LIGSITEcsc is a web server for the automatic identification of pockets on protein surface using the Connolly surface and the degree of conservation!

Input methods: Help
  1. A user may upload his/her own pdbfile
  2. A user may enter a PDB code and chain ID
  3. A user may adjust the parameters
Upload a PDB file Help

      PDB file :

Or enter a PDB ID: Help

      PDB ID:  (For example 1acb)
      Chain ID:     (For example E, I)
      ( If no chain ID is given, the whole structure is considered. Separate multiple chain IDs by commas.)
      Re-rank by conservation

Set up the parameters:Help

      Please choose the grid space:
      Angstrom.
      How many pockets do you want?      
      Radius of the probe to get potential binding sites:
      Angstrom.

  

Note:
It will take up to 30 seconds to find pockets depending on the size of your protein and the parameters you set. Please be patient.
The algorithm of LIGSITEcsc is illustrated here.

We have developed a new web-server called metaPocket. Please visit it for more accurate ligand binding site prediction.

Download:
Want to run LIGSITEcsc locally? Get the source code here.

Reference:
If you find this server useful for your work, please cite: Bingding Huang and Michael Schroeder (2006), LIGSITEcsc: predicting protein binding sites using the Connolly surface and degree of conservation, BMC structural Biology, 6:19. ( link pdf )

Contact:
Bingding Huang, e-mail: bhuang@biotec.tu-dresden.de, homepage.

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Last update: 10th, June, 2007



Bioinformatics group                 Biotec             TU Dresden
Bioinformatics group                     Biotec                                 TU Dresden