Topologically-Interlocked Minicircles as Probes of DNA Topology and DNA-Protein Interactions.
DNA catenane
DNA origami
DNA rotaxane
DNA-protein interactions
restriction reactions
Journal
Chemistry (Weinheim an der Bergstrasse, Germany)
ISSN: 1521-3765
Titre abrégé: Chemistry
Pays: Germany
ID NLM: 9513783
Informations de publication
Date de publication:
19 Apr 2022
19 Apr 2022
Historique:
received:
12
01
2022
pubmed:
27
2
2022
medline:
22
4
2022
entrez:
26
2
2022
Statut:
ppublish
Résumé
DNA minicircles exist in biological contexts, such as kinetoplast DNA, and are promising components for creating functional nanodevices. They have been used to mimic the topological features of nucleosomal DNA and to probe DNA-protein interactions such as HIV-1 and PFV integrases, and DNA gyrase. Here, we synthesized the topologically-interlocked minicircle rotaxane and catenane inside a frame-shaped DNA origami. These minicircles are 183 bp in length, constitute six individual single-stranded DNAs that are ligated to realize duplex interlocking, and adopt temporary base pairing of single strands for interlocking. To probe the DNA-protein interactions, restriction reactions were carried out on DNAs with different topologies such as free linear duplex or duplex constrained inside origami and free or topologically-interlocked minicircles. Except the free linear duplex, all tested structures were resistant to restriction digestion, indicating that the topological features of DNA, such as flexibility, curvature, and groove orientation, play a major role in DNA-protein interactions.
Identifiants
pubmed: 35218108
doi: 10.1002/chem.202200108
doi:
Substances chimiques
DNA, Circular
0
DNA, Kinetoplast
0
DNA
9007-49-2
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
e202200108Subventions
Organisme : Japan Society for the Promotion of Science
ID : 16K17934
Organisme : Japan Society for the Promotion of Science
ID : 21K05274
Organisme : Japan Society for the Promotion of Science
ID : 19H04653
Organisme : Japan Society for the Promotion of Science
ID : 20H02860
Organisme : Japan Society for the Promotion of Science
ID : 17H01213
Organisme : Core Research for Evolutional Science and Technology
ID : JPMJCR18H5
Informations de copyright
© 2022 Wiley-VCH GmbH.
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