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https://www.readbyqxmd.com/read/28336532/moag-4-promotes-the-aggregation-of-%C3%AE-synuclein-by-competing-with-self-protective-electrostatic-interactions
#1
Yuichi Yoshimura, Mats A Holmberg, Predrag Kukic, Camilla B Andersen, Alejandro Mata-Cabana, S Fabio Falsone, Michele Vendruscolo, Ellen A A Nollen, Frans A A Mulder
Aberrant protein aggregation underlies a variety of age-related neurodegenerative disorders, including Alzheimer's and Parkinson's diseases. Little is known, however, about the molecular mechanisms that modulate the aggregation process in the cellular environment. Recently, MOAG-4/SERF has been identified as a class of evolutionarily conserved proteins that positively regulates aggregate formation. Here, by using nuclear magnetic resonance (NMR) spectroscopy, we examine the mechanism of action of MOAG-4 by characterizing its interaction with α-synuclein (αSyn)...
March 23, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28332842/generation-of-antifungal-stilbenes-using-the-enzymatic-secretome-of-botrytis-cinerea
#2
Katia Gindro, Sylvain Schnee, Davide Righi, Laurence Marcourt, Samad Nejad Ebrahimi, Josep Massana Codina, Francine Voinesco, Emilie Michellod, Jean-Luc Wolfender, Emerson Ferreira Queiroz
The protein secretome of Botrytis cinerea was used to perform the biotransformation of resveratrol, pterostilbene, and a mixture of both. Metabolite profiling by UHPLC-HRMS revealed the presence of compounds with unusual molecular formula, suggesting the existence of new products. To isolate these products, the reactions were scaled-up, and 21 analogues were isolated and fully characterized by NMR and HRESIMS analyses. The reaction with pterostilbene afforded five new compounds, while the reaction with a mixture of pterostilbene and resveratrol afforded seven unusual stilbene dimers...
March 23, 2017: Journal of Natural Products
https://www.readbyqxmd.com/read/28332759/structural-adaptation-of-a-protein-to-increased-metal-stress-nmr-structure-of-a-marine-snail-metallothionein-with-an-additional-domain
#3
Christian Baumann, Andrea Beil, Simon Jurt, Michael Niederwanger, Oscar Palacios, Mercè Capdevila, Sílvia Atrian, Reinhard Dallinger, Oliver Zerbe
In this study, we present an NMR structure of the metallothionein (MT) from the snail Littorina littorea (LlMT) in complex with Cd(2+) . LlMT is capable of binding 9 Zn(2+) or 9 Cd(2+) ions. Sequence alignments with other snail MTs revealed that the protein is likely composed of three domains. The study revealed that the protein is divided into three individual domains, each of which folds into a single well-defined three-metal cluster. The central α2 and C-terminal β domains are positioned with a unique relative orientation...
March 23, 2017: Angewandte Chemie
https://www.readbyqxmd.com/read/28331191/identification-of-a-novel-small-molecule-partial-agonist-for-the-cyclic-amp-sensor-epac1
#4
Euan Parnell, Stuart P McElroy, Jolanta Wiejak, Gemma L Baillie, Alison Porter, David R Adams, Holger Rehmann, Brian O Smith, Stephen J Yarwood
Screening of a carefully selected library of 5,195 small molecules identified 34 hit compounds that interact with the regulatory cyclic nucleotide-binding domain (CNB) of the cAMP sensor, EPAC1. Two of these hits (I942 and I178) were selected for their robust and reproducible inhibitory effects within the primary screening assay. Follow-up characterisation by ligand observed nuclear magnetic resonance (NMR) revealed direct interaction of I942 and I178 with EPAC1 and EPAC2-CNBs in vitro. Moreover, in vitro guanine nucleotide exchange factor (GEF) assays revealed that I942 and, to a lesser extent, I178 had partial agonist properties towards EPAC1, leading to activation of EPAC1, in the absence of cAMP, and inhibition of GEF activity in the presence of cAMP...
March 22, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28330994/combining-dnp-nmr-with-segmental-and-specific-labeling-to-study-a-yeast-prion-protein-strain-that-is-not-parallel-in-register
#5
Kendra K Frederick, Vladimir K Michaelis, Marc A Caporini, Loren B Andreas, Galia T Debelouchina, Robert G Griffin, Susan Lindquist
The yeast prion protein Sup35NM is a self-propagating amyloid. Despite intense study, there is no consensus on the organization of monomers within Sup35NM fibrils. Some studies point to a β-helical arrangement, whereas others suggest a parallel in-register organization. Intermolecular contacts are often determined by experiments that probe long-range heteronuclear contacts for fibrils templated from a 1:1 mixture of (13)C- and (15)N-labeled monomers. However, for Sup35NM, like many large proteins, chemical shift degeneracy limits the usefulness of this approach...
March 22, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28330825/streamlining-workflow-and-automation-to-accelerate-laboratory-scale-protein-production
#6
REVIEW
Jennifer Konczal, Christopher H Gray
Protein production facilities are often required to produce diverse arrays of proteins for demanding methodologies including crystallography, NMR, ITC and other reagent intensive techniques. It is common for these teams to find themselves a bottleneck in the pipeline of ambitious projects. This pressure to deliver has resulted in the evolution of many novel methods to increase capacity and throughput at all stages in the pipeline for generation of recombinant proteins. This review aims to describe current and emerging options to accelerate the success of protein production in Escherichia coli...
March 18, 2017: Protein Expression and Purification
https://www.readbyqxmd.com/read/28328212/cu-ii-based-paramagnetic-probe-to-study-rna-protein-interactions-by-nmr
#7
Leah M Seebald, Christopher M DeMott, Srivathsan Ranganathan, Papa Nii Asare Okai, Anastasia Glazunova, Alan Chen, Alexander Shekhtman, Maksim Royzen
Paramagnetic NMR techniques allow for studying three-dimensional structures of RNA-protein complexes. In particular, paramagnetic relaxation enhancement (PRE) data can provide valuable information about long-range distances between different structural components. For PRE NMR experiments, oligonucleotides are typically spin-labeled using nitroxide reagents. The current work describes an alternative approach involving a Cu(II) cyclen-based probe that can be covalently attached to an RNA strand in the vicinity of the protein's binding site using "click" chemistry...
March 22, 2017: Inorganic Chemistry
https://www.readbyqxmd.com/read/28327552/probing-medin-monomer-structure-and-its-amyloid-nucleation-using-13-c-direct-detection-nmr-in-combination-with-structural-bioinformatics
#8
Hannah A Davies, Daniel J Rigden, Marie M Phelan, Jillian Madine
Aortic medial amyloid is the most prevalent amyloid found to date, but remarkably little is known about it. It is characterised by aberrant deposition of a 5.4 kDa protein called medin within the medial layer of large arteries. Here we employ a combined approach of ab initio protein modelling and (13)C-direct detection NMR to generate a model for soluble monomeric medin comprising a stable core of three β-strands and shorter more labile strands at the termini. Molecular dynamics simulations suggested that detachment of the short, C-terminal β-strand from the soluble fold exposes key amyloidogenic regions as a potential site of nucleation enabling dimerisation and subsequent fibril formation...
March 22, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28325834/structural-model-of-dodecameric-heat-shock-protein-hsp21-flexible-n-terminal-arms-interact-with-client-proteins-while-c-terminal-tails-maintain-the-dodecamer-and-chaperone-activity
#9
Gudrun Rutsdottir, Johan Härmark, Yoran Weide, Hans Hebert, Morten Ib Rasmussen, Sven Wernersson, Michal Respondek, Mikael Akke, Peter Højrup, Philip J B Koeck, Christopher A G Söderberg, Cecilia Emanuelsson
Small heat shock proteins (sHsps) prevent aggregation of thermosensitive client proteins in a first line of defense against cellular stress. The mechanisms by which they perform this function have been hard to define due to limited structural information; currently there is only one high-resolution structure of a plant sHsp published, of the cytosolic Hsp16.9. We took interest in Hsp21, a chloroplast-localized sHsp crucial for plant stress resistance, which has even longer N-terminals arms than Hsp16.9, with a functionally important and conserved methionine-rich motif...
March 21, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28325143/synthesis-and-characterization-of-a-new-benzo-indole-derivative-with-apoptotic-activity-against-colon-cancer-cells
#10
Fatemeh Hajiaghaalipou, Fadhil Lafta Faraj, Elham Bagheri, Hamid Khaledi, Hapipah Mohd Ali, Nazia Abdul Majid, Mahmood Ameen Abdulla
BACKGROUND: Colorectal cancer is the third most common form of cancer in both men and women around the world. The chemistry and biological study of heterocyclic compounds have been an interesting area for a long time in pharmaceutical and medicinal chemistry. METHODS: A new synthetic compound, 2-(1,1-Dimethyl-1,3-dihydro-benzo[e]indol-2-ylidene)-3-(2-hydroxy-phenylimino)-propionaldehyde, abbreviated as DBID has been synthesized by reaction of 2-(1,1-Dimethyl-1,3-dihydro-benzo[e]indol-2-ylidene)-malonaldehyde with 2-aminophenol...
March 20, 2017: Current Pharmaceutical Design
https://www.readbyqxmd.com/read/28323380/sarcophytrols-g-l-novel-minor-metabolic-components-from-south-china-sea-soft-coral-sarcophyton-trocheliophorum-marenzeller
#11
Lin-Fu Liang, Wen-Ting Chen, Ernesto Mollo, Li-Gong Yao, He-Yao Wang, Wei Xiao, Yue-Wei Guo
Minor metabolic components, six new cembranoids sarcophytrols G - L (1 - 6) along with two known related analogues 7 and 8, were isolated from the South China Sea soft coral Sarcophyton trocheliophorum. Their structures were elucidated by extensive spectroscopic analyses (1D- and 2D-NMR, and ESI-MS.) as well as comparison with literature data. As part of our ongoing research project for discovering bioactive substances from Chinese marine invertebrates, compounds 1 - 8 were tested for their inhibitory activity against protein tyrosine phosphatase 1B (PTP1B), a key target for the treatment of Type-II diabetes and obesity...
March 21, 2017: Chemistry & Biodiversity
https://www.readbyqxmd.com/read/28323047/biochemical-and-chemical-characterization-of-cynara-cardunculus-l-extract-and-its-potential-use-as-co-adjuvant-therapy-of-chronic-myeloid-leukemia
#12
Antonio Russo, Mariarita Perri, Erika Cione, Maria Luisa Di Gioia, Monica Nardi, Maria Cristina Caroleo
ETHNOPHARMACOLOGICAL RELEVANCE: Ancient mediterranean diet was characterized by consuming the spontaneous forms of Cynara Cardunculus L. (CCL), commonly called artichoke. Cultivated and/or spontaneous forms of CC studies have demonstrated that methanol extract of CCL flower and/or cynaropicrin showed remarkable anti-proliferative activity in vitro models of leukocyte cancer cell. AIM OF THE STUDY: Chronic myeloid leukemia (CML) is associated with a reciprocal translocation of the long arms of chromosomes 9 and 22 generating the BCR/ABL fusion gene, translated in the p210(BCR/ABL) oncoprotein kinase...
March 18, 2017: Journal of Ethnopharmacology
https://www.readbyqxmd.com/read/28318943/synthesis-and-antitumor-evaluation-of-2-3-diarylbenzofuran-derivatives-on-hela-cells
#13
Guo-Xue He, Jing-Mei Yuan, Hai-Miao Zhu, Kai Wei, Ling-Yun Wang, Shi-Lin Kong, Dong-Liang Mo, Cheng-Xue Pan, Gui-Fa Su
2,2-Dihydroxyarylethanones, readily prepared from the commercially available aromatic ethyl ketones, were reacted with resorcinol, 3-methoxyphenol or 2-methoxyphenol in multi steps one-pot manner promoted by trifluoroacetic acid to furnish the 2,3-diarylbenzofuran derivatives in 22-95% yield. Sixteen targeted compounds were synthesized and characterized by (1)H NMR, (13)C NMR and HRMS. MTT assay indicated that most compounds possessed effectively inhibitory activities against the proliferation of HeLa cell...
March 7, 2017: Bioorganic & Medicinal Chemistry Letters
https://www.readbyqxmd.com/read/28317964/how-does-ytterbium-chloride-interact-with-dmpc-bilayers-a-computational-and-experimental-study
#14
Miguel A Gonzalez, Hanna M G Barriga, Joanna L Richens, Robert V Law, Paul O'Shea, Fernando Bresme
Lanthanide salts have been studied for many years, primarily in Nuclear Magnetic Resonance (NMR) experiments of mixed lipid-protein systems and more recently to study lipid flip-flop in model membrane systems. It is well recognised that lanthanide salts can influence the behaviour of both lipid and protein systems, however a full molecular level description of lipid-lanthanide interactions is still outstanding. Here we present a study of lanthanide-bilayer interactions, using molecular dynamics computer simulations, fluorescence electrostatic potential experiments and nuclear magnetic resonance...
March 20, 2017: Physical Chemistry Chemical Physics: PCCP
https://www.readbyqxmd.com/read/28317766/first-evidences-of-interaction-between-pyranoanthocyanins-and-salivary-proline-rich-proteins
#15
Ignacio García-Estévez, Luís Cruz, Joana Oliveira, Nuno Mateus, Victor de Freitas, Susana Soares
The contribution of other classes of polyphenol compounds besides tannins to the overall perception of astringency is still poorly understood. So, this work aimed to study the interaction between a family of salivary proline-rich proteins (aPRPs) and representative pyranoanthocyanins in red wines [pyranomalvidin-3-glucoside (vitisin B), pyranomalvidin-3-glucoside-catechol, and pyranomalvidin-3-glucoside-epicatechin] using saturation transfer difference-NMR and MALDI-TOF. For vitisin B KD was of 1.74mM; for pyranomalvidin-3-glucoside-catechol was 1...
August 1, 2017: Food Chemistry
https://www.readbyqxmd.com/read/28317744/molecular-study-of-mucin-procyanidin-interaction-by-fluorescence-quenching-and-saturation-transfer-difference-std-nmr
#16
Elsa Brandão, Mafalda Santos Silva, Ignacio García-Estévez, Nuno Mateus, Victor de Freitas, Susana Soares
Astringency is closely related to the interaction between procyanidins and salivary proteins (SP). The aim of this work was to study the interaction between mucin, a SP responsible for saliva lubricating properties, with different procyanidins (B4 dimer, tetramer (TT) and fractions of oligomeric procyanidins), and the influence of several conditions [pH, ionic strength, procyanidins' mean degree of polymerization (mDP) and different solvents (ethanol or dimethylsulfoxide)] on this interaction by fluorescence quenching and Saturation Transfer Difference (STD)-NMR...
August 1, 2017: Food Chemistry
https://www.readbyqxmd.com/read/28317074/probing-conformational-dynamics-in-biomolecules-via-chemical-exchange-saturation-transfer-a-primer
#17
Pramodh Valluruapalli, Ashok Sekhar, Tairan Yuwen, Lewis E Kay
Although Chemical Exchange Saturation Transfer (CEST) type NMR experiments have been used to study chemical exchange processes in molecules since the early 1960s, there has been renewed interest in the past several years in using this approach to study biomolecular conformational dynamics. The methodology is particularly powerful for the study of sparsely populated, transiently formed conformers that are recalcitrant to investigation using traditional biophysical tools, and it is complementary to relaxation dispersion and magnetization transfer experiments that have traditionally been used to study chemical exchange processes...
March 19, 2017: Journal of Biomolecular NMR
https://www.readbyqxmd.com/read/28315749/integrated-structural-biology-to-unravel-molecular-mechanisms-of-protein-rna-recognition
#18
REVIEW
Andreas Schlundt, Jan-Niklas Tants, Michael Sattler
Recent advances in RNA sequencing technologies have greatly expanded our knowledge of the RNA landscape in cells, often with spatiotemporal resolution. These techniques identified many new (often non-coding) RNA molecules. Large-scale studies have also discovered novel RNA binding proteins (RBPs), which exhibit single or multiple RNA binding domains (RBDs) for recognition of specific sequence or structured motifs in RNA. Starting from these large-scale approaches it is crucial to unravel the molecular principles of protein-RNA recognition in ribonucleoprotein complexes (RNPs) to understand the underlying mechanisms of gene regulation...
March 15, 2017: Methods: a Companion to Methods in Enzymology
https://www.readbyqxmd.com/read/28314774/the-rare-sugar-n-acetylated-viosamine-is-a-major-component-of-mimivirus-fibers
#19
Francesco Piacente, Cristina De Castro, Sandra Jeudy, Matteo Gaglianone, Maria Elena Laugieri, Anna Notaro, Annalisa Salis, Gianluca Damonte, Chantal Abergel, Michela G Tonetti
The giant virus Mimivirus encodes an autonomous glycosylation system, which is thought to be responsible for the formation of complex and unusual glycans composing the fibers surrounding its icosahedral capsid, including the dideoxyhexose viosamine. Previous studies have identified a gene cluster in the virus genome, encoding enzymes involved in nucleotide-sugar production and glycan formation, but the functional characterization of these enzymes and the full identification of the glycans found in viral fibers remains incomplete...
March 17, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28314105/u24-from-roseolovirus-interactions-with-ww-domains-canonical-vs-non-canonical
#20
Yurou Sang, Rui Zhang, A Louise Creagh, Charles A Haynes, Suzana Katarina Straus
U24 is a C-terminal membrane-anchored protein found in both Human Herpes Virus type 6 and 7 (HHV-6 and HHV-7), with an N-terminal segment that is rich in prolines (PPxY motif in both HHV-6A and 7; PxxP motif in HHV-6A). Previous work has shown that U24 interacts strongly with Nedd4 WW domains, in particular hNedd4L-WW3*. It was also shown that this interaction depends strongly on the nature of the amino acids that are upstream from the PY motif in U24. In this contribution, data was obtained from pull-downs, isothermal titration calorimetry, and NMR to further determine what modulates U24:WW domain interactions...
March 17, 2017: Biochemistry and Cell Biology, Biochimie et Biologie Cellulaire
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