Abstract
The nuclear spin-lattice relaxation rate 1/T1 depends on the correlation time τc of the molecule bearing the nuclear spin, and can therefore probe changes of τc upon binding of a rapidly moving small ligand to a more slowly moving larger protein. In practice however, the dependence is such that only a small difference in relaxation rate is obtained at high field. Here we present a scheme in which nuclear spins are first hyperpolarized using DNP, and then allowed to relax at low magnetic field in presence of a target protein, which generates a large T1 contrast. The sample is subsequently transferred into a conventional nuclear magnetic resonance probe (NMR), where the effect of the low-field relaxation is read out using high-field liquid-state NMR. Using only 14 μM of a 13C-labeled reporter ligand, we observe protein binding reliably for protein concentrations as low as 2 μM in a single scan. The scheme is expanded to a label-free ligand via a competitive binding experiment in which the label-free ligand displaces the 13C-labeled reporter ligand.
Data availability
The NMR raw data and processing files are available from KITopen at https://doi.org/10.35097/4df4g6du1awng50h (ref. 36).
References
Erlanson, D. A., Fesik, S. W., Hubbard, R. E., Jahnke, W. & Jhoti, H. Twenty years on: the impact of fragments on drug discovery. Nat. Rev. Drug Discov. 15, 605–619 (2016).
Gossert, A. D. & Jahnke, W. NMR in drug discovery: a practical guide to identification and validation of ligands interacting with biological macromolecules. Prog. Nucl. Magn. Reson. Spectrosc. 97, 82–125 (2016).
Mayer, M. & Meyer, B. Characterization of ligand binding by saturation transfer difference NMR spectroscopy. Angew. Chem. Int. Ed. 38, 1784–1788 (1999).
Dalvit, C. et al. Identification of compounds with binding affinity to proteins via magnetization transfer from bulk water. J. Biomol. NMR 18, 65–68 (2000).
Claridge, T. High-resolution NMR Techniques in Organic Chemistry. No. Bd. 19 in High-Resolution NMR Techniques in Organic Chemistry (Elsevier Science, 1999).
Sonnefeld, A., Razanahoera, A., Pelupessy, P., Bodenhausen, G. & Sheberstov, K. Long-lived states of methylene protons in achiral molecules. Sci. Adv. 8, eade2113 (2022).
Sonnefeld, A., Bodenhausen, G. & Sheberstov, K. Polychromatic excitation of delocalized long-lived proton spin states in aliphatic chains. Phys. Rev. Lett. 129, 183203 (2022).
Kozinenko, V. P., Kiryutin, A. S. & Yurkovskaya, A. V. Exploring weak ligand-protein interactions by relaxometry of long-lived spin order. Phys. Chem. Chem. Phys. 26, 15968–15977 (2024).
McKenzie, E. A. & Abbott, W. M. Expression of recombinant proteins in insect and mammalian cells. Methods 147, 40–49 (2018).
Lorz, N., Czarniecki, B., Loss, S., Meier, B. & Gossert, A. D. Higher contrast in 1H-observed NMR ligand screening with the PEARLScreen experiment. Angew. Chem. Int. Ed. 64, e202423879 (2025).
Carravetta, M. & Levitt, M. H. Long-lived nuclear spin states in high-field solution NMR. J. Am. Chem. Soc. 126, 6228–6229 (2004).
Ardenkjær-Larsen, J. H. et al. Increase in signal-to-noise ratio of >10,000 times in liquid-state NMR. Proc. Natl. Acad. Sci. USA 100, 10158–10163 (2003).
Adams, R. W. et al. Reversible interactions with para-hydrogen enhance NMR sensitivity by polarization transfer. Science 323, 1708–1711 (2009).
Kim, Y. & Hilty, C. Affinity screening using competitive binding with fluorine-19 hyperpolarized ligands. Angew. Chem. Int. Ed. 54, 4941–4944 (2015).
Qi, C., Wang, Y. & Hilty, C. Application of relaxation dispersion of hyperpolarized 13C spins to protein-ligand binding. Angew. Chem. Int. Ed. 60, 24018–24021 (2021).
Cala, O. et al. Micromolar concentration affinity study on a benchtop NMR spectrometer with secondary 13C labeled hyperpolarized ligands. ACS Omega 10, 3332–3337 (2025).
Torres, F. et al. Ultrafast fragment screening using photo-hyperpolarized (CIDNP) NMR. J. Am. Chem. Soc. 145, 12066–12080 (2023).
Stadler, G. R. et al. Fragment screening and fast micromolar detection on a benchtop NMR spectrometer boosted by photoinduced hyperpolarization. Angew. Chem. Int. Ed. 62, e202308692 (2023).
Redfield, A. G. The theory of relaxation processes. Adv. Magn. Reson. 1, 1–32 (1965).
Narwal, P. et al. Bullet-DNP enables NMR spectroscopy of pyruvate and amino acids at nanomolar to low micromolar concentrations. Anal. Chem. 96, 14734–14740 (2024).
Kouřil, K., Gramberg, M., Jurkutat, M., Kouřilová, H. & Meier, B. A cryogen-free, semi-automated apparatus for bullet-dynamic nuclear polarization with improved resolution. Magn. Reson. 2, 815–825 (2021).
Flashman, E. et al. Kinetic rationale for selectivity toward n- and c-terminal oxygen-dependent degradation domain substrates mediated by a loop region of hypoxia-inducible factor prolyl hydroxylases. J. Biol. Chem. 283, 3808–3815 (2008).
Fong, G.-H. & Takeda, K. Role and regulation of prolyl hydroxylase domain proteins. Cell Death Differ. 15, 635–641 (2008).
Pollard, P., Yang, M., Su, H., Soga, T. & Kranc, K. Prolyl hydroxylase domain enzymes: important regulators of cancer metabolism. Hypoxia 2, 127 (2014).
Kaelin, W. G. & Ratcliffe, P. J. Oxygen sensing by metazoans: the central role of the HIF hydroxylase pathway. Mol. Cell 30, 393–402 (2008).
Leung, I. K. H. et al. Reporter ligand NMR screening method for 2-oxoglutarate oxygenase inhibitors. J. Med. Chem. 56, 547–555 (2013).
Bloembergen, N., Purcell, E. M. & Pound, R. V. Relaxation effects in nuclear magnetic resonance absorption. Phys. Rev. 73, 679–712 (1948).
Kowalewski, J. & Kruk, D. Paramagnetic relaxation in solution. eMagRes 1–9 https://doi.org/10.1002/9780470034590.emrstm0375.pub2 (2011).
Dalvit, C., Gmür, I., Rößler, P. & Gossert, A. D. Affinity measurement of strong ligands with NMR spectroscopy: limitations and ways to overcome them. Prog. Nucl. Magn. Reson. Spectrosc. 138-139, 52–69 (2023).
Charlier, C. et al. Nanosecond time scale motions in proteins revealed by high-resolution NMR relaxometry. J. Am. Chem. Soc. 135, 18665–18672 (2013).
Buratto, R., Mammoli, D., Canet, E. & Bodenhausen, G. Ligand-protein affinity studies using long-lived states of fluorine-19 nuclei. J. Med. Chem. 59, 1960–1966 (2016).
Ceillier, M. et al. An automated system for fast transfer and injection of hyperpolarized solutions. J. Magn. Reson. Open 8-9, 100017 (2021).
van Bentum, P., Janssen, J., Kentgens, A., Bart, J. & Gardeniers, J. Stripline probes for nuclear magnetic resonance. J. Magn. Reson. 189, 104–113 (2007).
de Vries, A. J. O. et al. Inline reaction monitoring of amine-catalyzed acetylation of benzyl alcohol using a microfluidic stripline nuclear magnetic resonance setup. J. Am. Chem. Soc. 141, 5369–5380 (2019).
Badilita, V. et al. Microscale nuclear magnetic resonance: a tool for soft matter research. Soft Matter 8, 10583 (2012).
Narwal, P., Minaei, M., Lorz, N., Gossert, A. D. & Meier, B. Single-scan detection of ligand-binding using hyperpolarization and low-field relaxation (datasets). KITopen (2025).
Acknowledgements
This work has received funding from the European Research Council (ERC) via the Synergy grant “Highly Informative Drug Screening by Overcoming NMR Restrictions” (HiSCORE, grant agreement no. 951459), from the “Impuls- und Vernetzungsfonds of the Helmholtz-Association” (grant number VH-NG-1432), and from the Deutsche Forschungsgemeinschaft (DFG, grant number 454252029 - SFB1527).
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P.N. conducted the experiment with support from M.M. and N.L. P.N. analyzed data with support from B.M. A.G., B.M., and P.N. conceived the experiment. N.L. produced the PHD protein, and N.L., A.G., and P.N. wrote and adapted the pulse sequence. B.M. and P.N. wrote the manuscript with contributions by A.G. and N.L. All authors reviewed the manuscript.
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All authors have filed an EU patent application on drug screening using DNP and low-field relaxation as a contrast mechanism (EP 25152466.6). B.M. is co-owner of HyperSpin Scientific UG.
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Communications Chemistry thanks Samuel F. Cousin and the other, anonymous, reviewer(s) for their contribution to the peer review of this work. A peer review file is available.
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Narwal, P., Lorz, N., Minaei, M. et al. Single-scan detection of ligand-binding using hyperpolarization and low-field relaxation. Commun Chem (2026). https://doi.org/10.1038/s42004-026-01934-7
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DOI: https://doi.org/10.1038/s42004-026-01934-7