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Figure 3 | BMC Bioinformatics

Figure 3

From: Reduction of the secondary structure topological space through direct estimation of the contact energy formed by the secondary structures

Figure 3

Secondary structure mutation of 1DV5(PDB Id). The location and orientation of the three helix skeletons (cylinder R1, R2 and R3) are shown. The three segments of the sequence (H1, H2 and H3) forming helices are labelled on the sequence. A mutated topology of the secondary structures was generated by swapping the sequence assignment for (R1, R3). Amino acids in the boxes: the deleted amino acids during the mutation; Amino acids in red: the padded amino acid. The thicker side chains are in the native structure. The thinner side chains are in the mutated structure after side chain relaxation. For viewing clarity, only the side chains in the vicinity of the secondary structure interaction are shown.

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