Visualization of a missing link in retrovirus capsid assembly
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journal
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February 2009 |
Improved Treatment of Ligands and Coupling Effects in Empirical Calculation and Rationalization of p K a Values
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journal
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June 2011 |
Twenty-five years of nucleic acid simulations
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journal
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June 2013 |
Representation of Ion–Protein Interactions Using the Drude Polarizable Force-Field
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journal
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September 2014 |
Virus assembly, allostery and antivirals
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journal
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January 2011 |
Constant pH Molecular Dynamics Reveals pH-Modulated Binding of Two Small-Molecule BACE1 Inhibitors
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journal
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February 2016 |
AutoDock4 and AutoDockTools4: Automated docking with selective receptor flexibility
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journal
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December 2009 |
Physical Principles in the Construction of Regular Viruses
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journal
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January 1962 |
Recent Advances in Polarizable Force Fields for Macromolecules: Microsecond Simulations of Proteins Using the Classical Drude Oscillator Model
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journal
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September 2014 |
Hepatitis B virus and Homo sapiens proteomewide analysis: A profusion of viral peptide overlaps in neuron-specific human proteins
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journal
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April 2010 |
Compensatory Substitutions in the HIV-1 Capsid Reduce the Fitness Cost Associated with Resistance to a Capsid-Targeting Small-Molecule Inhibitor
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journal
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October 2014 |
Systematic Parametrization of Polarizable Force Fields from Quantum Chemistry Data
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journal
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November 2012 |
Contributions of Charged Residues in Structurally Dynamic Capsid Surface Loops to Rous Sarcoma Virus Assembly
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journal
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April 2016 |
Mature HIV-1 capsid structure by cryo-electron microscopy and all-atom molecular dynamics
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journal
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May 2013 |
The SAMPL4 host–guest blind prediction challenge: an overview
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journal
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March 2014 |
A heteroaryldihydropyrimidine activates and can misdirect hepatitis B virus capsid assembly
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journal
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May 2005 |
The ligand binding mechanism to purine nucleoside phosphorylase elucidated via molecular dynamics and machine learning
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journal
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January 2015 |
Structural basis of HIV-1 capsid recognition by PF74 and CPSF6
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journal
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December 2014 |
HIV-1 uncoating: connection to nuclear entry and regulation by host proteins
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journal
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April 2014 |
Using Situs for the integration of multi-resolution structures
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journal
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January 2010 |
Automation of the CHARMM General Force Field (CGenFF) I: Bond Perception and Atom Typing
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journal
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November 2012 |
Computation-Guided Discovery of Influenza Endonuclease Inhibitors
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journal
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November 2013 |
CHARMM general force field: A force field for drug-like molecules compatible with the CHARMM all-atom additive biological force fields
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journal
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January 2009 |
Molecular Architecture of the Retroviral Capsid
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journal
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May 2016 |
MATCH: An atom-typing toolset for molecular mechanics force fields
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journal
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November 2011 |
Classical Electrostatics for Biomolecular Simulations
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journal
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August 2013 |
Constant-pH Hybrid Nonequilibrium Molecular Dynamics–Monte Carlo Simulation Method
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journal
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July 2015 |
X-Ray Structures of the Hexameric Building Block of the HIV Capsid
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journal
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June 2009 |
Rapid parameterization of small molecules using the force field toolkit
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journal
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September 2013 |
Molecular Dynamics Simulations of Nucleic Acids. From Tetranucleotides to the Ribosome
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journal
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May 2014 |
Development and testing of a general amber force field
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journal
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January 2004 |
Small-Molecule Effectors of Hepatitis B Virus Capsid Assembly Give Insight into Virus Life Cycle
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journal
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August 2008 |
Automation of the CHARMM General Force Field (CGenFF) II: Assignment of Bonded Parameters and Partial Atomic Charges
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journal
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November 2012 |
HIV-1 assembly, release and maturation
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journal
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June 2015 |
Residue-level resolution of alphavirus envelope protein interactions in pH-dependent fusion
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journal
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February 2015 |
UCSF Chimera?A visualization system for exploratory research and analysis
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journal
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January 2004 |
Flexible Fitting of Atomic Structures into Electron Microscopy Maps Using Molecular Dynamics
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journal
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May 2008 |
Structural Convergence between Cryo-EM and NMR Reveals Intersubunit Interactions Critical for HIV-1 Capsid Function
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journal
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November 2009 |
Atomic-level modelling of the HIV capsid
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journal
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January 2011 |
Molecular dynamics simulations and drug discovery
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journal
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October 2011 |
Two Pathways Mediate Interdomain Allosteric Regulation in Pin1
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journal
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January 2015 |
Characterization of Poliovirus Variants Selected for Resistance to the Antiviral Compound V-073
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journal
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August 2012 |
HIV-1 capsid: the multifaceted key player in HIV-1 infection
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journal
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July 2015 |
The future of molecular dynamics simulations in drug discovery
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journal
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December 2011 |
Neuraminidase Inhibitors for Influenza
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journal
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September 2005 |
Comparative Protein Structure Modeling Using Modeller
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journal
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September 2006 |
Host Cofactors and Pharmacologic Ligands Share an Essential Interface in HIV-1 Capsid That Is Lost upon Disassembly
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journal
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October 2014 |
The Future of HIV-1 Therapeutics: Resistance Is Futile?
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book
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January 2015 |
All-atom polarizable force field for DNA based on the classical drude oscillator model
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journal
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April 2014 |
Defining Hsp70 Subnetworks in Dengue Virus Replication Reveals Key Vulnerability in Flavivirus Infection
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journal
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November 2015 |
Global Structural Changes in Hepatitis B Virus Capsids Induced by the Assembly Effector HAP1
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journal
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August 2006 |
HIV Capsid is a Tractable Target for Small Molecule Therapeutic Intervention
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journal
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December 2010 |
X-ray crystal structures of native HIV-1 capsid protein reveal conformational variability
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journal
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June 2015 |
Dynamic allostery governs cyclophilin A–HIV capsid interplay
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journal
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November 2015 |
Polarizable Atomic Multipole-Based AMOEBA Force Field for Proteins
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journal
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August 2013 |
Macromolecular Modeling with Rosetta
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journal
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June 2008 |
Magic Angle Spinning NMR Reveals Sequence-Dependent Structural Plasticity, Dynamics, and the Spacer Peptide 1 Conformation in HIV-1 Capsid Protein Assemblies
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journal
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November 2013 |
Capsid proteins of enveloped viruses as antiviral drug targets
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journal
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April 2014 |
pH-REMD Simulations Indicate That the Catalytic Aspartates of HIV-1 Protease Exist Primarily in a Monoprotonated State
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journal
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October 2014 |
Molecular dynamics simulations of large macromolecular complexes
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journal
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April 2015 |
Cyclophilin A stabilizes the HIV-1 capsid through a novel non-canonical binding site
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journal
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March 2016 |
A model for cofactor use during HIV-1 reverse transcription and nuclear entry
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journal
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February 2014 |
Toward Improved Force-Field Accuracy through Sensitivity Analysis of Host-Guest Binding Thermodynamics
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journal
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July 2015 |
ViennaRNA Package 2.0
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journal
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November 2011 |
VIPERdb2: an enhanced and web API enabled relational database for structural virology
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journal
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January 2009 |
Constant pH molecular dynamics of proteins in explicit solvent with proton tautomerism: Explicit Solvent CPHMD of Proteins
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journal
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January 2014 |
Dynamical networks in tRNA:protein complexes
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journal
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April 2009 |
NetworkView: 3D display and analysis of protein{middle dot}RNA interaction networks
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journal
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September 2012 |
Computational approaches to mapping allosteric pathways
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journal
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April 2014 |
H++ 3.0: automating pK prediction and the preparation of biomolecular structures for atomistic molecular modeling and simulations
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journal
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May 2012 |
Atomic Modeling of an Immature Retroviral Lattice Using Molecular Dynamics and Mutagenesis
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journal
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August 2015 |
Rational Prediction with Molecular Dynamics for Hit Identification
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journal
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September 2012 |
Small-Molecule Inhibition of Human Immunodeficiency Virus Type 1 Infection by Virus Capsid Destabilization
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journal
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October 2010 |
Cyclophilin A: a key player for human disease
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journal
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October 2013 |
Systematic Improvement of a Classical Molecular Model of Water
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journal
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August 2013 |
VMD: Visual molecular dynamics
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journal
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February 1996 |
Constant pH Replica Exchange Molecular Dynamics in Explicit Solvent Using Discrete Protonation States: Implementation, Testing, and Validation
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journal
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February 2014 |