Predict 3D structures of proteins, nucleic acids, and ligands with OpenFold3.
npx skills add https://github.com/PKU-YuanGroup/OpenAI4S --skill openfold3-pku-yuangroup
Please help me install this Agent Skill. Skill: openfold3 Source: https://github.com/PKU-YuanGroup/OpenAI4S/tree/main/skills/openfold3 Command: npx skills add https://github.com/PKU-YuanGroup/OpenAI4S --skill openfold3-pku-yuangroup
This Skill solves the problem of accurately predicting complex structures of proteins, nucleic acids, and ligands by leveraging OpenFold3, an open-source reproduction of AlphaFold3.
Run the OpenFold3 skill with the following command:
run_openfold predict --query_json=queries.json --output-dir out/
High-intent search queries and answers about installing and using this skill.
You can predict protein and ligand complex structures using OpenFold3, an open-source reproduction of AlphaFold3. It accurately models 3D structures of proteins, nucleic acids, and ligands via JSON orchestration and Python execution in persistent kernels.
The best way to run protein structure prediction is using the OpenFold3 skill with a JSON query file. Execute `run_openfold predict --query_json=queries.json --output-dir out/` to generate 3D structural outputs for bioinformatics research.
Yes, you need a GPU to process nucleic acid and ligand structure predictions with OpenFold3. GPU acceleration is required to handle the complex computations involved in accurately modeling these 3D molecular structures.
Yes, you can use OpenFold3 for drug discovery and nucleic acid structure prediction. It is an Apache-2.0 licensed implementation designed to accurately predict complex 3D structures of proteins, nucleic acids, and ligands.
OpenFold3 protein structure prediction requires dependencies including deepspeed, cutlass, huggingface, nvidia-cutlass, boto3, and awscrt. These libraries support the deep learning and data orchestration needed for structural modeling.
OpenFold3 accurately predicts complex structures of proteins, nucleic acids, and ligands but requires significant GPU resources. As an open-source implementation of AlphaFold3, its accuracy depends on the provided JSON query inputs and persistent kernel execution.
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