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If I use flexible residues in the binding pocket, they are cut from the file.

The protein is broken and the amino acids are unbound in the room.

How can I get my results and the protein together again?

enter image description here

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A Useful Script for AutoDock4 and Vina That Merges Flexible and Rigid PDBQT Output « Prosciens. http://prosciens.com/prosciens/a-useful-script-for-autodock4-and-vina-that- merges-flexible-and-rigid-pdbqt-output/ Link to the script: http://prosciens.com/prosciens/oldproscienssarl/files/flexrigidpdbqt2pdb_template.sh

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