Hello,
I am currently using antechamber to parameterize my ligand with this command:
“antechamber -i ligand_h.pdb -fi pdb -o ligand.mol2 -fo mol2 -c bcc -s 2 -nc 0”
It worked fine on the same ligand before, but somehow, I am now getting this error:
“This molecule may have more than one unit.
antechamber can only handle one unit. If the input is a single unit
then the connectivity is wrong and the geometry may be bad.
Please convert your molecule to a mol2 file via:
antechamber -j 5 -at sybyl -dr no
And then check your molecule with a visualization program;
manually add missing bonds or delete unwanted bonds as appropriate.”
I have attached the pdb file of the ligand.
Can anyone please give some guidance on how to solve this problem?
Thank you!
Best,
Zoey
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Received on Mon Sep 18 2023 - 16:00:01 PDT
