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To find loops in the PDB that have similar conformation to a loop displayed in ICM:
- Read in a protein structure and convert to an ICM object.
- Select the residues in the loop.
- MolMechanics/Loop/Find PDB Segments
- Enter a vicinity value (see: http://www.molsoft.com/man/reals.html#vicinity).
- Enter the number of hits it should return.
- Click OK.
- A table of the hits containing the PDB codes containing a similar loop conformation will be displayed. The column aRMSD is angular (torsional) RMSD.
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