Physiological-Temperature Distance Measurement in Nucleic Acid using Triarylmethyl-Based Spin Labels and Pulsed Dipolar EPR Spectroscopy

Resolving the nanometer-scale structure of biomolecules in natural conditions still remains a challenging task. We report the first distance measurement in nucleic acid at physiological temperature using electron paramagnetic resonance (EPR). The model 10-mer DNA duplex has been labeled with reactive forms of triarylmethyl radicals and then immobilized on a sorbent in water solution and investigated by double quantum coherence EPR. We succeeded in development of optimal triarylmethyl-based labels, approach for site-directed spin labeling and efficient immobilization procedure that, working together, allowed us to measure as long distances as ∼4.6 nm with high accuracy at 310 K (37 °C)

Novel Biradicals for Direct Excitation Highfield Dynamic Nuclear Polarization

Synthesis of novel trityl-nitroxyl biradicals and their performance as polarization agents in DNP-enhanced solid-state MAS NMR spectroscopy is presented. Signal enhancements in ¹H, ¹H → ¹³C CP MAS, and ¹³C MAS experiments obtained with these radicals dissolved in 1,1,2,2-tetrachloroethane (TCE) solution are compared with the enhancements obtained from TCE solutions of binitroxyl radicals. The signal enhancements are correlated with the distance between the radical centers of the biradicals, as determined by theoretical structure calculations. Some of the biradical TCE solutions display direct-channel resonances in ¹³C MAS experiments as well as indirect channel resonances induced via the proton spin reservoir. Differential scanning calorimetry reveals that only these solutions do not form any solid crystalline phases upon rapid cooling, suggesting that molecular motions needed for polarization transfer from radicals to ¹³C via the proton spin reservoir remain active at the experimental low temperatures of nominal 120 K. DNP magnetic field sweep enhancement profiles for selected new biradicals are presented as well. These indicate that the DNP transfer is dominated by the cross-effect mechanism