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although within the hairpin the terminal loops greatly aid enough website structural oscillations, also the free DNA displays sufficient bending on speaking to the protein, in this case related to its very long-wavelength fluctuations. An interesting solution to show experimentally this idea could possibly be to try to make use of a hairpin assemble but with much longer flanking sequences, to be able to continue to keep the closing loops as much as is possible, still left and ideal of the SSB gap, Therefore approaching the free DNA problem.

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given that, the claimed NMR experimental structure only offers a final condition having a strongly deformed hairpin, on account of the interaction With all the protein, we described also a straight DNA hairpin as another Original situation for that simulations, Together with the similar nucleotide sequence and 2D contacts. through the use of this for the initial configuration, we could also abide by the whole process of SSB recognition within the earliest stage with the interaction.

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