An evaluation of combined strategies for improving the performance of molecular docking
S Xu, L Wang, X Pan - Journal of bioinformatics and computational …, 2021 - World Scientific
Molecular docking is a fast and efficient computational method for the prediction of the
binding mode and binding affinity between a ligand and a target protein at the atomic level …
binding mode and binding affinity between a ligand and a target protein at the atomic level …
The movable type method applied to protein–ligand binding
Accurately computing the free energy for biological processes like protein folding or protein–
ligand association remains a challenging problem. Both describing the complex …
ligand association remains a challenging problem. Both describing the complex …
Mapping enzyme-substrate interactions: Its potential to study the mechanism of enzymes
With the increase of the need to use more sustainable processes for the industry in our
society, the modeling of enzymes has become crucial to fully comprehend their mechanism …
society, the modeling of enzymes has become crucial to fully comprehend their mechanism …
Yada: a novel tool for molecular docking calculations
Molecular docking is a computational method employed to estimate the binding between a
small ligand (the drug candidate) and a protein receptor that has become a standard part of …
small ligand (the drug candidate) and a protein receptor that has become a standard part of …
Generation of pairwise potentials using multidimensional data mining
The rapid development of molecular structural databases provides the chemistry community
access to an enormous array of experimental data that can be used to build and validate …
access to an enormous array of experimental data that can be used to build and validate …
Crystal structure of SsfS6, the putative C‐glycosyltransferase involved in SF2575 biosynthesis
The molecule known as SF2575 from Streptomyces sp. is a tetracycline polyketide natural
product that displays antitumor activity against murine leukemia P388 in vivo. In the SF2575 …
product that displays antitumor activity against murine leukemia P388 in vivo. In the SF2575 …
In silico evidence of bitopertin's broad interactions within the SLC6 transporter family
GA de Carvalho, PM Tambwe… - Journal of Pharmacy …, 2024 - academic.oup.com
Abstract The Glycine Transporter Type 1 (GlyT1) significantly impacts central nervous
system functions, influencing glycinergic and glutamatergic neurotransmission. Bitopertin …
system functions, influencing glycinergic and glutamatergic neurotransmission. Bitopertin …
Prediction of substrates for glutathione transferases by covalent docking
GQ Dong, S Calhoun, H Fan… - Journal of chemical …, 2014 - ACS Publications
Enzymes in the glutathione transferase (GST) superfamily catalyze the conjugation of
glutathione (GSH) to electrophilic substrates. As a consequence they are involved in a …
glutathione (GSH) to electrophilic substrates. As a consequence they are involved in a …
Overview of free software developed for designing drugs based on protein-small molecules interaction
One of the fundamental challenges in designing drug molecule against a disease target or
protein is to predict binding affinity between target and drug or small molecule. In this review …
protein is to predict binding affinity between target and drug or small molecule. In this review …
Evaluation of 11 scoring functions performance on matrix metalloproteinases
J Shamsara - International Journal of Medicinal Chemistry, 2014 - Wiley Online Library
Matrix metalloproteinases (MMPs) have distinctive roles in various physiological and
pathological processes such as inflammatory diseases and cancer. This study explored the …
pathological processes such as inflammatory diseases and cancer. This study explored the …