Normal Mode Analysis -- How to Select Both Receptor and Ligands?
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In normal mode analysis (advanced), I would like to include an entire complex consistting of a receptor protein and two ligands (this particular receptor can accommodate two ligands in its binding site). When I attempt to do this in SAMSON, there is an error message saying that I have selected more than one structure and that I need to select only one structure and try again. Please advise how to use fhe entire complex for normal model analysis. Thank you.
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Dear Rudy, sorry for the delay. You can simply merge the ligand structure into the receptor structure. Precisely, in the document view, drag the ligand node and drop it onto the receptor node (more generally, you can drag and drop nodes around to reorganize your entries).
Then, when you select the receptor and compute the normal modes, the ligand will be taken into account.
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