Angiotensin converting enzyme 2 (ACE2) plays a key role in renin-angiotensin system (RAS) regulation, amino acid homeostasis and acts as a severe acute respiratory syndrome-coronavirus (SARS-CoV and SARS-CoV2) receptor…
Adenosine A1 receptor (A1AR) is a G-protein-coupled receptor (GPCR) that has served as an important drug target. Activation of the A1AR is able to protect the myocardium against ischemia-reperfusion injury and reduce neuropathic pain…
Biomolecular recognition such as binding of small molecules and flexible peptides to target proteins plays key roles in cellular function. It is critical to characterize thermodynamics and kinetics of biomolecular recognition for drug design…
Amyloid β-peptide, the principal component of characteristic cerebral plaques of Alzheimer’s disease (AD), is produced through intramembrane proteolysis of the amyloid precursor protein (APP) by γ-secretase…
Gaussian accelerated molecular dynamics (GaMD) is a robust enhanced sampling technique that works by applying a harmonic boost potential to reduce system energy barriers and accelerate biomolecular simulations by orders of magnitude…
INTRODUCTION: Molecular dynamics (MD) is a powerful computational technique for simulating biomolecular dynamics at an atomistic level. Gaussian accelerated molecular dynamics (GaMD) is an unconstrained enhanced sampling technique that allows for accurate free energy calculations…
G-protein-coupled receptors (GPCRs) are the largest superfamily of human membrane proteins and represent primary targets of ~1/3 of currently marketed drugs. Allosteric modulators have emerged as more selective drug candidates compared with orthosteric agonist and antagonist ligands…
G-protein-coupled receptors (GPCRs) are the largest superfamily of human membrane proteins and represent primary targets of ~1/3 of currently marketed drugs. Allosteric modulators have emerged as more selective drug candidates compared with orthosteric agonist and antagonist ligands…
G-protein-coupled receptors (GPCRs) are the largest superfamily of human membrane proteins and represent primary targets of ~1/3 of currently marketed drugs. Allosteric modulators have emerged as more selective drug candidates compared with orthosteric agonist and antagonist ligands…
G-protein-coupled receptors (GPCRs) are the largest superfamily of human membrane proteins and represent primary targets of ~1/3 of currently marketed drugs. Allosteric modulators have emerged as more selective drug candidates compared with orthosteric agonist and antagonist ligands…
G-protein-coupled receptors (GPCRs) are the largest superfamily of human membrane proteins and represent primary targets of ~1/3 of currently marketed drugs. Allosteric modulators have emerged as more selective drug candidates compared with orthosteric agonist and antagonist ligands…
Molecular dynamics (MD) is a powerful computational technique for biomolecular simulations. Deep learning (DL) has been applied to enhance MD simulations and further automate the technique…
Biomolecular simulations often suffer from insufficient conformational sampling, due to long timescales and high energy barriers of biological processes. I will present our recent efforts in developing new accelerated simulation and Deep Learning (DL) techniques to address this challenge…
G-protein-coupled receptors (GPCRs) represent the largest superfamily of human membrane proteins with >800 members and serve as primary targets of about 1/3 of currently marketed drugs…
Ligand binding thermodynamics and kinetics are critical parameters for drug design. However, it has proven challenging to efficiently predict ligand binding thermodynamics and kinetics from molecular simulations due to limited simulation timescales…
The COVID-19 pandemic, driven by SARS-CoV-2, has spurred an urgent need for effective therapeutic interventions. The spike glycoprotein of the SARS-CoV-2 is crucial for infiltrating host cells, rendering it a key candidate for drug development…
It is critical to predict binding thermodynamics and kinetics of biomolecules for effective therapeutic design. However, such task has proven challenging for particularly conventional Molecular Dynamics (MD), due to limited simulation timescales…
Gaussian accelerated Molecular Dynamics (GaMD) is an enhanced sampling computational technique that works by applying a harmonic boost potential to reduce system energy barriers and accelerate molecular dynamics simulations by orders of magnitude…
Gaussian accelerated Molecular Dynamics (GaMD) is a robust unconstrained enhanced sampling technique for free energy calculations of large biomolecules…