PoseBusters: AI-based docking methods fail to generate physically valid poses or generalise to novel sequences
The last few years have seen the development of numerous deep learning-based protein–
ligand docking methods. They offer huge promise in terms of speed and accuracy. However …
ligand docking methods. They offer huge promise in terms of speed and accuracy. However …
Advances in computational techniques to study GPCR–ligand recognition
G-protein-coupled receptors (GPCRs) are among the most intensely investigated drug
targets. The recent revolutions in protein engineering and molecular modeling algorithms …
targets. The recent revolutions in protein engineering and molecular modeling algorithms …
Adenosine A2A receptor as a potential drug target-current status and future perspectives
OHA Al-Attraqchi, M Attimarad… - Current …, 2019 - ingentaconnect.com
Adenosine receptors (ARs) are a class of G-protein coupled receptors (GPCRs) that are
activated by the endogenous substance adenosine. ARs are classified into 4 subtype …
activated by the endogenous substance adenosine. ARs are classified into 4 subtype …
DockBench: an integrated informatic platform bridging the gap between the robust validation of docking protocols and virtual screening simulations
Virtual screening (VS) is a computational methodology that streamlines the drug discovery
process by reducing costs and required resources through the in silico identification of …
process by reducing costs and required resources through the in silico identification of …
Can we still trust docking results? An extension of the applicability of DockBench on PDBbind database
The number of entries in the Protein Data Bank (PDB) has doubled in the last decade, and it
has increased tenfold in the last twenty years. The availability of an ever-growing number of …
has increased tenfold in the last twenty years. The availability of an ever-growing number of …
A deep-learning approach toward rational molecular docking protocol selection
J Jiménez-Luna, A Cuzzolin, G Bolcato, M Sturlese… - Molecules, 2020 - mdpi.com
While a plethora of different protein–ligand docking protocols have been developed over the
past twenty years, their performances greatly depend on the provided input protein–ligand …
past twenty years, their performances greatly depend on the provided input protein–ligand …
Computational methods for studying G protein-coupled receptors (GPCRs)
The functioning of GPCRs is classically described by the ternary complex model as the
interplay of three basic components: a receptor, an agonist, and a G protein. According to …
interplay of three basic components: a receptor, an agonist, and a G protein. According to …
Comparison of the Human A2A Adenosine Receptor Recognition by Adenosine and Inosine: New Insight from Supervised Molecular Dynamics Simulations
Adenosine deaminase converts adenosine into inosine. In contrast to adenosine, relatively
little attention has been paid to the physiological roles of inosine. Nevertheless, recent …
little attention has been paid to the physiological roles of inosine. Nevertheless, recent …
Ligand pose predictions for human G protein-coupled receptors: insights from the Amber-based hybrid Molecular Mechanics/Coarse-Grained approach
J Schneider, K Korshunova, Z Si Chaib… - Journal of chemical …, 2020 - ACS Publications
Human G protein-coupled receptors (hGPCRs) are the most frequent targets of Food and
Drug Administration (FDA)-approved drugs. Structural bioinformatics, along with molecular …
Drug Administration (FDA)-approved drugs. Structural bioinformatics, along with molecular …
One class classification for the detection of β2 adrenergic receptor agonists using single-ligand dynamic interaction data
L Chiesa, E Kellenberger - Journal of Cheminformatics, 2022 - Springer
G protein-coupled receptors are involved in many biological processes, relaying the
extracellular signal inside the cell. Signaling is regulated by the interactions between …
extracellular signal inside the cell. Signaling is regulated by the interactions between …