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Figure 3 | BMC Bioinformatics

Figure 3

From: New statistical potential for quality assessment of protein models and a survey of energy functions

Figure 3

Definition of residue orientation used to derive potentials. (A) interaction ij is considered "parallel" if the scalar product of Cα-Cβ vectors for residues i (vector a) and j (vector b) is positive; (B) interaction ij is considered "antiparallel i facing j" if scalar product of a and b is non-positive and scalar product of vector a and vector from Cα atom of residue i to Cα atom of residue j (vector c) is positive; (C) interaction ij is considered as "antiparallel i pointing away from j" if both a·b and a·c scalar products are non-positive.

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