ArticleNature communications2014
Lattice-free prediction of three-dimensional structure of programmed DNA assemblies.
Article in Nature communications, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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Who cites it
34 citing papers in PubMed.
- From Blueprint to Breakthrough: How Far Can We Fold DNA Origami for Nano-Enabled Technologies?JACS Au · 2026Review
- Self-assembly of DNA parallel double-crossover motifs.Nanoscale · 2024Article
- A computational model for structural dynamics and reconfiguration of DNA assemblies.Nature communications · 2023Article
- Reverse engineering DNA origami nanostructure designs from raw scaffold and staple sequence lists.Computational and structural biotechnology journal · 2023Article
- Computational investigation of the impact of core sequence on immobile DNA four-way junction structure and dynamics.Nucleic acids research · 2022Article
- DNA Studies: Latest Spectroscopic and Structural Approaches.Micromachines · 2021Review
- The Art of Designing DNA Nanostructures with CAD Software.Molecules (Basel, Switzerland) · 2021Review
- Design Approaches and Computational Tools for DNA Nanostructures.IEEE open journal of nanotechnology · 2021Article
- Mechanical Flexibility of DNA: A Quintessential Tool for DNA Nanotechnology.Sensors (Basel, Switzerland) · 2020Review
- Revealing the structures of megadalton-scale DNA complexes with nucleotide resolution.Nature communications · 2020Article
- Stretching DNA origami: effect of nicks and Holliday junctions on the axial stiffness.Nucleic acids research · 2020Article
- Construction of a web-based nanomaterial database by big data curation and modeling friendly nanostructure annotations.Nature communications · 2020Article
- Increasing Complexity in Wireframe DNA Nanostructures.Molecules (Basel, Switzerland) · 2020Review
- Reporting on the future of integrative structural biology ORAU workshop.Frontiers in bioscience (Landmark edition) · 2020Article
- Review
- Evolutionary Refinement of DNA Nanostructures Using Coarse-Grained Molecular Dynamics Simulations.ACS nano · 2019Article
- Programming Structured DNA Assemblies to Probe Biophysical Processes.Annual review of biophysics · 2019Review
- Sites of high local frustration in DNA origami.Nature communications · 2019Article
- Coarse-grained modelling of the structural properties of DNA origami.Nucleic acids research · 2019Article
- Investigating the sequence-dependent mechanical properties of DNA nicks for applications in twisted DNA nanostructure design.Nucleic acids research · 2019Article
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
DNA can be programmed to self-assemble into high molecular weight 3D assemblies with precise nanometer-scale structural features. Although numerous sequence design strategies exist to realize these assemblies in solution, there is currently no computational framework to predict their 3D structures on the basis of programmed underlying multi-way junction topologies constrained by DNA duplexes. Here, we introduce such an approach and apply it to assemblies designed using the canonical immobile four-way junction. The procedure is used to predict the 3D structure of high molecular weight planar and spherical ring-like origami objects, a tile-based sheet-like ribbon, and a 3D crystalline tensegrity motif, in quantitative agreement with experiments. Our framework provides a new approach to predict programmed nucleic acid 3D structure on the basis of prescribed secondary structure motifs, with possible application to the design of such assemblies for use in biomolecular and materials science.
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