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I'm a student currently looking at antibody responses against a viral target protein of interest.

I have my own, annotated PyMOL session of my protein and I also have .pdbs of crystallised antibody structures that bind to this protein and rougly know whereabouts it binds. I would like to know if it is possible to combine these two structures into a single session to observe or at least overlay the two structures together. Many thanks!

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    $\begingroup$ Is the question "Can I overlay/combine two structured in a single PyMOL session?"? (took me moment to figure what is actually the question, so I wanted to suggest how to make the question clearer). $\endgroup$
    – Kamil S Jaron
    Jun 12 '20 at 15:34
  • $\begingroup$ Could you please describe what you did so far to solve the Problem? $\endgroup$
    – Mr_Z
    Jun 15 '20 at 13:33
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  1. Open the PyMOL session.
  2. Use the load command to load your PDB file(s): load file.pdb.
  3. Use the align or super commands to overlay structures, e.g. align prot1, prot2.
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