Finding Functional Domains

Exhibit 1. ActiveSite analyses the sequence and presents in tabular form the sequences, most likely to be involved in protein-protein interactions. In presented example the highest score sequence the programs finds for CD28 is a binding site for its main molecular partner, B7.1

ActiveSite™

ActiveSite is a new program that is not included into the EpiQuest subscription package. This algorithm allows identify short functionally important sequences in primary protein sequence.

 

These sequences may be mediating external and internal interactions of the molecule. The internal sequences are employed in support of the structure of the mature protein; the external are usually involved in interaction with main molecular partners of the molecule. ​

 

The program allows the fast and straightforward design of molecular inhibitors and biomimmetics, and we welcome all collaborations with people interested in the development of target-specific inhibitors.

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Exhibit 2. The sequence analysis of CD44 with epiquest, produces several high score domains. The highest score is the sequence of Hyalouronan binding, the main ligand for CD44

Exhibit 3. Analysis of sequence of MIF protein identifies all major sites of MIF-MIF molecules binding in order to produce a tetrameric form of MIF. Another site detected is a Jab1, main molecular pertner of MIF binding site.

Exhibit 4. Analysis of sequence of VP1 protein of enterovirus. The capsid protein VP1 is the key molecule for capsid assembly through its interactions with other capsid proteins. Analysis of the sequence produces peptides mainly overlapping with previously established fragments of VP1 that bock the capsid assembly of enterovirus.

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