This server (see steps 1-3 below) is for detecting correlated mutations using the method described in:

Itamar Kass and Amnon Horovitz (2002)
Mapping pathways of allosteric communication in GroEL by analysis of correlated mutations
Proteins: Struct. Funct. & Genet. 48, 611-617 (Abstract).

This method which is based on the chi-square test does not take into account the evolutionary tree.
A more recent method we developed for detecting correlated mutations that reduces the
evolutionary noise by taking into account the evolutionary tree is described in:

Noivirt O, Eisenstein M, Horovitz A. (2005)
Detection and reduction of evolutionary noise in correlated mutation analysis.
Protein Eng. Des. Sel. 18, 247-253 (Abstract).

The codes for this method can be downloaded from here.
Click the Browse... button to choose the text file containing the Clustal W results to upload.
or use one of these example data files:
example1 example2 example3
Enter the appropriated parameters
ID of the "reference" sequence (ie ch60_ECOLI)
number of residues to clip/remove
P value for cutoff (see note below)
email address to send results
Initiate the action

NOTE: A rule of thumb is that the results for any two positions i,j are significant if P < 0.05 unless:
(1) any of the Nn,Ex is less than one, or
(2) if more than 20% of the Nn,EX are less than five.
If P =< 0.001 the results are considered significant even if condition (2) is not met.

Last Updated on June 09, 2007
Server by Jaime Prilusky, 2002-2003
Bioinformatics and Biological Computing
Weizmann Institute of Science