ADL: Split molecule not working

Amr ALHOSSARY amr_alhossary at
Sat Sep 26 01:52:44 PDT 2020

Dear Sherif,

I recommend using another tool to do this task. 
One good example is pyMol, where you can select the molecules / residues you want, and save them separately with ease.
Another good tool is UCSD Chimera.



Research Fellow, Rehabilitation Research Institute of Singapore (RRIS), Nanyang Technological University
11 Mandalay Road #14-03, Clinical Sciences Building, Singapore 308232.
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-----Original Message-----
From: autodock-bounces at <autodock-bounces at> On Behalf Of Sherif Arafa
Sent: Saturday, September 26, 2020 4:46 PM
To: autodock at
Subject: ADL: Split molecule not working

Dear AD users

I have a protein molecule with a ligand and I want to split the ligand from the protein so I can dock another ligands. I select the ligand, choose split molecule as protein and then there is an error and the programme stops working. This happened with many complexes. So what can i do ?

Sherif Elsabbagh
PhD Candidate
Institute of Pharmacy
University of Tuebingen
72076, Heuberger Tor Weg 15, Tuebingen
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