Bret Freudenthal @freudlab.bsky.social · 11/08/20262/ The Delaney lab used globally substituted NCPs covering 34 unique 8oxoG:A positions, MUTYH excised A from essentially every site in duplex DNA but from only two sites in the nucleosome, both at SHL-6.5 in the entry/exit region (thanks David lab as well). 100
Bret Freudenthal @freudlab.bsky.social · 11/08/20263/ Why? Not because the lesion looks different. Our group solved Cryo-EM structures at SHL+2, +3, +4, and -6 all show 8oxoG in the syn conformation, Hoogsteen paired with A, matching non-nucleosomal DNA. 100
Bret Freudenthal @freudlab.bsky.social · 11/08/20264/ MD simulations from the Bignon lab agree: the same two-state conformational exchange and the same local backbone perturbations in nucleosomal and non-nucleosomal DNA. 100