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Tools To Identify Binding Pockets By Geometry

Hello, I am interested in determining concave regions of a protein with the assumption that these are possible binding sites. Has anyone had any success using these determinations, if so, what program did you find useful? So far I have found Ligsite, Surfnet, PocketFinder, & qSiteFinder, but would like to expand my list of possible tools, ideally where the source code is freely available. Thank you very much for your time. Adam.

binding structural
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updated by Biostar Biostar • written by Burlappsack • Burlappsack

It will be nice if you can add URLs to your questions.

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written by Khader Shameer Khader Shameer

2 answers

You may add PocketDepth from PocketSuite to your list.

Manuscript is here.

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written by Khader Shameer Khader Shameer

http://compbio.cs.princeton.edu/concavity/

http://strcomp.protein.osaka-u.ac.jp/ghecom/

Source codes are available for both

Try to get a recent review article

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updated by Ram Ram • written by Woa Woa

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