The term "PC" in the discussed article refers to "pseudo-center," which is a key concept in the PCASSO (Protein C-Alpha Secondary Structure Output) application. PCASSO utilizes a method similar to SABA, where the coordinates of the ith Cα atom are shifted to its pseudo-center position, defined as the center-of-geometry between Cα(i) and Cα(i+1). This approach enhances the accuracy of assigning secondary structure elements (SSEs) by using optimized PC-dependent geometric criteria. The minimum cut-off distance for this algorithm is established at 6, although the maximum cut-off distance remains unspecified and is likely an accuracy function rather than a fixed value.
PREREQUISITESBioinformaticians, computational biologists, and researchers involved in protein structure analysis and secondary structure prediction will benefit from this discussion.
Are you referring to the kth residue as 'distance'? If so, can't see a maximum, it is probably an accuracy function rather than a specific value.user366312 said:
Can you note the section of the paper where you're reading this, @user366312, because I am not sure what aspect of PCASSO you are referring to?user366312 said: