Implementation of Alphafold 3 from Google Deepmind in Pytorch

PointSite: a point cloud segmentation tool for identification of protein ligand binding atoms

RoseTTAFold2 protein/nucleic acid complex prediction

This package contains deep learning models and related scripts for RoseTTAFold

Making Protein Design accessible to all via Google Colab!

User friendly and accurate binder design pipeline

Rifdock Library for Conformational Search

Protein hallucination and inpainting with RoseTTAFold

OFFICIAL: AnteChamber PYthon Parser interfacE

AFusion: AlphaFold 3 GUI & Toolkit with Visualization

AlphaFold 3 inference pipeline.

An open tool implementing some recommended practices for analyzing alchemical free energy calculations

Evolutionary Scale Modeling (esm): Pretrained language models for proteins

Trainable, memory-efficient, and GPU-friendly PyTorch reproduction of AlphaFold 2

Code for running RFdiffusion

Public RFDiffusionAA repo

Open source code for AlphaFold 2.

Automatic atomic model building program for cryo-EM maps

A generative model for programmable protein design

A sequence-based pan model for peptide-MHC II binding affinity prediction.

Official release of the ProGen models

Code for the paper "Machine Learning-Aided Design and Screening of an Emergent Protein Function in Synthetic Cells" published in Nature Communications