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Fig. 1 | BMC Bioinformatics

Fig. 1

From: Tractable RNA–ligand interaction kinetics

Fig. 1

Relation between the monomer energy landscape Ξ (above) and the dimer energy landscape Ξ (below). We obtain the landscape of the dimers from the landscape of the monomers by constraining the structures to contain the binding pocket. Blue circles indicate structures with binding pocket, while the remaining structures are shown as green squares. Notably, the assignment to gradient-basins regularly differs for corresponding structures in both landscapes, if gradient neighbors (solid arrow transitions) of the monomer world have no binding pocket such that non-gradient neighbors (dashed arrow transitions) of the monomer world correspond to gradient neighbors in the dimer world. Filled circles and squares mark local minima

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