PPD: Protein Pocket Detection via Convex Hull Surface Evolution and Associated Reeb Graph

PPD Input

Input protein

Example: 3ao4

or upload your *.pdb or *.xyzr file (<2MB)

Select file Change

Depth (Å) =

Minimum pocket depth required.

Area (Å^2) =

Minimum pocket area required.

Volume (Å^3) =

Minimum pocket volume required.

This is optional. A message will be sent to your emal when your job is done.

User guide

This is a software to detect protein pockets with prescribed geometric features including depth, area and volume. It is an open source code and can be downloaded at Weilab on GitHub

Your result is a zip file including

Result.txt: the detected pocktets with geometric features and adjacent atoms.

References

1 Rundong Zhao, Zixuan Cang, Yiying Tong and Guo-Wei Wei, Protein Pocket Detection via Convex Hull Surface Evolution and Associated Reeb Graph (2018). View

Contact Information

Webmaster : zhaorund at msu.edu

buildPPD Input

extensionUser guide

This is a software to detect protein pockets with prescribed geometric features including depth, area and volume. It is an open source code and can be downloaded at Weilab on GitHub

Your result is a zip file including Result.txt: the detected pocktets with geometric features and adjacent atoms.

local_libraryReferences

perm_contact_calendarContact Information

PPD Input

User guide

Your result is a zip file including

Result.txt: the detected pocktets with geometric features and adjacent atoms.

References

Contact Information