Dear All,
I hope that you can help me out. I have just started to use AUTODOCK 4. I want to create a ligand, namely, DYDDDDK (FLAG-TAG antibody epitope). I have tried to use PRODRG, I have drawn the molecule correctly and everything. However, when I save the file, either as .pdb .pdbq .pdbqt .mol2 etc. They don't open!!
An error comes up saying that I have 5 molecules?? I don't understand. I've drawn the molecule and got the co-ordinates but it doesn't seem to open!
Any ideas? Or ideas on how I could use another software to make my ligand on and then integrate it into AUTODOCK??
Thanks guys!!
