Precisely Programmed and Robust 2D Streptavidin Nanoarrays by Using Periodical Nanometer‐Scale Wells Embedded in DNA Origami Assembly

Abstract

A new punched DNA origami assembly with periodic nanometer-scale wells has been successfully designed and constructed. Through the attachment of two biotins at the two edges of each well, just one streptavidin (SA) tetramer (d = 5 nm) was size-selectively captured in each 6.8 x 12 x 2.0 nm well; this allowed formation of a 28 nm-period SA nanoarray of individual molecules. The position of SA capture can be fully controlled by placement of biotins in the nanoarray well. Moreover, construction of a 2D nanoarray of individual SA tetramers through selective positioning of SA tetramers in any desired wells in a complex of such punched origami motifs is also possible. The stability of the SA captured by this fixation strategy (DNA wells and two biotin linkers) was directly compared on the same molecule with the stability of SA captured with other possible strategies that do not employ wells or two linkers. In this way, the robustness of this means of fixation was clearly established.

DNA nanostructures as scaffolds for metal nanoparticles

“…Figure 4 The folding pattern of the M13 scaffold in the punched DNA origami (a) and typical AFM images (b). 35 These figures were reproduced with permission from the publisher.…”

“…[34][35][36][37][38][39] This strategy is based on our previous finding that a nm-sized cavity (a DNA well) embedded in 2-nm-thick DNA sheets, including DNA origami, can serve as a well to precisely capture one protein molecule inside and stably accommodate it under repetitive AFM scanning. 34,35 This approach is applicable to other NPs of similar diameters, such as AuNPs. 36 We designed a stick-like punched DNA origami structure with nine wells with dimensions of 7 Â 14 Â 2 nm (Figure 4).…”

“…This stability most likely occurs because of the bidentate binding of the AuNP in a well by both of the anchors, as is the case for protein nanoarrays. 35,37 The site to capture AuNPs in the punched origami (nth well) can be freely selected simply by selecting the staple strand to be modified with DTPA. To the best of our knowledge, the present system is the first system that requires no pre-modification of the AuNPs with DNA but only the addition of unmodified AuNPs to the solution of punched DNA origami to pattern precisely one particle at a desired position.…”

Development of DNA Based Active Macro–Materials for Biology and Medicine: A Review

“…For instance, biotin-labeled DNA (Kuzuya et al 2009) can be incorporated in the gel network to attach streptavidin offering a means for protein separation, purification and potentially delivery. In this design, the 5' end of the strands of DNA is biotinylated with a biotin-triethyleneglycol (TEG) residual.…”

Inorganic Bioconjugates of Gold Clusters and Nanoparticles

“…architectures have recently been increased. 74 In the future, these DNA architectures can more widely contribute to the construction of various nano-sized materials (Fig. 9).…”