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Because of the stability of its riboses. In A-DNA there is a 3C- in Endo position which makes the phosphate near the upper phosphate. This produces more repulsion between chains and it could be a reason of why is more unstable A than B.

In B-DNA the 3C is in Exo position ( C2 is in ENDO) and is because of that that phosphates are more farther in these conformation, allowing to get more stable interactions between chains.

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Robert Ramirez

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