CONFERENCE PROCEEDINGS
Advanced Search
Home > Proceedings > Volume 9714 > Article
Presentation
27 April 2016 Carbocyanines in an RNA environment: experiment meets simulation (Conference Presentation)
Richard Boerner, Fabio Steffen, Roland K. O. Sigel
Author Affiliations +
Proceedings Volume 9714, Single Molecule Spectroscopy and Superresolution Imaging IX; 971408 (2016) https://doi.org/10.1117/12.2212176
Event: SPIE BiOS, 2016, San Francisco, California, United States
Abstract
The popularity of carbocyanine dyes in single molecule spectroscopy of nucleic acids is unbroken [1]. Studying the dynamics of large RNA constructs and the binding kinetics such as the exon/intron binding side interaction of the group II intron in S. Cerevisiae [2,3] have motivated a thorough photophysical characterization of the FRET pair Cy3/Cy5 in context of nucleic acids and RNA in particular. We show that Mg2+ as a mediator of RNA-dye interactions enhances the cyanine fluorescence lifetime. The increasing window for depolarization as monitored by time-resolved anisotropy further revealed a dynamic equilibrium between free tumbling and stacking on the RNA backbone, with the stacked conformation preventing photoisomerization [4]. Tracking fluorophore mobility covalently bound to the RNA on an atomistic level by means of molecular dynamics [5] allow to disentangle different types of dye-dye and dye-RNA interactions. Our hybrid approach combining time-correlated single photon counting and computer simulations will benefit the interpretation of absolute distance measurement by smFRET. [1] M.Levitus and S.Ranjit, Q. Rev. Biophys 2011, 44, 123-151. [2] D.Kowerko, S.L.B.König, M.Skilandat, D.Kruschel, M.C.A.S.Hadzic, L.Cardo, R.K.O.Sigel, PNAS 2015, 112, 3403-3408. [3] M. Khier, D. Kowerko, F. Steffen, R. Börner and R.K.O.Sigel, in preparation. [4] F.Steffen, R.K.O. Sigel, R.Börner, in preparation. [5] R.Best, H. Hofmann, D. Nettels, B. Schuler, Biophys J 2015, 11,2721-2731.
Conference Presentation
© (2016) COPYRIGHT Society of Photo-Optical Instrumentation Engineers (SPIE). Downloading of the abstract is permitted for personal use only.
Citation Download Citation
Richard Boerner, Fabio Steffen, and Roland K. O. Sigel "Carbocyanines in an RNA environment: experiment meets simulation (Conference Presentation)", Proc. SPIE 9714, Single Molecule Spectroscopy and Superresolution Imaging IX, 971408 (27 April 2016); https://doi.org/10.1117/12.2212176
ACCESS THE FULL ARTICLE
ORGANIZATIONAL
Sign in with credentials provided by your organization.
INSTITUTIONAL
Select your institution to access the SPIE Digital Library.
SELECT YOUR INSTITUTION
PERSONAL
Sign in with your SPIE account to access your personal subscriptions or to use specific features such as save to my library, sign up for alerts, save searches, etc.
PERSONAL SIGN IN
No SPIE Account? Create one
PURCHASE THIS CONTENT
SUBSCRIBE TO DIGITAL LIBRARY
50 downloads per 1-year subscription
Members: $195
Non-members: $335 ADD TO CART
25 downloads per 1 - year subscription
Members: $145
Non-members: $250 ADD TO CART
PURCHASE SINGLE ARTICLE
Includes PDF, HTML & Video, when available
Members: $17.00
Non-members: $21.00 ADD TO CART
PROCEEDINGS
 PRESENTATION
WATCH
PRESENTATION SAVE TO MY LIBRARY
GET CITATION
Advertisement
Advertisement
KEYWORDS
Single molecule spectroscopy
Anisotropy
Computer simulations
Distance measurement
Fluorescence resonance energy transfer
Imaging spectroscopy
Luminescence
RELATED CONTENT
Subscribe to Digital Library
Receive Erratum Email Alert
Back to Top