophilic-mesophilic enzyme pair
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journal
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August 2004 |
Evolutionarily Conserved Linkage between Enzyme Fold, Flexibility, and Catalysis
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journal
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November 2011 |
Empirical Bayes hierarchical models for regularizing maximum likelihood estimation in the matrix Gaussian Procrustes problem
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journal
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November 2006 |
Discovering Conformational Sub-States Relevant to Protein Function
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journal
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January 2011 |
Nonlinear elasticity, proteinquakes, and the energy landscapes of functional transitions in proteins
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journal
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October 2003 |
Towards microsecond biological molecular dynamics simulations on hybrid processors
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conference
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June 2010 |
Conformational Substates in Proteins
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journal
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June 1988 |
Apo Adenylate Kinase Encodes Its Holo Form: A Principal Component and Varimax Analysis
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journal
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February 2009 |
QAARM: quasi-anharmonic autoregressive model reveals molecular recognition pathways in ubiquitin
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journal
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June 2011 |
Conformational Transitions in Adenylate Kinase: ALLOSTERIC COMMUNICATION REDUCES MISLIGATION
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journal
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November 2007 |
Computational Identification of Slow Conformational Fluctuations in Proteins
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journal
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December 2009 |
Automated Event Detection and Activity Monitoring in Long Molecular Dynamics Simulations
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journal
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August 2009 |
On the Roles of Substrate Binding and Hinge Unfolding in Conformational Changes of Adenylate Kinase
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journal
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November 2010 |
Temperature-dependent X-ray diffraction as a probe of protein structural dynamics
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journal
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August 1979 |
Low-dimensional, free-energy landscapes of protein-folding reactions by nonlinear dimensionality reduction
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journal
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June 2006 |
Signaling pathways of PDZ2 domain: A molecular dynamics interaction correlation analysis
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journal
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January 2009 |
Kinetic analysis of molecular dynamics simulations reveals changes in the denatured state and switch of folding pathways upon single-point mutation of a β-sheet miniprotein
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journal
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September 2007 |
Anisotropy and anharmonicity of atomic fluctuations in proteins: implications for x-ray analysis
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journal
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May 1988 |
Using least median of squares for structural superposition of flexible proteins
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journal
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January 2009 |
Essential dynamics of proteins
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journal
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December 1993 |
Small- and Large-Scale Conformational Changes of Adenylate Kinase: A Molecular Dynamics Study of the Subdomain Motion and Mechanics
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journal
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December 2008 |
Many Local Motions Cooperate to Produce the Adenylate Kinase Conformational Transition
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journal
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July 2010 |
Method for estimating the configurational entropy of macromolecules
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journal
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March 1981 |
Molecular dynamics simulations of biomolecules
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journal
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September 2002 |
Harmonicity and anharmonicity in protein dynamics: A normal mode analysis and principal component analysis
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journal
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October 1995 |
Fluorescence and NMR investigations on the ligand binding properties of adenylate kinases
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journal
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August 1990 |
Computation of conformational transitions in proteins by virtual atom molecular mechanics as validated in application to adenylate kinase
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journal
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August 2009 |
Illuminating the mechanistic roles of enzyme conformational dynamics
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journal
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November 2007 |
Force field parametrization by weak coupling. Re-engineering SPC water
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journal
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January 1995 |
Crystalline ribonuclease A loses function below the dynamical transition at 220 K
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journal
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June 1992 |
LGA: a method for finding 3D similarities in protein structures
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journal
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July 2003 |
Independent component analysis: algorithms and applications
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journal
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June 2000 |
Overlap between folding and functional energy landscapes for adenylate kinase conformational change
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journal
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November 2010 |
Anisotropy and anharmonicity of atomic fluctuations in proteins: Analysis of a molecular dynamics simulation
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journal
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January 1987 |
Crystal structures of two mutants of adenylate kinase fromEscherichia coli that modify the Gly-loop
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journal
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January 1993 |
Dynameomics: A Comprehensive Database of Protein Dynamics
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journal
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March 2010 |
On-the-Fly Identification of Conformational Substates from Molecular Dynamics Simulations
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journal
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February 2011 |