Issue 6, 2020

A localized molecular automaton for in situ visualization of proteins with specific chemical modifications

Abstract

Given the powerful regulation roles of chemical modification networks in protein structures and functions, it is of vital importance to acquire the spatiotemporal chemical modification pattern information in a protein-specific fashion, which is by far a highly challenging task. Herein, we design a localized DNA automaton, equipped with an anticodingcoding sequential propagation algorithm, for in situ visualization of a given protein subtype with two chemical modifications of interest on the cell surface. The automaton is composed of three probes respectively for the protein and two types of modifications. Once anchored on the cell surface and triggered, the automaton performs sequential protein-localized, DNA hybridization-based computations on the proximity status of each modification type with the protein and contracts the set of close proximity information into a single fluorescence signal turn-on using the designed algorithm. The modular and scalable features of the automaton enable its operation in scaled-down versions for protein-specific identification of one given modification. Thus, this work opens up the possibility of using automata for revealing complex regulation mechanisms of protein posttranslational modifications.

Graphical abstract: A localized molecular automaton for in situ visualization of proteins with specific chemical modifications

Supplementary files

Article information

Article type
Edge Article
Submitted
20 Aug 2019
Accepted
30 Dec 2019
First published
02 Jan 2020
This article is Open Access

All publication charges for this article have been paid for by the Royal Society of Chemistry
Creative Commons BY-NC license

Chem. Sci., 2020,11, 1665-1671

A localized molecular automaton for in situ visualization of proteins with specific chemical modifications

L. Liu, S. Li, A. Mao, G. Wang, Y. Liu, H. Ju and L. Ding, Chem. Sci., 2020, 11, 1665 DOI: 10.1039/C9SC04161C

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