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TitleDesigning Rigid DNA Origami Templates for Molecular Visualization Using Cryo-EM.
Journal, issue, pagesNano Lett, Year 2024
Publish dateApr 11, 2024
AuthorsAli Khoshouei / Georg Kempf / Volodymyr Mykhailiuk / Johanna Mariko Griessing / Maximilian Nicolas Honemann / Lukas Kater / Simone Cavadini / Hendrik Dietz /
PubMed AbstractDNA origami, a method for constructing nanostructures from DNA, offers potential for diverse scientific and technological applications due to its ability to integrate various molecular ...DNA origami, a method for constructing nanostructures from DNA, offers potential for diverse scientific and technological applications due to its ability to integrate various molecular functionalities in a programmable manner. In this study, we examined the impact of internal crossover distribution and the compositional uniformity of staple strands on the structure of multilayer DNA origami using cryogenic electron microscopy (cryo-EM) single-particle analysis. A refined DNA object was utilized as an alignment framework in a host-guest model, where we successfully resolved an 8 kDa thrombin binding aptamer (TBA) linked to the host object. Our results broaden the spectrum of DNA in structural applications.
External linksNano Lett / PubMed:38602296
MethodsEM (single particle)
Resolution4.9 - 8.6 Å
Structure data

EMDB-19767: Structure of a 2873 Scaffold Base DNA Origami V1
Method: EM (single particle) / Resolution: 8.6 Å

EMDB-19769: Structure of a 2873 Scaffold Base DNA Origami V2
Method: EM (single particle) / Resolution: 7.5 Å

EMDB-19770: Structure of a 2873 Scaffold Base DNA Origami V3
Method: EM (single particle) / Resolution: 8.3 Å

EMDB-19775: Structure of a 1033 Scaffold Base DNA Origami Nanostructure V4 with Desalted Purified Staples
Method: EM (single particle) / Resolution: 7.8 Å

EMDB-19776: Structure of a 1033 Scaffold Base DNA Origami Nanostructure V4 with HPLC Purified Staples
Method: EM (single particle) / Resolution: 7.2 Å

19867

9eoq

EMDB-19867, PDB-9eoq:
Cryo-EM Structure of a 1033 Scaffold Base DNA Origami Nanostructure V4 and TBA
Method: EM (single particle) / Resolution: 7.5 Å

EMDB-19874: Refinement Focused on the 1st Body of a 1033 Scaffold-Based DNA Origami Nanostructure V4 with TBA
Method: EM (single particle) / Resolution: 5.1 Å

EMDB-19875: Refinement Focused on the 2nd Body of a 1033 Scaffold-Based DNA Origami Nanostructure V4 with TBA
Method: EM (single particle) / Resolution: 4.9 Å

EMDB-19876: Refinement Focused on the 3rd Body of a 1033 Scaffold-Based DNA Origami Nanostructure V4 with TBA
Method: EM (single particle) / Resolution: 5.1 Å

Source
  • synthetic construct (others)
KeywordsDNA / DNA Origami / Multilayer / Square lattice / 1033 scaffold / TBA

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