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Dynamic nuclear polarization of nucleic acid with endogenously bound manganese

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Abstract

We report the direct dynamic nuclear polarization (DNP) of 13C nuclei of a uniformly [13C,15N]-labeled, paramagnetic full-length hammerhead ribozyme (HHRz) complex with Mn2+ where the enhanced polarization is fully provided by the endogenously bound metal ion and no exogenous polarizing agent is added. A 13C enhancement factor of ε = 8 was observed by intra-complex DNP at 9.4 T. In contrast, “conventional” indirect and direct DNP experiments were performed using AMUPol as polarizing agent where we obtained a 1H enhancement factor of ε ≈ 250. Comparison with the diamagnetic (Mg2+) HHRz complex shows that the presence of Mn2+ only marginally influences the (DNP-enhanced) NMR properties of the RNA. Furthermore two-dimensional correlation spectra (15N–13C and 13C–13C) reveal structural inhomogeneity in the frozen, amorphous state indicating the coexistence of several conformational states. These demonstrations of intra-complex DNP using an endogenous metal ion as well as DNP-enhanced MAS NMR of RNA in general yield important information for the development of new methods in structural biology.

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Acknowledgments

This work was supported by the Deutsche Forschungsgemeinschaft (DFG) via Emmy Noether Grant CO802/2-1 issued to B.C. as well as DFG collaborative research center (Sonderforschungsbereich) 902, and by the Center for Biomolecular Magnetic Resonance (BMRZ). We thank J. Becker-Baldus and T. Gutmann for access to DNP spectrometers and technical assistance. Help from D. Akhmetzyanov during 180 GHz EPR experiments is gratefully acknowledged. We thank T. Prisner for proposing HHRz as the target system of this study, as well as H. Schwalbe and J. Wöhnert for helpful discussions. The sweepable MAS DNP NMR spectrometer was Granted to G. Buntkowsky (Darmstadt) via DFG Grant BU911/20-1.

Funding

Deutsche Forschungsgemeinschaft (DFG) Grants CO802/2-1, SFB902, and BU911/20-1; Center for Biomolecular Magnetic Resonance (BMRZ).

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  1. Patricia Wenk

    Present address: Werner Siemens Imaging Center and Department of Preclinical Imaging and Radiopharmacy, University of Tübingen, Röntgenweg 13, 72076, Tübingen, Germany

Authors and Affiliations

  1. Institute of Physical und Theoretical Chemistry, Institute of Biophysical Chemistry und Center for Biomolecular Magnetic Resonance (BMRZ), Goethe University, Max-von-Laue-Str. 7-9, 60438, Frankfurt am Main, Germany

    Patricia Wenk, Monu Kaushik, Diane Richter & Björn Corzilius

  2. Department of Biology, Technical University Darmstadt, Schnittspahnstraße 10, 64287, Darmstadt, Germany

    Marc Vogel & Beatrix Suess

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  1. Patricia Wenk
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Wenk, P., Kaushik, M., Richter, D. et al. Dynamic nuclear polarization of nucleic acid with endogenously bound manganese. J Biomol NMR 63, 97–109 (2015). https://doi.org/10.1007/s10858-015-9972-1

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