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Abstract Labeling of biomolecules with a paramagnetic probe for nuclear magnetic resonance (NMR) spectroscopy enables determining long-range distance restraints, which are otherwise not accessible by classically used dipolar coupling-based NMR approaches. Distance restraints derived from paramagnetic relaxation enhancements (PREs) can facilitate the structure determination of large proteins and protein complexes. We herein present the site-directed labeling of the large oligomeric bacterial DnaB helicase from Helicobacter pylori with cysteine-reactive maleimide tags carrying either a nitroxide radical or a lanthanide ion. The success of the labeling reaction was followed by quantitative continuous-wave electron paramagnetic resonance (EPR) experiments performed on the nitroxide-labeled protein. PREs were extracted site-specifically from 2D and 3D solid-state NMR spectra. A good agreement with predicted PRE values, derived by computational modeling of nitroxide and Gd 3+ tags in the low-resolution DnaB crystal structure, was found. Comparison of experimental PREs and model-predicted spin label-nucleus distances indicated that the size of the “blind sphere” around the paramagnetic center, in which NMR resonances are not detected, is slightly larger for Gd 3+ (~14 Å) than for nitroxide (~11 Å) in 13 C-detected 2D spectra of DnaB. We also present Gd 3+ -Gd 3+ dipolar electron-electron resonance EPR experiments on DnaB supporting the conclusion that DnaB was present as a hexameric assembly.
Magnetic Resonance Spectroscopy, Paramagnetic Relaxation Enhancement, Electron Spin Resonance Spectroscopy, Proteins, Molecular modeling, 530, Solid-state NMR, Motor protein, Solid-state NMR, Spin labeling, Paramagnetic Relaxation Enhancement, Molecular modeling, Motor protein, Spin labeling, Spin Labels, info:eu-repo/classification/ddc/530, DnaB Helicases, Solid-state NMR; Spin labeling; Paramagnetic Relaxation Enhancement; Molecular modeling; Motor protein
Magnetic Resonance Spectroscopy, Paramagnetic Relaxation Enhancement, Electron Spin Resonance Spectroscopy, Proteins, Molecular modeling, 530, Solid-state NMR, Motor protein, Solid-state NMR, Spin labeling, Paramagnetic Relaxation Enhancement, Molecular modeling, Motor protein, Spin labeling, Spin Labels, info:eu-repo/classification/ddc/530, DnaB Helicases, Solid-state NMR; Spin labeling; Paramagnetic Relaxation Enhancement; Molecular modeling; Motor protein
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