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. Author manuscript; available in PMC: 2016 Aug 1.
Published in final edited form as: J Membr Biol. 2015 Jun 11;248(4):611–640. doi: 10.1007/s00232-015-9802-0

Fig 14.

Fig 14

Illustration of the alignment problem by aligning 150 forms of Pentane by minimizing (a) the distances between the centers of gravity of each form, furthermore, the distances between corresponding atoms summed over (b) all atoms, (c) three selected atoms, and (d) atoms in a hierarchy of sets, defined by stiff substructures and an interactively selected anchor structure.