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. Author manuscript; available in PMC: 2017 Aug 25.
Published in final edited form as: J Phys Chem B. 2016 Apr 6;120(33):8137–8146. doi: 10.1021/acs.jpcb.6b01327

Figure 8.

Figure 8

Rpn10 flexible arm binding to K48-linked tetra-ubiquitin. A. Schematic views of the systems examined in MD simulations. Additional interactions (see text) between the Rpn10 flexible arm and ubiquitin subunits are represented through short black lines. B. Interaction energies between the Rpn10 fragment and K48-linked tetra-ubiquitin or di-ubiquitin for binding combinations shown in panel A, computed with a modified generalized Born (GB) model.34 C. Representative snapshot of Rpn10 binding to neighboring ubiquitins (top) and non-neighboring ubiquitins (bottom).