Work

Evaluation of FRET X for Single-Molecule Protein Fingerprinting

Year: 2021

Type: article

Abstract: Single-molecule protein identification is an unrealized concept with potentially ground-breaking applications in biological research. We propose a method called FRET X (Förster Resonance Energy Transfer via DNA eXchange) fingerprinting, in which the FRET efficiency is read out between exchangeable dyes on protein-bound DNA docking strands and accumulated FRET efficiencies constitute the fingerprint for a protein. To evaluate the feasibility of this approach, we simulated fingerprints for hundreds of proteins using a coarse-grained lattice model and experimentally demonstrated FRET X fingerprinting on model peptides. Measured fingerprints are in agreement with our simulations, corroborating the validity of our modeling approach. In a simulated complex mixture of >300 human proteins of which only cysteines, lysines, and arginines were labeled, a support vector machine was able to identify constituents with 95% accuracy. We anticipate that our FRET X fingerprinting approach will form the basis of an analysis tool for targeted proteomics.

Source: iScience

DOI: 10.1016/j.isci.2021.103239

Authors: Carlos Victor de Lannoy, Mike Filius, Raman van Wee, Chirlmin Joo, Dick de Ridder

Institutions: Wageningen University & Research, Delft University of Technology

Language: English

Topic: Advanced biosensing and bioanalysis techniques

Subfield: Molecular Biology

Field: Biochemistry, Genetics and Molecular Biology

Domain: Life Sciences

Open Access status: gold

Estimated APC paid: $3,000

Funders: Stichting voor Fundamenteel Onderzoek der Materie, Nederlandse Organisatie voor Wetenschappelijk Onderzoek