A Self-Assembled Rhombohedral DNA Crystal Scaffold with Tunable Cavity Sizes and High-Resolution Structural Detail.

Angewandte Chemie
Chad R SimmonsHao Yan

Abstract

DNA is an ideal molecule for the construction of 3D crystals with tunable properties owing to its high programmability based on canonical Watson-Crick base pairing, with crystal assembly in all three dimensions facilitated by immobile Holliday junctions and sticky end cohesion. Despite the promise of these systems, only a handful of unique crystal scaffolds have been reported. Herein, we describe a new crystal system with a repeating sequence that mediates the assembly of a 3D scaffold via a series of Holliday junctions linked together with complementary sticky ends. By using an optimized junction sequence, we could determine a high-resolution (2.7 Å) structure containing R3 crystal symmetry, with a slight subsequent improvement (2.6 Å) using a modified sticky-end sequence. The immobile Holliday junction sequence allowed us to produce crystals that provided unprecedented atomic detail. In addition, we expanded the crystal cavities by 50 % by adding an additional helical turn between junctions, and we solved the structure to 4.5 Å resolution by molecular replacement.

References

Nov 21, 1982·Journal of Theoretical Biology·N C Seeman
Nov 1, 1983·Biophysical Journal·N C Seeman, N R Kallenbach
Apr 13, 2000·Proceedings of the National Academy of Sciences of the United States of America·B F EichmanP S Ho
Feb 26, 2004·Journal of the American Chemical Society·Dage LiuChengde Mao
Aug 25, 2004·Chemistry & Biology·Paul J PaukstelisNadrian C Seeman
May 25, 2006·Journal of the American Chemical Society·Paul J Paukstelis
Feb 1, 2008·Nature·Dmytro NykypanchukOleg Gang
Feb 1, 2008·Nature·Sung Yong ParkChad A Mirkin
Sep 27, 2008·Science·Faisal A AldayeHanadi F Sleiman
Feb 10, 2009·Biochemistry·Chenxiang LinHao Yan
Mar 22, 2012·Journal of Molecular Recognition : JMR·Nam NguyenNadrian C Seeman
May 6, 2015·Nature Communications·Graham D HamblinHanadi F Sleiman
May 11, 2016·ACS Central Science·Luke M Oltrogge, Steven G Boxer
Sep 20, 2016·Journal of the American Chemical Society·Chad R SimmonsHao Yan
May 4, 2017·Angewandte Chemie·Xiao WangNadrian C Seeman
Jul 22, 2017·Journal of the American Chemical Society·Chad R SimmonsHao Yan
Jul 30, 2017·Nature Chemistry·Yudong HaoNadrian C Seeman
May 19, 2018·Advanced Materials·Tao ZhangTim Liedl
Sep 22, 2018·Angewandte Chemie·Jiemin ZhaoChengde Mao
Oct 20, 2018·Journal of the American Chemical Society·Fan HongHao Yan
Dec 5, 2018·Nature Materials·Gang ChenYossi Weizmann
Jul 10, 2019·Journal of Chemical Theory and Computation·Ryan M HarrisonJonathan P K Doye
Sep 26, 2019·Journal of the American Chemical Society·Zhe LiChengde Mao
Jan 4, 2020·Current Opinion in Structural Biology·Abigail R Ward, Christopher D Snow

❮ Previous
Next ❯

Citations

Jun 16, 2021·Angewandte Chemie·Jason S Kahn, Oleg Gang
Oct 6, 2021·ACS Nano·Brandon LuNadrian C Seeman

❮ Previous
Next ❯

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.