In-cell NMR spectroscopy of nucleic acids: Basic concepts, practical aspects, and applications

Authors: Foldynova-Trantirkova, Silvie ^{a, 1}, Harnos, Jakub ^{b, 1}, Rynes, Jan ^a, Zlinska, Vladimira ^{a, c}, Trantirek, Lukas ^{a, ⁎}

Source: In Progress in Nuclear Magnetic Resonance Spectroscopy August-October 2025 148-149

19F solid-state NMR approaches to probe antimicrobial peptide interactions with membranes in whole cells

Authors: Kumar, Kiran ^a, Arnold, Alexandre A. ^a, Gauthier, Raphaël ^b, Mamone, Marius ^b, Paquin, Jean-François ^b, Warschawski, Dror E. ^{a, c, ⁎⁎}, Marcotte, Isabelle ^{a, ⁎}

Source: In BBA - Biomembranes March 2024 1866(3)

Hyperpolarized 13C NMR Reveals Pathway Regulation in Lactococcus lactis and Metabolic Similarities and Differences Across the Tree of Life

Authors: Sebastian Meier, Alexandra L. N. Zahid, Lucas Rebien Jørgensen, Ke-Chuan Wang, Peter Ruhdal Jensen, Pernille Rose Jensen

Source: Molecules, Vol 29, Iss 17, p 4133 (2024)

Subject Terms: 13C NMR, glycolysis, dDNP NMR, in-cell NMR, kinetic control, Lactococcus lactis, Organic chemistry, QD241-441

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Relation: https://www.mdpi.com/1420-3049/29/17/4133; https://doaj.org/toc/1420-3049

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High resolution protein in-cell NMR in zebrafish embryos

Authors: Verónica A. Lombardo, Rubina Armesto, Idalia Herrera-Estrada, Andrés Binolfi

Source: Journal of Magnetic Resonance Open, Vol 16, Iss , Pp 100111- (2023)

Subject Terms: in-cell NMR, in vivo NMR, Zebrafish, Intrinsically disordered proteins, Synuclein, Acetylation, Medical physics. Medical radiology. Nuclear medicine, R895-920, Physics, QC1-999

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Relation: http://www.sciencedirect.com/science/article/pii/S2666441023000195; https://doaj.org/toc/2666-4410

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Hyperpolarized 13C NMR for longitudinal in-cell metabolism using a mobile 3D cell culture system

Authors: T.B.W. Mathiassen, A.E. Høgh, M. Karlsson, S. Katsikis, K. Wang, M. Pennestri, J.H. Ardenkjær-Larsen, P.R. Jensen

Source: Journal of Magnetic Resonance Open, Vol 16, Iss , Pp 100131- (2023)

Subject Terms: Dissolution dynamic nuclear polarization, In-Cell NMR, Metabolism, Longitudinal cell studies, Nuclear magnetic resonance, Medical physics. Medical radiology. Nuclear medicine, R895-920, Physics, QC1-999

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Relation: http://www.sciencedirect.com/science/article/pii/S2666441023000390; https://doaj.org/toc/2666-4410

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CPMAS NMR platform for direct compositional analysis of mycobacterial cell-wall complexes and whole cells

Authors: Xinyu Liu, Jasna Brčić, Gail H. Cassell, Lynette Cegelski

Source: Journal of Magnetic Resonance Open, Vol 16, Iss , Pp 100127- (2023)

Subject Terms: CPMAS, Mycobacteria, Cell walls, Antibiotics, Whole-cell NMR, Mycobacterium abscessus, Medical physics. Medical radiology. Nuclear medicine, R895-920, Physics, QC1-999

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Relation: http://www.sciencedirect.com/science/article/pii/S2666441023000353; https://doaj.org/toc/2666-4410

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Affordable amino acid α/β-deuteration and specific labeling for NMR signal enhancement: Evaluation on the kinase p38α

Authors: Rania Ghouil, Chafiaa Bouguechtouli, Hélène Chérot, Agathe Marcelot, Maxime Roche, Francois-Xavier Theillet

Source: Journal of Magnetic Resonance Open, Vol 16, Iss , Pp 100126- (2023)

Subject Terms: Kinase, p38, Cell-free expression, Deuteration, In-cell NMR, Medical physics. Medical radiology. Nuclear medicine, R895-920, Physics, QC1-999

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Relation: http://www.sciencedirect.com/science/article/pii/S2666441023000341; https://doaj.org/toc/2666-4410

Access URL: https://doaj.org/article/3038acd041dd4e6297a82050afa43182

In-Cell NMR Spectroscopy: Biomolecular Structure and Function

Authors: Burz, David S., Shekhtman, Alexander

Subject Terms: QH301-705.5, Q1-390, protein NMR, time-resolved NMR, Ribosome, structural calculation 4, crystalline and amorphous starch, in-cell NMR, protein dynamics, DNP, protein modification, Tau, spectrum reconstruction 3, mRNA, Thioredoxin, protein structure, protein interactions, drug discovery, protein structure determination 1, review, enzyme activity, MARK2 phosphorylation, post-translational modifications, Dihydrofolate reductase, mammalian cells, target engagement, non-uniform sampling 2, paramagnetic effects, protein structure-function, cross-correlated relaxation, structure function, rRNA, 2D INADEQUATE, lipid membrane, Thymidylate synthase, whole cell NMR, enzyme kinetics, magic-angle spinning, live cell, solid-state NMR, Adenylate kinase, DNA, in-situ NMR, antimicrobial peptide, NMR spectroscopy, intrinsically disordered proteins, Biology, life sciences

File Description: application/octet-stream

Access URL: https://directory.doabooks.org/handle/20.500.12854/50093
https://mdpi.com/books/pdfview/book/2256

Mechanisms of antimicrobial peptides as characterized by solid-state NMR

Authors: Rong Han, Shenlin Wang

Source: Magnetic Resonance Letters, Vol 2, Iss 2, Pp 119-129 (2022)

Subject Terms: Antimicrobial peptides (AMP), Solid-state NMR (SSNMR), Sample preparation, Antimicrobial mechanisms, Whole-cell NMR, Physical and theoretical chemistry, QD450-801, Analytical chemistry, QD71-142

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Relation: http://www.sciencedirect.com/science/article/pii/S2772516221000309; https://doaj.org/toc/2772-5162

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In-cell DNP NMR reveals multiple targeting effect of antimicrobial peptide

Authors: Separovic, Frances ^a, Hofferek, Vinzenz ^b, Duff, Anthony P. ^c, McConville, Malcom J. ^b, Sani, Marc-Antoine ^{a, ⁎}

Source: In Journal of Structural Biology: X 2022 6

Ligand-observed in-tube NMR in natural products research: A review on enzymatic biotransformations, protein–ligand interactions, and in-cell NMR spectroscopy

Authors: Ioannis P. Gerothanassis

Source: Arabian Journal of Chemistry, Vol 16, Iss 3, Pp 104536- (2023)

Subject Terms: Biotransformations, STD NMR, TR-NOESY NMR, INPHARMA/ILOE NMR, In-cell NMR, Chemistry, QD1-999

File Description: electronic resource

Relation: http://www.sciencedirect.com/science/article/pii/S1878535222008528; https://doaj.org/toc/1878-5352

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A novel approach for studying receptor-ligand interactions on living cells surface by using NUS/T1ρ-NMR methodologies combined with computational techniques: The RGDechi15D-αvβ5 integrin complex

Authors: Biancamaria Farina, Corvino Andrea, Annarita Del Gatto, Daniela Comegna, Sonia Di Gaetano, Domenica Capasso, Antonella Paladino, Clementina Acconcia, Maria Teresa Gentile, Michele Saviano, Roberto Fattorusso, Laura Zaccaro, Luigi Russo

Source: Computational and Structural Biotechnology Journal, Vol 19, Iss , Pp 3303-3318 (2021)

Subject Terms: On-cell NMR, Natural-abundance NMR, Recognition mechanism, Integrin, Structure-dynamics-activity relationship, Molecular dynamics simulations, Biotechnology, TP248.13-248.65

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Relation: http://www.sciencedirect.com/science/article/pii/S2001037021002282; https://doaj.org/toc/2001-0370

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Conversion of Similar Xenochemicals to Dissimilar Products: Exploiting Competing Reactions in Whole-Cell Catalysis

Authors: Francesca Sannelli, Nikoline Corell Sindahl, Stefan S. Warthegau, Pernille Rose Jensen, Sebastian Meier

Source: Molecules, Vol 28, Iss 13, p 5157 (2023)

Subject Terms: carboligation, D-DNP NMR, in-cell NMR, pyruvate decarboxylase, substrate mixtures, sustainable chemistry, Organic chemistry, QD241-441

File Description: electronic resource

Relation: https://www.mdpi.com/1420-3049/28/13/5157; https://doaj.org/toc/1420-3049

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Monitoring Protein-Ligand Interactions in Human Cells by Real-Time Quantitative In-Cell NMR using a High Cell Density Bioreactor

Authors: Letizia Barbieri, author^{1, 2}, Enrico Luchinat, author^{1, 3}

Source: Journal of Visualized Experiments. (169)

Availability: http://www.jove.com/video/62323

Cryogenic Sample Loading into a Magic Angle Spinning Nuclear Magnetic Resonance Spectrometer that Preserves Cellular Viability

Authors: Rupam Ghosh, author¹, Jaka Kragelj, author¹, Yiling Xiao, author¹, Kendra K. Frederick, author^{1, 2}

Source: Journal of Visualized Experiments. (163)

Availability: http://www.jove.com/video/61733

In-Cell NMR of Intact Mammalian Cells Preserved with the Cryoprotectants DMSO and Glycerol Have Similar DNP Performance

Authors: Yiling Xiao, Rupam Ghosh, Kendra K. Frederick

Source: Frontiers in Molecular Biosciences, Vol 8 (2022)

Subject Terms: Dynamic nuclear polarization (DNP), AMUPol, cryopreservation, DMSO (dimethyl sulphoxide), glycerol, in-cell NMR, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fmolb.2021.789478/full; https://doaj.org/toc/2296-889X

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Biomolecular Perturbations in In-Cell Dynamic Nuclear Polarization Experiments

Authors: Sarah A. Overall, Alexander B. Barnes

Source: Frontiers in Molecular Biosciences, Vol 8 (2021)

Subject Terms: in-cell NMR, dynamic nuclear polarization, in-cell DNP-NMR, cryopreservation, apoptosis, cell viability, Biology (General), QH301-705.5

File Description: electronic resource

Relation: https://www.frontiersin.org/articles/10.3389/fmolb.2021.743829/full; https://doaj.org/toc/2296-889X

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NMR-Based Activity Assays for Determining Compound Inhibition, IC50 Values, Artifactual Activity, and Whole-Cell Activity of Nucleoside Ribohydrolases

Authors: Brian J. Stockman, author¹, Abinash Kaur, author¹, Julia K. Persaud, author¹, Maham Mahmood, author¹, Samantha F. Thuilot, author¹, Melissa B. Emilcar, author¹, Madison Canestrari, author¹, Juliana A. Gonzalez, author¹, Shannon Auletta, author¹, Vital Sapojnikov, author¹, Wagma Caravan, author^{1, 2}, Samantha N. Muellers, author^{1, 3}

Source: Journal of Visualized Experiments. (148)

Availability: http://www.jove.com/video/59928

Real-Time In-Cell NMR Reveals the Intracellular Modulation of GTP-Bound Levels of RAS

Authors: Qingci Zhao, Ryu Fujimiya, Satoshi Kubo, Christopher B. Marshall, Mitsuhiko Ikura, Ichio Shimada, Noritaka Nishida

Source: Cell Reports, Vol 32, Iss 8, Pp 108074- (2020)

Subject Terms: RAS, small GTPase, oncogenic mutants, in-cell NMR, time-resolved NMR, molecular crowding, Biology (General), QH301-705.5

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Relation: http://www.sciencedirect.com/science/article/pii/S2211124720310597; https://doaj.org/toc/2211-1247

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Physicochemical code for quinary protein interactions in Escherichia coli

Authors: Mu, Xin, Choi, Seongil, Lang, Lisa, Mowray, David, Dokholyan, Nikolay V., Danielsson, Jens, Oliveberg, Mikael

Source: Proceedings of the National Academy of Sciences of the United States of America, 2017 Jun 01. 114(23), E4556-E4563.

Access URL: https://www.jstor.org/stable/26484161