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DockBench: An integrated informatic platform bridging the gap between the robust validation of docking protocols and virtual screening simulations
(Molecular Diversity Preservation International, 2015-06-29)
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 potential drug candidates. Structure-based ...
COX Inhibition Profiles and Molecular Docking Studies of the Lignan Hinokinin and Some Synthetic Derivatives
(2018-01-01)
Encouraged by the anti-inflammatory activity of hinokinin in vivo, which is also observed for the analogues dinitrohinokinin and diidrocubebin, herein we used in vitro and in silico methods to assess their selectivity ...
Collective variable driven molecular dynamics to improve protein protein docking scoring
(Elsevier, 2013-12-28)
In biophysics, the structural prediction of protein–protein complexes starting from the unbound form of the two interacting monomers is a major difficulty. Although current computational docking protocols are able to ...
Vinardo: A scoring function based on autodock vina improves scoring, docking, and virtual screening
(Public Library of Science, 2016-05-12)
Autodock Vina is a very popular, and highly cited, open source docking program. Here we present a scoring function which we call Vinardo (Vina RaDii Optimized). Vinardo is based on Vina, and was trained through a novel ...
CONSTRUCAO, OTIMIZACAO E ANCORAGEM MOLECULAR DE SUBSTANCIAS BIOATIVAS EM BIOMACROMOLECULAS: UM TUTORIAL PRATICO
(Soc Brasileira Quimica, 2021-09-15)
CONSTRUCTION, OPTIMIZATION AND MOLECULAR DOCKING OF BIOACTIVE SUBSTANCES IN BIOMACROMOLECULES: A PRACTICAL TUTORIAL. In the last two decades, increasing advances in molecular biology and instrumental analysis for solving ...
New cholic acid derivatives: Biocatalytic synthesis and molecular docking study
(Elsevier Inc, 2016-03)
A series of cholic acid derivatives was synthesized by enzyme catalysis. Eleven acetyl and ester derivatives of cholic acid, eight of them new compounds, were obtained through regioselective lipase-catalyzed reactions in ...
Surface pressure-area isotherms for Langmuir monolayers and a docking molecular orientation of perylene tetracarboxylic derivatives on a water surface
(Spectroscopy Soc Canada, Ottawa, 2004-01-01)
The surface pressure-molecular area (pi-A) isotherms for Langmuir monolayers of four perylenetetracarboxylic (PTCD) derivatives, measured with varying subphase temperatures and compression speeds, are reported. The behavior ...
Surface pressure-area isotherms for Langmuir monolayers and a docking molecular orientation of perylene tetracarboxylic derivatives on a water surface
(2004-01-01)
The surface pressure-molecular area (π-A) isotherms for Langmuir monolayers of four perylenetetracarboxylic (PTCD) derivatives, measured with varying subphase temperatures and compression speeds, are reported. The behavior ...
Synthesis and Spectroscopic Analysis of Piperine- and Piperlongumine-Inspired Natural Product Scaffolds and Their Molecular Docking with IL-1 beta and NF-kappa B Proteins
(Mdpi, 2020-06-01)
Inspired by the remarkable bioactivities exhibited by the natural products, piperine and piperlongumine, we synthesised eight natural product-inspired analogues to further investigate their structures. For the first time, ...
Packing optimization for automated generation of complex system's initial configurations for molecular dynamics and docking
(John Wiley & Sons IncHobokenEUA, 2003)