psiphi reads a clean coordinate file (CCF) of protein structure coordinates and writes a standard EMBOSS report file of psi and phi torsion angles in a specified region of a specified polypeptide chain. The angles are calculated for each alpha carbon (CA) atom from the co-ordinates of the mainchain atoms in the two planes around it.
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Clean coordinate file (CCF) of protein structure coordinates are generated by running pdbparse (in the 'structure' EMBASSY package) on a PDB file.