Download mTM-align2 Protein Structure Search Program

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    • This is an implementation of the protein structure search algorithm depicted in paper "Rapid and accurate protein structure database search using inverse folding model and contrastive learning".

    List of Prebuilt Databases
    Database Description Size
    PDB Monomer Database for chains in Protein Data Bank (~70,000 structures, Clustered by 90 percent sequence identity) 488M
    SCOPE Database for Structural Classification of Proteins — extended 3.7G
    CATH40 Database for Protein Structure Classification database (CATH, Clustered by 40 percent sequence identity) 365M
    BFVD Database for Big Fantastic Virus Database 4.0G
    HEALTH Database for Alphafold2 predicted files for global health proteomes 2.7G
    ORGANISM Database for Alphafold2 predicted files for model organism proteomes 3.7G
    SWISSPROT Database for Alphafold2 predicted files for Swiss-Prot 6.1G

    Download mTM-align Multiple Protein Structure Alignment Program

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    • This is an implementation of the multiple protein structure alignment program mTM-align algorithm in C/C++.

    References

  • Lyu, et al, mTM-align2: a server for real-time protein structure database search and alignment, Genomics, Proteomics & Bioinformatics, in press, (2026).
  • Lyu, et al, Rapid and accurate protein structure database search using inverse folding model and contrastive learning, J Chem Inf Model, 65:13465-13477 (2025). (PDF)