Restoring models in protein structure files by Swiss PDB Viewer

Despite its name, Swiss PDB Viewer implements a number of features besides visualization of protein molecules. One of such features is side chain reconstruction for protein structures that contain only backbone atoms. However, Swiss PDB Viewer does not write model records to its output PDB files that may cause problems with other PDB-processing programs.

In this post, we present a Python script that adds proper model records to a PDB file produced by Swiss PDB Viewer.

The script also provides the –keep option to retain or remove PDB records specific to Swiss PDB Viewer (the ones that start from SPDBV).

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