eMatchSite Software

eMatchSite is a sequence order-independent algorithm for ligand binding site alignment and matching. It accurately identifies pairs of pockets that bind similar compounds even in proteins with different global structures. Furthermore, it tolerates structural distortions in protein models, thus experimentally solved structures are not required.
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If you use eMatchSite, please cite the following paper:

eMatchSite is free of charge under the terms of GNU General Public License for the general public and under a dual license for commercial users.

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