GDFuzz3D: protein 2D map to 3D structure retrieval service

GDFuzz3D: protein 2D map to 3D structure retrieval service     


Fuzzy or binary contact map (CASP RR format, plain text):

  • Input should be in plain text, CASP RR format, see example input or Help section
  • Input text should contain amino acid sequence entries (single-letter)
  • Amino acid records can be raw or preceded by SEQRES tag (maximum number of amino acids per row: 50)
  • No more than 400 amino acids, only standard 20 amino acid letters are allowed
  • GDFuzz3D is designed to work on predicted maps for single-domain proteins
  • GDFuzz3D requires contact maps of following definition: 8 A threshold, CA metrics (CB-based maps are also accepted)
  • Results will be sent by email

This work was supported by a European Social Fund project through Subcarpathian Doctoral Stipend Fund

Please cite: Pietal, M.J., Bujnicki, J.M. and Kozlowski, L.P., 2015. GDFuzz3D: a method for protein 3D structure reconstruction from contact maps, based on a non-Euclidean distance function. Bioinformatics, 31(21), pp.3499-3505.

Contact: Michal J. Pietal, Lukasz P. Kozlowski, Janusz M. Bujnicki,
Laboratory of Bioinformatics and Protein Engineering, International Institute of Molecular and Cell Biology in Warsaw