Watching a Single Enzyme at Work Using Single-Molecule Surface-Enhanced Raman Scattering and DNA Origami-Based Plasmonic Antennas.
Yuya KanehiraSergio KogikoskiEvgenii TitovKosti TapioAmr MostafaIlko BaldPublished in: ACS nano (2024)
The detection of a single-enzyme catalytic reaction by surfaced-enhanced Raman scattering (SERS) is presented by utilizing DNA origami-based plasmonic antennas. A single horseradish peroxidase (HRP) was accommodated on a DNA origami nanofork plasmonic antenna (DONA) containing gold nanoparticles, enabling the tracing of single-molecule SERS signals during the peroxide reduction reaction. This allows monitoring of the structure of a single enzymatic catalytic center and products under suitable liquid conditions. Herein, we demonstrate the chemical changes of HRP and the appearance of tetramethylbenzidine (TMB), which works as a hydrogen donor before and after the catalytic reaction. The results show that the iron in HRP adopts Fe 4+ and low spin states with the introduction of H 2 O 2 , indicating compound-I formation. Density functional theory (DFT) calculations were performed for later catalytic steps to rationalize the experimental Raman/SERS spectra. The presented data provide several possibilities for tracking single biomolecules in situ during a chemical reaction and further developing plasmon-enhanced biocatalysis.
Keyphrases
- single molecule
- density functional theory
- gold nanoparticles
- molecular dynamics
- label free
- atomic force microscopy
- living cells
- sensitive detection
- raman spectroscopy
- crystal structure
- hydrogen peroxide
- reduced graphene oxide
- electron transfer
- big data
- nitric oxide
- machine learning
- molecular dynamics simulations
- cell free
- deep learning
- electronic health record
- ionic liquid
- circulating tumor
- iron deficiency