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PrankWeb: Ligand Binding Site Prediction. PrankWeb builds upon P2Rank a machine learning-based method for prediction of ligand binding sites from protein structure. Please help us make PrankWeb better by answering 5 simple questions in our questionnaire.
PrankWeb is a web-based application that allows to predict and visualize protein-ligand binding sites. Furthermore, it allows to compare the location of predicted pockets with highly conserved areas as well as actual ligand binding sites.
We developed several ways how to calculate homology, and used it to improve detection of protein-ligand binding sites. Here we present PrankWeb, a modern web application for structure and sequence visualization of a protein and its protein-ligand binding sites as well as evolutionary homology.
Jul 2, 2019 · PrankWeb is an online resource providing an interface to P2Rank, a state-of-the-art method for ligand binding site prediction. P2Rank is a template-free machine learning method based on the prediction of local chemical neighborhood ligandability centered on points placed on a solvent-accessible prot ….
May 24, 2022 · PrankWeb has allowed its users to enter a 3D structure as a Protein Data Bank (PDB) file or using a PDB identifier, carried out evolutionary conservation analysis, predicted the LBSs using P2Rank, and enabled visual examination of the results. This paper introduces PrankWeb 3, an improved version of the resource.
P2Rank is a stand-alone command line program that predicts ligand binding pockets from a protein structure. It achieves high prediction success rates without relying on an external software for computation of complex features or on a database of known protein-ligand templates.
Prankweb online is a web frontend for P2Rank a protein-ligand binding site prediction tool based on machine learning. You can run: P2Rank on your computer using Docker .
May 22, 2019 · P2Rank is a template-free machine learning method based on the prediction of local chemical neighborhood ligandability centered on points placed on a solvent-accessible protein surface. Points...
Jul 5, 2022 · Knowledge of protein-ligand binding sites (LBSs) enables research ranging from protein function annotation to structure-based drug design. To this end, we have previously developed a stand-alone tool, P2Rank, and the web server PrankWeb (https://prankweb.cz/) for fast and accurate LBS prediction.
May 22, 2019 · PrankWeb is an online resource providing an interface to P2Rank, a state-of-the-art method for ligand binding site prediction. P2Rank is a template-free machine learning method based on the prediction of local chemical neighborhood ligandability centered on points placed on a solvent-accessible protein surface.
