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A Cooperative DNA Catalyst

Taylor, Dallas N. and Davidson, Samuel R. and Qian, Lulu (2021) A Cooperative DNA Catalyst. Journal of the American Chemical Society, 143 (38). pp. 15567-15571. ISSN 0002-7863. PMCID PMC8609974. doi:10.1021/jacs.1c07122.

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DNA catalysts are fundamental building blocks for diverse molecular information-processing circuits. Allosteric control of DNA catalysts has been developed to activate desired catalytic pathways at desired times. Here we introduce a new type of DNA catalyst that we call a cooperative catalyst: a pair of reversible reactions are employed to drive a catalytic cycle in which two signal species, which can be interpreted as an activator and an input, both exhibit catalytic behavior for output production. We demonstrate the role of a dissociation toehold in controlling the kinetics of the reaction pathway and the significance of a wobble base pair in promoting the robustness of the activator. We show near-complete output production with input and activator concentrations that are 0.1 times the gate concentration. The system involves just a double-stranded gate species and a single-stranded fuel species, as simple as the seesaw DNA catalyst, which has no allosteric control. The simplicity and modularity of the design make the cooperative DNA catalyst an exciting addition to strand-displacement motifs for general-purpose computation and dynamics.

Item Type:Article
Related URLs:
URLURL TypeDescription CentralArticle
Davidson, Samuel R.0000-0002-8081-3591
Qian, Lulu0000-0003-4115-2409
Additional Information:© 2021 The Authors. Published by American Chemical Society. ACS AuthorChoice - Attribution-NonCommercial-NoDerivs 2.0 Generic (CC BY-NC-ND 2.0) Received: July 9, 2021; Published: September 15, 2021. D.N.T. and S.R.D. were supported by Caltech internal funds for BE/CS 196, a course on design and construction of programmable molecular systems. D.N.T. was also supported by the Summer Undergraduate Research Fellowships (SURF) Program at Caltech and an NSF award (1908643). S.R.D. was also supported by an NIH/BLP training grant (5 T32 GM 112592-5). L.Q. was supported by an NSF award (1908643). The authors thank E. Winfree for reading and commenting on the manuscript. Author Contributions: D.N.T. and S.R.D. contributed equally. The authors declare no competing financial interest.
Funding AgencyGrant Number
CaltechBE/CS 196
Caltech Summer Undergraduate Research Fellowship (SURF)UNSPECIFIED
NIH Predoctoral Fellowship5 T32 GM 112592-5
Subject Keywords:Catalysts, Chemical reactions, Fuels, Genetics, Kinetics
Issue or Number:38
PubMed Central ID:PMC8609974
Record Number:CaltechAUTHORS:20210917-235251911
Persistent URL:
Official Citation:A Cooperative DNA Catalyst. Dallas N. Taylor, Samuel R. Davidson, and Lulu Qian. Journal of the American Chemical Society 2021 143 (38), 15567-15571; DOI: 10.1021/jacs.1c07122
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:110958
Deposited By: George Porter
Deposited On:20 Sep 2021 14:54
Last Modified:29 Nov 2021 17:57

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