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Paramagnetic spin labeling of a bacterial DnaB helicase for solid-state NMR

Authors: Zehnder, Johannes; Cadalbert, Riccardo; Yulikov, Maxim; Künze, Georg; Wiegand, Thomas;

Paramagnetic spin labeling of a bacterial DnaB helicase for solid-state NMR

Abstract

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.

Countries
Switzerland, Germany, Switzerland
Keywords

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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selected citations
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This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
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