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Tetramer

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https://www.readbyqxmd.com/read/29158386/cholesterol-binding-site-of-the-influenza-m2-protein-in-lipid-bilayers-from-solid-state-nmr
#1
Matthew R Elkins, Jonathan K Williams, Martin D Gelenter, Peng Dai, Byungsu Kwon, Ivan V Sergeyev, Bradley L Pentelute, Mei Hong
The influenza M2 protein not only forms a proton channel but also mediates membrane scission in a cholesterol-dependent manner to cause virus budding and release. The atomic interaction of cholesterol with M2, as with most eukaryotic membrane proteins, has long been elusive. We have now determined the cholesterol-binding site of the M2 protein in phospholipid bilayers using solid-state NMR spectroscopy. Chain-fluorinated cholesterol was used to measure cholesterol proximity to M2 while sterol-deuterated cholesterol was used to measure bound-cholesterol orientation in lipid bilayers...
November 20, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/29155014/resveratrol-dimer-trans-%C3%AE%C2%B5-viniferin-prevents-rotaviral-diarrhea-in-mice-by-inhibition-of-the-intestinal-calcium-activated-chloride-channel
#2
Bo Yu, Yu Jiang, Bo Zhang, Hong Yang, Tonghui Ma
We previously identified, by a natural-product screen, resveratrol oligomers as inhibitors of the cystic fibrosis transmembrane conductance regulator (CFTR) chloride channel. Here, we report the resveratrol dimer trans-ε-viniferin (TV) and tetramer r-2-viniferin (RV) as inhibitors of the intestinal calcium-activated chloride channel (CaCC) and demonstrate their antisecretory efficacy in a neonatal mouse model of rotaviral diarrhea. Short-circuit measurements show inhibition of CaCC current in the human colonic cell line HT-29 by TV and RV with IC50∼1 and 20μM, respectively...
November 14, 2017: Pharmacological Research: the Official Journal of the Italian Pharmacological Society
https://www.readbyqxmd.com/read/29146521/hla-dq-gluten-tetramer-blood-test-accurately-identifies-patients-with-and-without-celiac-disease-in-absence-of-gluten-consumption
#3
Vikas K Sarna, Knut E A Lundin, Lars Mørkrid, Shuo-Wang Qiao, Ludvig M Sollid, Asbjørn Christophersen
BACKGROUND & AIMS: Celiac disease is characterized by HLA-DQ2/8-restricted responses of CD4+ T cells to cereal gluten proteins. A diagnosis of celiac disease based on serologic and histologic evidence and duodenal histology requires patients to be on gluten-containing diets. The growing number of individuals adhering to a gluten-free diet (GFD) without exclusion of celiac disease complicates its detection. HLA-DQ-gluten tetramers can be used to detect gluten-specific T cells in blood of patients with celiac disease, even if they are on a GFD...
November 13, 2017: Gastroenterology
https://www.readbyqxmd.com/read/29143424/restoration-of-ribozyme-tertiary-contact-and-function-using-a-molecular-glue-for-rna
#4
Chikara Dohno, Maki Kimura, Kazuhiko Nakatani
Some RNA classes require folding into the proper higher-order structures to exert their functions. Hammerhead ribozyme (HHR) requires a folding conformation stabilized by tertiary interaction for full activity. Here, we developed a rationally engineered HHR that was inactive, but could be activated by a synthetic RNA-binding ligand, naphthyridine carbamate tetramer with Z-stilbene linker (Z-NCTS). Binding of Z-NCTS could induce the formation of an active folding structure and thereby restore ribozyme activity, where Z-NCTS acts as a molecular glue to bring two isolated RNA loops into contact with each other...
November 16, 2017: Angewandte Chemie
https://www.readbyqxmd.com/read/29141437/pushing-configuration-interaction-to-the-limit-towards-massively-parallel-mcscf-calculations
#5
Konstantinos D Vogiatzis, Dongxia Ma, Jeppe Olsen, Laura Gagliardi, Wibe A de Jong
A new large-scale parallel multiconfigurational self-consistent field (MCSCF) implementation in the open-source NWChem computational chemistry code is presented. The generalized active space approach is used to partition large configuration interaction (CI) vectors and generate a sufficient number of batches that can be distributed to the available cores. Massively parallel CI calculations with large active spaces can be performed. The new parallel MCSCF implementation is tested for the chromium trimer and for an active space of 20 electrons in 20 orbitals, which can now routinely be performed...
November 14, 2017: Journal of Chemical Physics
https://www.readbyqxmd.com/read/29137648/lesr-is-a-novel-upstream-regulator-that-controls-downstream-clp-expression-to-modulate-antibiotic-hsaf-biosynthesis-and-cell-aggregation-in-lysobacter-enzymogenes-oh11
#6
Huiyong Xu, Ruping Wang, Yangyang Zhao, Zheng Qing Fu, Guoliang Qian, Fengquan Liu
BACKGROUND: Heat-stable antifungal factor (HSAF) is a polycyclic tetramate macrolactam secondary metabolite that exhibits broad-spectrum inhibitory activities against filamentous fungal pathogens. The native yield of this chemical is low. It is also a great challenge to synthesize HSAF artificially, due to its complex structure. Understanding the regulatory mechanism underlying HSAF biosynthesis could provide genetic basis for engineering high HSAF-producing strain. The transcription factor Clp is a global regulator that controls bacterial pathogenicity and the expression of one hundred related genes in the phytopathogenic bacterium Xanthomonas campestris pv...
November 14, 2017: Microbial Cell Factories
https://www.readbyqxmd.com/read/29133913/nitric-oxide-mediated-inhibition-of-antigen-presentation-from-dcs-to-cd4-t-cells-in-cancer-and-measurement-of-stat1-nitration
#7
Joseph Markowitz, Jiang Wang, Zach Vangundy, Jia You, Vedat Yildiz, Lianbo Yu, Isaac P Foote, Owen E Branson, Andrew R Stiff, Taylor R Brooks, Brandon Biesiadecki, Thomas Olencki, Susheela Tridandapani, Michael A Freitas, Tracey Papenfuss, Mitch A Phelps, William E Carson
Myeloid derived suppressor cells (MDSC) produce nitric oxide (NO) and inhibit dendritic cell (DC) immune responses in cancer. DCs present cancer cell antigens to CD4(+) T cells through Jak-STAT signal transduction. In this study, NO donors (SNAP and DETA-NONOate) inhibited DC antigen presentation. As expected, MDSC isolated from peripheral blood mononuclear cells (PBMC) from cancer patients produced high NO levels. We hypothesized that NO producing MDSC in tumor-bearing hosts would inhibit DC antigen presentation...
November 13, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29128670/synchronous-immune-alterations-mirror-clinical-response-during-allergen-immunotherapy
#8
Amedee Renand, Mohamed H Shamji, Kristina M Harris, Tielin Qin, Erik Wambre, Guy W Scadding, Peter A Wurtzen, Stephen J Till, Alkis Togias, Gerald T Nepom, William W Kwok, Stephen R Durham
BACKGROUND: Three years treatment with either sublingual or subcutaneous allergen immunotherapy has been shown to be effective and to induce long-term tolerance. The GRASS(∗) trial demonstrated that two years treatment via either route was effective in suppressing the response to nasal allergen challenge, although was insufficient for inhibition one year after discontinuation. OBJECTIVE: To examine in the GRASS trial the time-course of immunologic changes during two years sublingual and subcutaneous immunotherapy and for one year after treatment discontinuation...
November 8, 2017: Journal of Allergy and Clinical Immunology
https://www.readbyqxmd.com/read/29127854/comparative-modeling-and-molecular-docking-analysis-of-white-brown-and-soft-rot-fungal-laccases-using-lignin-model-compounds-for-understanding-the-structural-and-functional-properties-of-laccases
#9
Ayyappa Kumar Sista Kameshwar, Richard Barber, Wensheng Qin
Extrinsic catalytic properties of laccase enable it to oxidize a wide range of aromatic (phenolic and non-phenolic) compounds which makes it commercially an important enzyme. In this study, we have extensively compared and analyzed the physico-chemical, structural and functional properties of white, brown and soft rot fungal laccases using standard protein analysis software. We have computationally predicted the three-dimensional comparative models of these laccases and later performed the molecular docking studies using the lignin model compounds...
November 8, 2017: Journal of Molecular Graphics & Modelling
https://www.readbyqxmd.com/read/29125219/effects-of-a-grapevine-shoot-extract-containing-resveratrol-and-resveratrol-oligomers-on-intestinal-adenoma-development-in-mice-in-vitro-and-in-vivo-studies
#10
Michael T Empl, Hong Cai, Shan Wang, Johannes Junginger, Tina Kostka, Marion Hewicker-Trautwein, Karen Brown, Andreas J Gescher, Pablo Steinberg
SCOPE: Evidence suggests that the dietary consumption of plant extracts containing polyphenols might help prevent the onset of cancers of the gastrointestinal tract. In the present study, the chemopreventive and antiproliferative efficacy of a grapevine shoot extract (Vineatrol(®) 30) containing resveratrol and resveratrol oligomers was investigated in vivo and in vitro. METHODS AND RESULTS: The in vivo study was performed using Apc(Min) mice on a high-fat diet, which represents a model of human adenomatous polyposis, while the potential of the extract as well as some of its isolated constituents to inhibit intestinal adenoma cell proliferation in vitro was investigated using APC10...
November 10, 2017: Molecular Nutrition & Food Research
https://www.readbyqxmd.com/read/29124793/evidence-for-allosteric-effects-on-p53-oligomerization-induced-by-phosphorylation
#11
Petr Muller, Juliana M Chan, Oliver Simoncik, Miroslav Fojta, David P Lane, Ted Hupp, Borivoj Vojtesek
P53 is a tetrameric protein with a thermodynamically unstable DNA-binding domain flanked by intrinsically disordered regulatory domains that control its activity. The unstable and disordered segments of p53 allow high flexibility as it interacts with binding partners and permits a rapid on/off switch to control its function. The p53 tetramer can exist in multiple conformational states, any of which can be stabilized by a particular modification. Here, we apply the allostery model to p53 to ask whether evidence can be found that the "activating" C-terminal phosphorylation of p53 stabilizes a specific conformation of the protein in the absence of DNA...
November 10, 2017: Protein Science: a Publication of the Protein Society
https://www.readbyqxmd.com/read/29124751/detailed-characterization-of-human-mycobacterium-tuberculosis-specific-hla-e-restricted-cd8-t-cells
#12
Teresa Prezzemolo, Krista E van Meijgaarden, Kees Lmc Franken, Nadia Caccamo, Francesco Dieli, Tom Hm Ottenhoff, Simone A Joosten
HLA-E presented antigens are interesting targets for vaccination given HLA-Es' essentially monomorphic nature. We have shown previously that Mycobacterium tuberculosis (Mtb) peptides are presented by HLA-E to CD8(+) effector T-cells, but the precise phenotype and functional capacity of these cells remains poorly characterized. We have developed and utilized in this study a new protocol combining HLA-E tetramer with intracellular staining for cytokines, transcription factors and cytotoxic molecules to characterize these cells in depth...
November 9, 2017: European Journal of Immunology
https://www.readbyqxmd.com/read/29124655/enhanced-bioactivity-of-the-anti-lox-1-scfv-engineered-by-multimerization-strategy
#13
Wei Hu, Qiuhong Xie, Ling Liu, Hongyu Xiang
Single-chain variable fragment (scFv) antibodies as therapeutic agents have the potential to reduce the production cost and immunogenicity relative to monoclonal antibodies, but their monovalency and lack of a fragment crystallizable region can lead to reduced function. Multimerization is one strategy for recovering the function; however, their application is limited by the production of multimeric proteins. In our previous study, an anti-lectin-like oxidized low-density lipoprotein receptor-1 (LOX-1) scFv showed potential use in diagnosis and therapy of atherosclerotic diseases, but is limited by its inherent low antigen-binding activity...
November 9, 2017: Applied Biochemistry and Biotechnology
https://www.readbyqxmd.com/read/29123031/structure-function-characterization-of-three-human-antibodies-targeting-the-vaccinia-virus-adhesion-molecule-d8
#14
Michael H Matho, Andrew Schlossman, Iuliia M Gilchuk, Greg Miller, Zbigniew Mikulski, Matthias Hupfer, Jing Wang, Aruna Bitra, Xianghzi Meng, Yan Xiang, Tom Kaever, Tzanko Doukov, Klaus Ley, Shane Crotty, Bjoern Peters, Linda C Hsieh-Wilson, James E Crowe, Dirk M Zajonc
Vaccinia virus (VACV) envelope protein D8 is one of three glycosaminoglycan adhesion molecules and binds to the linear polysaccharide chondroitin sulfate (CS). D8 is also a target for neutralizing antibody responses that are elicited by the smallpox vaccine, which has enabled the first eradication of a human viral pathogen and is a useful model for studying antibody responses. However, to date, VACV epitopes targeted by human antibodies have not been characterized at atomic resolution. Here, we characterized the binding properties of several human anti-D8 antibodies and determined the crystal structures of three VACV-MAb variants, VACV-66, VACV-138, and VACV-304, separately bound to D8...
November 9, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/29121933/biochemical-analysis-and-the-preliminary-crystallographic-characterization-of-d-tagatose-3-epimerase-from-rhodobacter-sphaeroides
#15
Zhengliang Qi, Zhangliang Zhu, Jian-Wen Wang, Songtao Li, Qianqian Guo, Panpan Xu, Fuping Lu, Hui-Min Qin
BACKGROUND: D-Tagatose 3-epimerase epimerizes D-fructose to yield D-psicose, which is a rare sugar that exists in small quantities in nature and is difficult to synthesize chemically. We aim to explore potential industrial biocatalysts for commercial-scale manufacture of this rare sugar. A D-tagatose 3-epimerase from Rhodobacter sphaeroides (RsDTE) has recently been identified as a D-tagatose 3-epimerase that can epimerize D-fructose to yield D-psicose with a high conversion rate. RESULTS: The purified RsDTE by Ni-affinity chromatography, ionic exchange chromatography and gel filtration forms a tetramer in solution...
November 9, 2017: Microbial Cell Factories
https://www.readbyqxmd.com/read/29121497/mannosylcalix-n-arenes-as-multivalent-ligands-for-dc-sign
#16
Ilaria Morbioli, Vanessa Porkolab, Andrea Magini, Alessandro Casnati, Franck Fieschi, Francesco Sansone
DC-SIGN is a receptor protruded from the membrane of immature dendritic cells (DCs) that participates in the activation of the immune response through the recognition of pathogen-associated molecular patterns (PAMPs). On the other hand, HIV exploits the interaction between high-mannose structures of its envelope glycoprotein gp120 and DC-SIGN to be transported towards and infect T-cells. DC-SIGN is involved in the recognition process in the form of a tetramer and the multiple exposition of carbohydrate recognition sites (CRSs) is amplified by the formation on the DCs membrane of patches of tetramers...
October 31, 2017: Carbohydrate Research
https://www.readbyqxmd.com/read/29120752/the-glycogen-shunt-maintains-glycolytic-homeostasis-and-the-warburg-effect-in-cancer
#17
REVIEW
Robert G Shulman, Douglas L Rothman
Despite many decades of study there is a lack of a quantitative explanation for the Warburg effect in cancer. We propose that the glycogen shunt, a pathway recently shown to be critical for cancer cell survival, may explain the excess lactate generation under aerobic conditions characteristic of the Warburg effect. The proposal is based on research on yeast and mammalian muscle and brain that demonstrates that the glycogen shunt functions to maintain homeostasis of glycolytic intermediates and ATP during large shifts in glucose supply or demand...
November 2017: Trends in Cancer
https://www.readbyqxmd.com/read/29116757/-esi-cad-msn-procedure-for-sequencing-lignin-oligomers-based-on-a-study-of-synthetic-model-compounds-with-%C3%AE-o-4-and-5-5-linkages
#18
Huaming Sheng, Weijuan Tang, Jinshan Gao, James Steven Riedeman, Guannan Li, Tiffany Mae Jarrell, Matthew R Hurt, Linan Yang, Priya Murria, Xin Ma, John Joseph Nash, Hilkka I Kenttamaa
Seven synthesized G-lignin oligomer model compounds (ranging in size from dimers to an octamer) with 5-5 and/or β-O-4 linkag-es, and three synthesized S-lignin model compounds (a dimer, trimer and tetramer) with β-O-4 linkages, were evaporated and deprotonated using negative-ion mode ESI in a linear quadrupole ion trap/Fourier transform ion cyclotron resonance mass spec-trometer. The collision-activated dissociation (CAD) fragmentation patterns (obtained in MS2 and MS3 experiments, respectively) for the negative ions were studied in order to develop a procedure for sequencing unknown lignin oligomers...
November 8, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/29115602/multi%C3%A2-target-inhibition-by-four-tandem-shrnas-embedded-in-homo%C3%A2-or-hetero%C3%A2-mirna-backbones
#19
Xiao Du, Yanhui Cai, Wenjin Xi, Rui Zhang, Lintao Jia, Angang Yang, Jing Zhao, Bo Yan
The functional influence of microRNA (miRNA)backbone selection remains unclear with respect to multiplexing miRNA‑based short hairpin RNAs (shRNAmiRs), due to a lack of comparative studies. To this end, a pair of shRNAmiR tetramers were designed in the present study that targeted four genes with a shared miR30a backbone (homo‑BB) or four miRNA backbones (hetero‑BB). A PBLT+ 293A cell line overexpressing four targets was established, which permitted simultaneous dissection of individual gene knockdown...
October 20, 2017: Molecular Medicine Reports
https://www.readbyqxmd.com/read/29112817/on-surface-cyclization-of-ortho-dihalotetracenes-to-four-and-six-membered-rings
#20
Carlos Sánchez-Sánchez, Adrien Nicolaï, Frédéric Rossel, Jinming Cai, Junzhi Liu, Xinliang Feng, Klaus Müllen, Pascal Ruffieux, Roman Fasel, Vincent Meunier
We report on the surface-catalyzed formal [2+2] and [2+2+2] cycloadditions of ortho-activated tetracene species on a Ag(111) substrate under ultrahigh vacuum conditions. Three different products are obtained: tetracene dimers, trimers, and tetramers. The former results from the formation of a four-membered ring while the other two arise from cyclization into six-membered rings. These on-surface reactions have been monitored by scanning tunneling microscopy and rationalized by density functional theory calculations...
November 7, 2017: Journal of the American Chemical Society
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