In molecular docking how can I find an unknown ligand attached to receptor and remove it using Pymol ? Please suggest a technique to identify/ remove any other macromolecule attached to it.
Dear,
In Pymol main console: Display -> Sequence
It will enable the single/triple letter amino acid codes. Drag the bar by mouse pointer. You can find the ligand code by some uncommon name.
Select it by mouse pointer -> right click -> remove.
This way you can visualize other macromolecules too. Please feel free to play with the sequence mode too.
Agree with Ghosh, but you can use any sequence viewer (Wordpad) and delete heteroatoms.
Vinay Mohan Kandpal
You can also remove water molecule if you want, for that you need to select the multiple zero portion and delete it. Thanks.
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