metadata
license: apache-2.0
We downloaded a total of 2525 ClinVar datasets from the official ProteinGym. Since the official did not provide the corresponding structure files, we performed the following operations to obtain the structures:
- According to the sequence, we retrieved the corresponding UniProt ID from the UniProt website and downloaded 2302 corresponding AlphaFold2 structures.
- For the remaining proteins, we first folded them using ColabFold 1.5.5.
- Among them, 12 proteins were too long to fold, and we solved this problem using the AlphaFold3 server.
📑 Github
https://github.com/tyang816/ProtSSN
🙌 Citation
Please cite our work if you have used our code or data for dry experiment testing/wet experiment directed evolution. We are pleased to see improvements in the subsequent work.
@article{tan2023protssn,
title={Semantical and Topological Protein Encoding Toward Enhanced Bioactivity and Thermostability},
author={Tan, Yang and Zhou, Bingxin and Zheng, Lirong and Fan, Guisheng and Hong, Liang},
journal={bioRxiv},
pages={2023--12},
year={2023},
publisher={Cold Spring Harbor Laboratory}
}