EVA home   EVA e-mail   EVA mirrors   -   Secondary structure   Comparative modelling   Threading   Contacts
 
Version
Sep 6, 2000
 
email

EVA: Contact Prediction. Servers participating.

  • Protein Design Group. Contact Prediction Server. PDGCON
    Based on Correlated Mutations
    Sequences homologous to the problem one are searched with BLAST and aligned with ClustalW. The resulting multiple sequence alignment is filtered in several ways including the removing of too close and too distant sequences. Finally, correlated mutations are calculated from this alignments as in Goebel, Sander & Valencia (1994) Proteins 18:309-317. More information and references.

  • CORNET
    A Neural Network based method trained using Correlated Mutations, Sequence Conservation, Predicted Secondary structure of Proteins and Evolutionary Information. Authors: Fariselli Piero, Olmea Osvaldo, Valencia Alfonso, Rita Casadio. This method is an extension of the two following methods
    Olmea O. and Valencia A. (1997) Fold. Des. 2: S25-32.
    Fariselli P and Casadio R. (1999) Prot. Engng 12:15-21

  • Trivial "servers". HYDRO and CONS
    Two virtual servers predicting contacts among conserved and hydrophobic residues are included in the evaluation to have a base-line of trivial contact predictions.


EVA home   EVA e-mail   EVA mirrors   -   EVA mirrors   -   Secondary structure   Comparative modelling   Threading   Contacts