entity-protein

AutoDock Vina

A Molecular Topography MultiToolkit designed to simplify and streamline the detection, analysis, and characterization of protein pockets, cavities, channels, and binding sites.

EquiBind: geometric deep learning for fast predictions of the 3D structure in which a small molecule binds to a protein

A comprehensive library for computational molecular biology

Codes for our paper "Programming Biomolecular Interactions with All-Atom Generative Model"

Library for computing dynamic non-covalent contact networks in proteins throughout MD Simulation

Identification of Protein-Ligand Binding Sites using dipolar EPR data

Reduce - tool for adding and correcting hydrogens in PDB files

A dependency-free cross-platform swiss army knife for PDB files.

Official Github for "PharmacoNet: deep learning-guided pharmacophore modeling for ultra-large-scale virtual screening" (Chemical Science)

Molsystem provides a general class for handling molecular and periodic systems

MoleculeKit: Your favorite molecule manipulation kit

Jupyter Dock is a set of Jupyter Notebooks for performing molecular docking protocols interactively, as well as visualizing, converting file formats and analyzing the results.

A pocket volume analyzer for use in protein modeling.

Predicting protein-ligand binding sites using deep convolutional neural network

Consensus pharmacophore for Drug Design

This package contains deep learning models and related scripts for RoseTTAFold

An open library to work with pharmacophores.

fpocket is a very fast open source protein pocket detection algorithm based on Voronoi tessellation. The platform is suited for the scientific community willing to develop new scoring functions and extract pocket descriptors on a large scale level. fpocket is distributed as free open source software.