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PXDesignBench

  • Description

    is a protein design evaluation suite for monomer and binder tasks that standardizes sequence generation, structure consistency assessment, and downstream metrics across tools including ProteinMPNN, ESMFold, AlphaFold2, and Protenix.

  • Usage

    To list all executables provided by PXDesignBench, run: $ sbgrid-list pxdesignbench Copy to clipboard

  • Usage Notes

    Run with the following in place of python run.py and python run_monomer.py: pxdesignbench.run pxdesignbench.run_monomer

  • Installation

    Use the following command to install this title with the CLI client: $ sbgrid-cli install pxdesignbench Copy to clipboard Available operating systems: Linux 64

  • Primary Citation*

    Ren, Milong, Sun, Jinyuan, Guan, Jiaqi, Liu, Cong, Gong, Chengyue, Wang, Yuzhe, Wang, Lan, Cai, Qixu, Chen, Xinshi, Xiao, and Wenzhi. 2025. PXDesign: Fast, Modular, and Accurate De Novo Design of Protein Binders. bioRxiv.


    • *Full citation information available through

  • Keywords

    Computational Chemistry

  • Default Versions

    Linux 64:  0.1.1 (15.8 GB)

  • Developers

    jinyuan sun, Jiaqi Guan, Byte dance, Xinshi Chen

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