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. 2010 Feb 18;38(11):3632–3642. doi: 10.1093/nar/gkq094

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© The Author(s) 2010. Published by Oxford University Press.

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 9. — Proposed mechanism for core-promoted cTAR/dTAR annealing. The annealing reaction at sub-saturating protein concentrations is thought to involve two pathways that rely on thermal fraying of cTAR. This fraying leads to a fast equilibrium (microsecond range) between the fully closed cTAR species (cTAR₂) and a partially melted cTAR species (cTAR₁) (37). The upper pathway (steps a and b) and the lower pathway (steps a′ and b′) are associated with the fast and the slow kinetic components, respectively. In both pathways, the cTAR species nucleate an intermediate complex (IC) that subsequently, converts in a rate-limiting step to the final extended duplex (ED). In both pathways, the ICs are nucleated through the stem termini.