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+Given a GCG multiple sequence alignment file (a GCG MSF file), which a
+includes a sequence of known structure, the program pdbalign maps the
+sequence variability onto the known structure. The central premise is
+of course, that for a closely related family of proteins (sequence ID
+> 40%) the 3-D structures will not be significantly different.pdbdist
+calculates the distance from each atom in the pdb file to each atom in
+the ligand and records the minimum in the temperature field for that
+atom record.distalign reads the output from pdbdist and also the
+original GCG MSF file and produces an MSF file annotated with a
+measure of sequence variability and the distance of the residue at
+that position (of the sequence of known structure) from the ligand.