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The NMR2 Method to Determine Rapidly the Structure of the Binding Pocket of a Protein–Ligand Complex with High Accuracy

Laboratorium für Physikalische Chemie, ETH Zürich, Vladimir-Prelog-Weg 2, 8093 Zürich, Switzerland
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Magnetochemistry 2018, 4(1), 12; https://doi.org/10.3390/magnetochemistry4010012
Received: 22 November 2017 / Revised: 25 December 2017 / Accepted: 4 January 2018 / Published: 22 January 2018
(This article belongs to the Special Issue Nuclear Magnetic Resonance Spectroscopy)
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Abstract

Structural characterization of complexes is crucial for a better understanding of biological processes and structure-based drug design. However, many protein–ligand structures are not solvable by X-ray crystallography, for example those with low affinity binders or dynamic binding sites. Such complexes are usually targeted by solution-state NMR spectroscopy. Unfortunately, structure calculation by NMR is very time consuming since all atoms in the complex need to be assigned to their respective chemical shifts. To circumvent this problem, we recently developed the Nuclear Magnetic Resonance Molecular Replacement (NMR2) method. NMR2 very quickly provides the complex structure of a binding pocket as measured by solution-state NMR. NMR2 circumvents the assignment of the protein by using previously determined structures and therefore speeds up the whole process from a couple of months to a couple of days. Here, we recall the main aspects of the method, show how to apply it, discuss its advantages over other methods and outline its limitations and future directions. View Full-Text
Keywords: complex structure; drug design; NMR spectroscopy; NMR2; structure elucidation complex structure; drug design; NMR spectroscopy; NMR2; structure elucidation
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Wälti, M.A.; Orts, J. The NMR2 Method to Determine Rapidly the Structure of the Binding Pocket of a Protein–Ligand Complex with High Accuracy. Magnetochemistry 2018, 4, 12.

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