Ensure you enter your valid MODELLER key via the BioSerf tab.

You input looks like it may be a multiple sequence alignment, please ensure it is in valid fasta format and that all sequences are the same length

PSIPRED Publications

Please use the following references when citing PSIPRED

The PSIPRED server

  • Buchan DWA, Minneci F, Nugent TCO, Bryson K, Jones DT. (2013). Scalable web services for the PSIPRED Protein Analysis Workbench . Nucleic Acids Research .  41 (W1): W340-W348.

The PSIPRED secondary structure prediction method

  • Jones DT. (1999) Protein secondary structure prediction based on position-specific scoring matrices. J. Mol. Biol. 292: 195-202.

GenTHREADER

  • Lobley, A., Sadowski, M.I. & Jones, D.T. (2009) pGenTHREADER and pDomTHREADER: New Methods For Improved Protein Fold Recognition and Superfamily Discrimination. Bioinformatics. 25, 1761-1767.
  • McGuffin LJ & Jones DT. (2003) Improvement of the GenTHREADER method for genomic fold recognition. Bioinformatics, 19, 874-881.
  • Jones DT. (1999) GenTHREADER: an efficient and reliable protein fold recognition method for genomic sequences. J. Mol. Biol. 287: 797-815.

MEMSAT

  • Nugent, T. & Jones, D.T. (2009) Transmembrane protein topology prediction using support vector machines. BMC Bioinformatics. 10, 159. Epub
  • Jones DT. (2007) Improving the accuracy of transmembrane protein topology prediction using evolutionary information. Bioinformatics. 23: 538-544.
  • Jones DT, Taylor WR, Thornton JM. (1994) A Model Recognition Approach to the Prediction of All-Helical Membrane Protein Structure and Topology. Biochem. 33: 3038-3049.