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Figure 6 | BMC Bioinformatics

Figure 6

From: Representing and comparing protein structures as paths in three-dimensional space

Figure 6

Flexible alignment of different calmodulin structures: 1dmo (APO form) and 1osa (Ca-binding form). (A) Angle curve overlap graph of 1dmo and 1osa. (B) Stereo diagram of the structural superposition of 1dmo (colors) and 1osa (grey) generated by FATCAT. FATCAT breaks 1dmo into 5 rigid body segments (each segment is shown with a unique color) linked by hinges. Notably, the long α-helix in the middle of 1osa is broken into two smaller ones in 1dmo. See text for details. Higher gap penalties (opening:1000 and extension:333) were used so that the center region (alignment positions 65–95) appears to be "mismatch" instead of parallel gaps in both angle curves. This is only to enhance the presentation of the angle changes associated with the conformation change – the default parameters produce essentially the same result.

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