(no subject)

The problem is that I don’t know how to cut the structure. I know I must use the vmd for taking the xyz values, but I am not sure how to do it.

The problem is that I don’t know how to cut the structure. I know I must use the vmd for taking the xyz values, but I am not sure how to do it.

No, you don’t need vmd. Please read the documentation of the delete_atoms command.

If you insist on using vmd, please post your question to the vmd mailing list, where it belongs.

Axel