EnzyMM - The Enzyme-Motif-Miner

EnzyMM identifies catalytic motifs in protein structures.
Search for any conserved arrangement of catalytic residues found in our M-CSA derived libary of 6780 templates representing a majority of M-CSA mechanisms in composite sub-patterns and different conformations. Enter a PDB ID or a UniProt ID (to search the Alphafold Database) below or upload your own structure to find, analyze and view matching catalytic motifs.

EnzyMM Docs

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🔖 Citations
  If you find EnzyMM useful, please cite:

  • EnzyMM as: Hackett R., Riziotis I., Larralde M., Zeller G., Thornton J.M. (2025). EnzyMM: A paper I am yet to publish. Stay tuned!. DOI: 10.xxxx/enzymm.2025.xxxx (placeholder)
  • Mechanism and Catalytic Site Atlas (M-CSA) as: Ribeiro A.J.M. et al. (2017), Nucleic Acids Res, 46, D618–D623. Mechanism and Catalytic Site Atlas (M-CSA): a database of enzyme reaction mechanisms and active sites. DOI: 10.1093/nar/gkx1012. PMID: 29106569.

Enter a PDB ID (e.g. 1AMY) or a UniProt ID (e.g. P04063)
or
Upload a protein structure in PDB of CIF format
Optionally provide a B-factor/pLDDT cutoff
Development Credits:
EnzyMM is developed by Raymund Hackett and the Zeller Group at the Leiden University Medical Center in Leiden, the Netherlands, with continuing support from the Thornton Group at the EMBL-EBI in Hinxton, UK.
We would like to specifically credit Ioannis Riziotis, Martin Larralde, Antonio Ribeiro, Jonathan Barker, Georg Zeller, and Janet Thornton for their amazing support.