1. Investigating Nucleosome Accessibility for MNase, FeII Peplomycin, and Duocarmycin B2by Using Capillary Electrophoresis
- Author
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Seiichiro Kizaki, Tingting Zou, and Hiroshi Sugiyama
- Subjects
0301 basic medicine ,biology ,Chemistry ,Organic Chemistry ,Intercalation (chemistry) ,Texas Red ,Biochemistry ,03 medical and health sciences ,chemistry.chemical_compound ,030104 developmental biology ,Capillary electrophoresis ,Duocarmycin B2 ,biology.protein ,Biophysics ,Molecular Medicine ,Nucleosome ,Peplomycin ,Molecular Biology ,DNA ,Micrococcal nuclease - Abstract
Capillary electrophoresis, coupled with DNA 5' Texas Red labeling, was used to investigate the ability of MNase, FeII peplomycin, and duocarmycin B2 to access the nucleosome. Distinct accessibility patterns of these species to the nucleosome were observed. MNase was completely prevented from approaching the nucleosome core and exhibited a higher site specificity for targeting DNA sites located close to the core region. Intercalation of peplomycin in the nucleosomal core region was highly suppressed, but reaction sites located at the ends of the nucleosomal core remained accessible, which implied flexibility of the core DNA end. Duocarmycin B2 was able to enter and react in the core region, although its alkylating efficiency decreased significantly.
- Published
- 2018