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| license: mit |
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| # Models for MF-Design |
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| This repository hosts the pre-trained model checkpoints for the paper **"Repurposing AlphaFold3-like Protein Folding Models for Antibody Sequence and Structure Co-design" (MF-Design)**. |
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| The main code repository can be found at [MF-Design](https://github.com/yangnianzu0515/mfdesign). |
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| ## Directory Structure |
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| The `./model` directory contains various trained model checkpoints. |
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| The following files are sourced from the [Boltz-1](https://github.com/jwohlwend/boltz) repository: |
| * `boltz1.ckpt` |
| * `boltz1_conf.ckpt` |
| * `ccd.pkl` |
| * `symmetry.pkl` |
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| We provide the following checkpoints for our MFDesign models: |
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| * **MFDesign-D**: Checkpoints for all four training stages are provided. |
| * **MFDesign-C**: The checkpoint for the final stage is provided. |
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| For the final stage of both `MFDesign-D` and `MFDesign-C`, we also provide an additional checkpoint for models that were trained without epitope information. |
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| ## Citation |
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| If you use MFDesign in your research, please cite our paper: |
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| ```bibtex |
| @article{mf_design_2025, |
| title={Repurposing AlphaFold3-like Protein Folding Models for Antibody Sequence and Structure Co-design}, |
| author={Nianzu Yang and Songlin Jiang and Jian Ma and Huaijin Wu and Shuangjia Zheng and Wengong Jin and Junchi Yan}, |
| journal={NeurIPS 2025}, |
| year={2025}, |
| url={[https://openreview.net/pdf?id=M96edY67nS)} |
| } |
