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The FunFOLD2 Protein-Ligand Binding Site Prediction Server

NOTE: This server is no longer maintained, please use the latest version of IntFOLD to obtain FunFOLD predictions.

This simple form allows you to predict likely ligand binding site residues for a submitted amino acid sequence using the new FunFOLD2 protocol. Further information and references can be found on the FunFOLD home page. Before you submit a prediction please refer to the help page. Click 'Help' in each section for detailed instructions.


The FunFOLD2 server reference:
  • Roche, D. B., Buenavista, M. T., McGuffin, L. J. (2013) The FunFOLD2 server for the prediction of protein-ligand interactions. Nucleic Acids Res., 41, W303-7. PubMed
  • The FunFOLD2 server makes use of the FunFOLDQA Quality Assessment protocol for improved prediction selection, which is described in the following paper:
  • Roche, D. B., Buenavista, M. T. & McGuffin, L. J. (2012) FunFOLDQA: A Quality Assessment Tool for Protein-Ligand Binding Site Residue Predictions. PLoS ONE, 7, e38219. PubMed
  • Starting 3D models for FunFOLD2 are built using the novel IntFOLD2-TS protocol, which is described in the following paper:
  • Buenavista, M. T., Roche, D. B. & McGuffin, L. J. (2012) Improvement of 3D protein models using multiple templates guided by single-template model quality assessment. Bioinformatics, 28, 1851-1857. PubMed
  • The original paper describing FunFOLD version 1.0:
  • Roche, D. B., Tetchner, S. J. & McGuffin, L. J. (2011) FunFOLD: an improved automated method for the prediction of ligand binding residues using 3D models of proteins. BMC Bioinformatics, 12, 160. PubMed


Tel: 0118 378 6332

Email: l.j.mcguffin

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