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Ligand-induced structural transitions combined with paramagnetic ions facilitate unambiguous NMR assignments of methyl groups in large proteins
Apr 10, 2022 - 9:31 PM - by nmrlearner
nmrlearner's Avatar Ligand-induced structural transitions combined with paramagnetic ions facilitate unambiguous NMR assignments of methyl groups in large proteins

Abstract

NMR spectroscopy allows the study of biomolecules in close-to-native conditions. Structural information can be inferred from the NMR spectra when an assignment is available. Protein assignment is usually a time-consuming task, being specially challenging in the case of large, supramolecular systems. Here, we present an extension of existing state-of-the-art strategies for methyl group assignment that partially overcomes signal overlapping and other difficulties associated to isolated methyl groups. Our approach exploits the ability of proteins to populate two or more conformational states, allowing for unique NOE restraints in each protein conformer. The method is compatible with automated assignment algorithms, granting assignments beyond the limits of a single protein state. The approach also benefits from long-range structural restraints obtained from metal-induced pseudocontact shifts (PCS) and paramagnetic relaxation enhancements (PREs). We illustrate the method with the complete assignment of the 199 methyl groups of a MILproSVproSAT methyl-labeled sample of the UDP-glucose pyrophosphorylase enzyme from Leishmania major (LmUGP). Protozoan parasites of the genus Leishmania causes Leishmaniasis, a neglected disease affecting over 12 million people worldwide. LmUGP is responsible for the de novo biosynthesis of uridine diphosphate-glucose, a precursor in the biosynthesis of the dense surface glycocalyx involved in parasite survival and infectivity. NMR experiments with LmUGP and related enzymes have the potential to unravel new insights in... [Read More]
0 Replies | 85 Views
pH- and Calcium-Dependent Aromatic Network in the SARS-CoV-2 Envelope Protein - DocWire News
Apr 10, 2022 - 6:02 AM - by nmrlearner
nmrlearner's Avatar pH- and Calcium-Dependent Aromatic Network in the SARS-CoV-2 Envelope Protein - DocWire News

pH- and Calcium-Dependent Aromatic Network in the SARS-CoV-2 Envelope Protein DocWire News Read here
0 Replies | 100 Views
[NMR paper] Functional control of a 0.5 MDa TET aminopeptidase by a flexible loop revealed by MAS NMR
Apr 10, 2022 - 6:02 AM - by nmrlearner
nmrlearner's Avatar Functional control of a 0.5 MDa TET aminopeptidase by a flexible loop revealed by MAS NMR

Large oligomeric enzymes control a myriad of cellular processes, from protein synthesis and degradation to metabolism. The 0.5 MDa large TET2 aminopeptidase, a prototypical protease important for cellular homeostasis, degrades peptides within a ca. 60 wide tetrahedral chamber with four lateral openings. The mechanisms of substrate trafficking and processing remain debated. Here, we integrate magic-angle spinning (MAS) NMR, mutagenesis, co-evolution analysis and molecular dynamics simulations...

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0 Replies | 85 Views
Targeted in situ cross-linking mass spectrometry and integrative modeling reveal the architectures of three proteins from SARS-CoV-2 - pnas.org
Apr 09, 2022 - 10:38 AM - by nmrlearner
nmrlearner's Avatar Targeted in situ cross-linking mass spectrometry and integrative modeling reveal the architectures of three proteins from SARS-CoV-2 - pnas.org

Targeted in situ cross-linking mass spectrometry and integrative modeling reveal the architectures of three proteins from SARS-CoV-2 pnas.org Read here
0 Replies | 79 Views
Protein Crystallization And Crystallography Market Size, Growth And Forecast | Bruker Corporation, Rigaku Corporation, Hampton Research, Agilent Technologies, Corning Incorporated, Tecan Group, SARomics Biostructures, Spectris plc, Charles River Labo
Apr 08, 2022 - 9:35 PM - by nmrlearner
nmrlearner's Avatar Protein Crystallization And Crystallography Market Size, Growth And Forecast | Bruker Corporation, Rigaku Corporation, Hampton Research, Agilent Technologies, Corning Incorporated, Tecan Group, SARomics Biostructures, Spectris plc, Charles River Labor - Bloomingprairieonline

Protein Crystallization And Crystallography Market Size, Growth And Forecast | Bruker Corporation, Rigaku Corporation, Hampton Research, Agilent Technologies, Corning Incorporated, Tecan Group, SARomics Biostructures, Spectris plc, Charles River Labor Bloomingprairieonline Read here
0 Replies | 91 Views
The SARS-CoV-2 Spike Glycoprotein Directly Binds Exogeneous Sialic Acids: A NMR View - John Wiley
Apr 08, 2022 - 9:35 PM - by nmrlearner
nmrlearner's Avatar The SARS-CoV-2 Spike Glycoprotein Directly Binds Exogeneous Sialic Acids: A NMR View - John Wiley

The SARS-CoV-2 Spike Glycoprotein Directly Binds Exogeneous Sialic Acids: A NMR View John Wiley Read here
0 Replies | 80 Views
[NMR paper] Fundamental and practical aspects of machine learning for the peak picking of biomolecular NMR spectra
Apr 08, 2022 - 9:35 PM - by nmrlearner
nmrlearner's Avatar Fundamental and practical aspects of machine learning for the peak picking of biomolecular NMR spectra

Rapid progress in machine learning offers new opportunities for the automated analysis of multidimensional NMR spectra ranging from protein NMR to metabolomics applications. Most recently, it has been demonstrated how deep neural networks (DNN) designed for spectral peak picking are capable of deconvoluting highly crowded NMR spectra rivaling the facilities of human experts. Superior DNN-based peak picking is one of a series of critical steps during NMR spectral processing, analysis, and...

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0 Replies | 111 Views
[ASAP] In-Cell Quantification of Drugs by Magic-Angle Spinning Dynamic Nuclear Polarization NMR
Apr 07, 2022 - 3:51 PM - by nmrlearner
nmrlearner's Avatar [ASAP] In-Cell Quantification of Drugs by Magic-Angle Spinning Dynamic Nuclear Polarization NMR

Andrea Bertarello, Pierrick Berruyer, Markus Artelsmair, Charles S. Elmore, Sepideh Heydarkhan-Hagvall, Markus Schade, Elisabetta Chiarparin, Staffan Schantz, and Lyndon Emsley



Journal of the American Chemical Society
DOI: 10.1021/jacs.1c12442



Source: Journal of the American Chemical Society
0 Replies | 88 Views
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