Predicting residue contacts by the correlated mutations method

Predicting Residue Contacts by Correlated Mutation Method
(Kundrotas & Alexov , BMC Bioinformatics, 7:503 (2006))

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Additional parameters of calculations:

Parameter 1:		highest threshold for sequence identities in multiple sequence alignment.
Parameter 2:		definition of total conservation for a residue in the excluded positions.
Parameter 3:		lower threshold for degree of conservation for the 1st position.
Parameter 4:		lower threshold for degree of conservation for the 2nd position (see footnote).

		Use biophysical constrains.
		Do not use biophysical constrains.

*Footnote:* Increasing the value of the parameter 4 reduces the rate of false positive predictions. Thus, setting the parameter 4 to 100% will result in predicting residue contacts with high confidence. However, be aware that in many cases this may lead to zero predictions.

Other prediction servers: CORNET

This server was created May 19, 2006 and is maintained by Emil Alexov