Search results for "Target fishing"

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Conf-VLKA: A structure-based revisitation of the Virtual Lock-and-key Approach

2016

In a previous work, we developed the in house Virtual Lock-and-Key Approach (VLKA) in order to evaluate target assignment starting from molecular descriptors calculated on known inhibitors used as an information source. This protocol was able to predict the correct biological target for the whole dataset with a good degree of reliability (80%), and proved experimentally, which was useful for the target fishing of unknown compounds. In this paper, we tried to remodel the previous in house developed VLKA in a more sophisticated one in order to evaluate the influence of 3D conformation of ligands on the accuracy of the prediction. We applied the same previous algorithm of scoring and ranking b…

0301 basic medicineMaterials Chemistry2506 Metals and AlloysInhibitorStructure-basedComputer scienceProtein ConformationProtein Data Bank (RCSB PDB)Molecular ConformationTarget fishingMolecular Dynamics Simulationcomputer.software_genreLigands01 natural sciencesDockingVlka03 medical and health sciencesMolecular descriptorMaterials ChemistryHumansPhysical and Theoretical ChemistryCluster analysisDatabases ProteinSimulationSpectroscopyBinding SitesProteinscomputer.file_formatDescriptorProtein Data BankComputer Graphics and Computer-Aided Design0104 chemical sciencesMolecular Docking Simulation010404 medicinal & biomolecular chemistry030104 developmental biologyProtein–ligand dockingBiological targetDocking (molecular)Biological targetStructure basedLigand-basedData miningcomputerAlgorithmsSoftwareProtein Binding
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