keyword
MENU ▼
Read by QxMD icon Read
search

Structure resolution

keyword
https://www.readbyqxmd.com/read/28732111/characterization-of-metabolic-pathways-and-absorption-of-sea-cucumber-saponins-holothurin-a-and-echinoside-a-in-vitro-and-in-vivo
#1
Shanshan Song, Lingyu Zhang, Jian Cao, Gao Xiang, Peixu Cong, Ping Dong, Zhaojie Li, Changhu Xue, Yong Xue, Yuming Wang
Sea cucumber saponins (SCSs) exhibit a wide spectrum of bioactivities, but their metabolic characteristics are not well elucidated. In this study, the metabolism of holothurin A (HA) and echinoside A (EA), 2 major saponins in sea cucumber, by gut microflora were investigated. First, we conducted an in vitro study, where in the SCSs were incubated with intestinal microflora and the metabolites were detected by high pressure liquid chromatography-high resolution mass spectrometry. We also conducted an in vivo study on rats, where in the intestinal contents, serum, urine, and feces were collected and evaluated after oral administration of SCSs...
July 21, 2017: Journal of Food Science
https://www.readbyqxmd.com/read/28732057/structural-basis-of-zn-ii-induced-metal-detoxification-and-antibiotic-resistance-by-histidine-kinase-czcs-in-pseudomonas-aeruginosa
#2
Dan Wang, Weizhong Chen, Shanqing Huang, Yafeng He, Xichun Liu, Qingyuan Hu, Tianbiao Wei, Hong Shang, Jianhua Gan, Hao Chen
Pseudomonas aeruginosa (P. aeruginosa) is a major opportunistic human pathogen, causing serious nosocomial infections among immunocompromised patients by multi-determinant virulence and high antibiotic resistance. The CzcR-CzcS signal transduction system in P. aeruginosa is primarily involved in metal detoxification and antibiotic resistance through co-regulating cross-resistance between Zn(II) and carbapenem antibiotics. Although the intracellular regulatory pathway is well-established, the mechanism by which extracellular sensor domain of histidine kinase (HK) CzcS responds to Zn(II) stimulus to trigger downstream signal transduction remains unclear...
July 21, 2017: PLoS Pathogens
https://www.readbyqxmd.com/read/28732052/protein-asparagine-deamidation-prediction-based-on-structures-with-machine-learning-methods
#3
Lei Jia, Yaxiong Sun
Chemical stability is a major concern in the development of protein therapeutics due to its impact on both efficacy and safety. Protein "hotspots" are amino acid residues that are subject to various chemical modifications, including deamidation, isomerization, glycosylation, oxidation etc. A more accurate prediction method for potential hotspot residues would allow their elimination or reduction as early as possible in the drug discovery process. In this work, we focus on prediction models for asparagine (Asn) deamidation...
2017: PloS One
https://www.readbyqxmd.com/read/28731819/the-close-up-imager-onboard-the-esa-exomars-rover-objectives-description-operations-and-science-validation-activities
#4
Jean-Luc Josset, Frances Westall, Beda A Hofmann, John Spray, Charles Cockell, Stephan Kempe, Andrew D Griffiths, Maria Cristina De Sanctis, Luigi Colangeli, Detlef Koschny, Karl Föllmi, Eric Verrecchia, Larryn Diamond, Marie Josset, Emmanuelle J Javaux, Francesca Esposito, Matthew Gunn, Audrey L Souchon-Leitner, Tomaso R R Bontognali, Oleg Korablev, Suren Erkman, Gerhard Paar, Stephan Ulamec, Frédéric Foucher, Philippe Martin, Antoine Verhaeghe, Mitko Tanevski, Jorge L Vago
The Close-Up Imager (CLUPI) onboard the ESA ExoMars Rover is a powerful high-resolution color camera specifically designed for close-up observations. Its accommodation on the movable drill allows multiple positioning. The science objectives of the instrument are geological characterization of rocks in terms of texture, structure, and color and the search for potential morphological biosignatures. We present the CLUPI science objectives, performance, and technical description, followed by a description of the instrument's planned operations strategy during the mission on Mars...
June 2017: Astrobiology
https://www.readbyqxmd.com/read/28731689/dinuclear-coordination-compounds-based-on-a-5-nitropicolinic-carboxylate-ligand-with-single-molecule-magnet-behavior
#5
Álvaro Raya-Barón, Itziar Oyarzabal, Francisco M Arrabal-Campos, José Manuel Seco, Antonio Rodríguez-Diéguez, Ignacio Fernández
Isostructural dinuclear dysprosium and yttrium coordination compounds based on the 5-nitropicolinic carboxylate ligand were synthesized and characterized. The formation of these air-stable complexes is achieved via solvothermal routes employing water as the reaction solvent. The dysprosium-based complex exhibits single-molecule magnet behavior with frequency dependence of the out-of-phase susceptibility at zero direct-current field. High-resolution mass spectrometry (electrospray ionization) experiments and advanced NMR methods including diffusion NMR techniques were applied on the diamagnetic yttrium analogue and established that these species retained their solid-state structure in solution with hydrodynamic radii of 6...
July 21, 2017: Inorganic Chemistry
https://www.readbyqxmd.com/read/28731332/tuning-the-cavity-size-and-chirality-of-self-assembling-3d-dna-crystals
#6
Chad R Simmons, Fei Zhang, Tara MacCulloch, Nour Eddine Fahmi, Nicholas Stephanopoulos, Yan Liu, Nadrian C Seeman, Hao Yan
The foundational goal of structural DNA nanotechnology-the field that uses oligonucleotides as a molecular building block for the programmable self-assembly of nanostructured systems-was to use DNA to construct three-dimensional (3D) lattices for solving macromolecular structures. The programmable nature of DNA makes it an ideal system for rationally constructing self-assembled crystals, and immobilizing guest molecules in a repeating 3D array through their specific stereospatial interactions with the scaffold...
July 21, 2017: Journal of the American Chemical Society
https://www.readbyqxmd.com/read/28731076/simple-gd-3-neu5nac-complexation-results-in-nmr-chemical-shift-asymmetries-of-structurally-equivalent-complex-type-n-glycan-branches
#7
Konstantin Usachev, Yoshiki Yamaguchi, Masayuki Takamatsu, Nataliya Pavlova, Vladimir Klochkov, Almira Kurbangalieva, Takefumi Murase, Taiji Shimoda, Katsunori Tanaka
In the present Communication, we propose a quite simple but previously overlooked approach for conveniently analyzing, assigning, and extracting sialic acid-containing N-glycan structures using high-resolution NMR spectroscopy without pre-installing metal chelators. Paramagnetic metals, such as Gd(3+), appear to bind to the carboxyl groups of N-acetylneuraminic acid when introduced at room temperature, leading to the measurement of nonequivalent proton and carbon NMR spectral signals among otherwise "identical" glycan branched structures...
July 21, 2017: Analyst
https://www.readbyqxmd.com/read/28731030/cryo-em-structure-and-biochemical-analysis-reveal-the-basis-of-the-functional-difference-between-human-pi3kc3-c1-and-c2
#8
Meisheng Ma, Jun-Jie Liu, Yan Li, Yuwei Huang, Na Ta, Yang Chen, Hua Fu, Ming-Da Ye, Yuehe Ding, Weijiao Huang, Jia Wang, Meng-Qiu Dong, Li Yu, Hong-Wei Wang
Phosphatidylinositol 3-phosphate (PI3P) plays essential roles in vesicular trafficking, organelle biogenesis and autophagy. Two class III phosphatidylinositol 3-kinase (PI3KC3) complexes have been identified in mammals, the ATG14L complex (PI3KC3-C1) and the UVRAG complex (PI3KC3-C2). PI3KC3-C1 is crucial for autophagosome biogenesis, and PI3KC3-C2 is involved in various membrane trafficking events. Here we report the cryo-EM structures of human PI3KC3-C1 and PI3KC3-C2 at sub-nanometer resolution. The two structures share a common L-shaped overall architecture with distinct features...
July 21, 2017: Cell Research
https://www.readbyqxmd.com/read/28730614/synchrotron-tomographic-images-from-human-lung-adenocarcinoma-three-dimensional-reconstruction-and-histologic-correlations
#9
Eunjue Yi, Sung-Mi Han, Ji-Eun Chang, Hong-Tae Kim, Jong-Ki Kim, Seung-Jun Seo, Jin-Haeng Chung, Sanghoon Jheon
High-resolution tomographic images using synchrotron X-rays are expected to provide detailed reflection of microstructures, thereby allowing for the examination of histologic structures without destruction of the specimen. This study aims to evaluate the synchrotron tomographic images of mixed ground-glass opacity excised on 5-mm sections in comparison to pathologic examination. The Institutional Review Board of our institute approved this retrospective study, and written informed consent was obtained from each patient whose lung tissue would be used...
July 21, 2017: Microscopy Research and Technique
https://www.readbyqxmd.com/read/28730214/palladium-ii-complexes-of-n-n-diphenylacetamide-based-thio-selenoethers-and-flower-shaped-pd16s7-and-prismatic-pd17se15-nano-particles-tailored-as-catalysts-for-c-c-and-c-o-coupling
#10
Poornima Singh, Ajai K Singh
2-Bromo-N,N-diphenylacetamide (P1) prepared by reacting diphenylamine with α-bromoacetyl bromide, on treatment with Na2S and Na2Se generated in situ, has resulted in thio and selenoether ligands, L1 ((Ph2NCOCH2)2S) and L2 ((Ph2NCOCH2)2Se), respectively. Reacting these ligands with Na2PdCl4 in ethanol at room temperature resulted in their complexes [Pd(L1/L2)2Cl2] (C1/C2). P1, L1, L2, C1 and C2 were characterized by (1)H, (13)C{(1)H} and (77)Se{(1)H} NMR spectroscopy, IR spectroscopy and High resolution mass spectrometry (HR-MS)...
July 21, 2017: Dalton Transactions: An International Journal of Inorganic Chemistry
https://www.readbyqxmd.com/read/28729554/comparison-of-traditional-and-new-generation-dna-markers-declares-high-genetic-diversity-and-differentiated-population-structure-of-wild-almond-species
#11
Karim Sorkheh, Mehrana Koohi Dehkordi, Sezai Ercisli, Attila Hegedus, Júlia Halász
Wild almond species as sources of genetic variation may have crucial importance in breeding. A total of 389 accessions of 18 species have been analysed using inter-retrotransposon amplified polymorphism (IRAP), retrotransposon-microsatellite amplified polymorphism (REMAP), sequence-specific amplification polymorphism (S-SAP), amplified fragment length polymorphism (AFLP), inter simple sequence repeat (ISSR) and simple sequence repeats (SSR). Retrotransposon markers indicated the presence and movement of some Ty3-gypsy and Ty1-copia-elements in almond genome...
July 20, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28729432/tropomodulin1-controls-erythroblast-enucleation-via-regulation-of-f-actin-in-the-enucleosome
#12
Roberta B Nowak, Julien Papoin, David S Gokhin, Carla Casu, Stefano Rivella, Jeffrey M Lipton, Lionel Blanc, Velia M Fowler
Biogenesis of mammalian red blood cells requires nuclear expulsion by orthochromatic erythoblasts late in terminal differentiation (enucleation), but the mechanism is largely unexplained. Here, we employed high resolution confocal microscopy to analyze nuclear morphology and F-actin rearrangements during the initiation, progression and completion of mouse and human erythroblast enucleation in vivo Mouse erythroblast nuclei acquire a dumbbell-shaped morphology during enucleation, while human bone marrow erythroblast nuclei unexpectedly retain their spherical morphology...
July 20, 2017: Blood
https://www.readbyqxmd.com/read/28729422/o-glycosylation-modulates-the-stability-of-epidermal-growth-factor-like-repeats-and-thereby-regulates-notch-trafficking
#13
Hideyuki Takeuchi, Hongjun Yu, Huilin Hao, Megumi Takeuchi, Atsuko Ito, Huilin Li, Robert S Haltiwanger
Glycosylation in the endoplasmic reticulum (ER) is closely associated with protein folding and quality control. We recently described a non-canonical ER quality control mechanism for folding of thrombospondin type 1 repeats by Protein O-fucosyltransferase 2 (POFUT2). Epidermal Growth Factor-like (EGF) repeats are also small, cysteine rich protein motifs that can be O-glycosylated by several ER-localized enzymes including Protein O-glucosyltransferase 1 (POGLUT1) and POFUT1. Both POGLUT1 and POFUT1 modify the Notch receptor on multiple EGF repeats and are essential for full Notch function...
July 20, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/28728982/nmr-studies-of-large-proteins
#14
REVIEW
Yajun Jiang, Charalampos G Kalodimos
Recent breakthroughs in isotope-labeling and pulse sequence techniques have enabled the Nuclear Magnetic Resonance (NMR) characterization of large protein systems with molecular weights of hundreds of kDa. NMR studies of a great variety of large proteins have provided unique insights into the binding, dynamic, and allosteric mechanisms. Here we present a brief summary of these developments by highlighting few cases that exemplify the uniqueness of NMR in providing atomic-resolution information into key dynamic processes and structures of protein complexes with high degree of flexibility...
July 17, 2017: Journal of Molecular Biology
https://www.readbyqxmd.com/read/28728980/the-role-of-hexon-protein-as-a-molecular-mold-in-patterning-the-protein-ix-organization-in-human-adenoviruses
#15
Vijay S Reddy
Adenoviruses are respiratory, ocular and enteric pathogens that form complex capsids, which are assembled from seven different structural proteins and composed of several core proteins that closely interact with the packaged dsDNA genome. The recent near-atomic resolution structures revealed that the interlacing continuous hexagonal network formed by the protein IX (IX) molecules is conserved among different human adenoviruses (HAdVs), but not in non-human adenoviruses (non-HAdVs). In this report we propose a distinct role for the hexon protein as a "molecular mold" in enabling the formation of such hexagonal IX-network that has been shown to preserve the stability, infectivity of HAdVs...
July 17, 2017: Journal of Molecular Biology
https://www.readbyqxmd.com/read/28728914/hydroxycinnamoyl-derivatives-and-secoiridoid-glycoside-derivatives-from-syringa-vulgaris-flowers-and-their-effects-on-the-pro-inflammatory-responses-of-human-neutrophils
#16
M K Dudek, B Michalak, M Woźniak, M E Czerwińska, A Filipek, S Granica, A K Kiss
Thirteen new compounds including caffeoyl-glucaric and p-coumaroyl-altraric acid derivatives, one monoterpenoid glucoside, four secoiridoid glycosides, and three hydroxycinnamoyl phenylpropanoid glycosides esterified with an oleoside 11-methyl ester along with fifteen known compounds were isolated from flowers of Syringa vulgaris L. (Oleaceae). Their structures were elucidated by high-resolution spectroscopic methods. The tested compounds were able to decrease the production of reactive oxygen species. Moreover, oleoechinacoside (13), demethylhydroxyoleonuezhenide (14), demethyloleonuezhenide (15), syringaoleoacteoside (25) and oleoacteoside (26) at the concentration of 50μM, moderately suppressed the LPS-stimulated release of pro-inflammatory chemokine IL-8 and TNF-α from human neutrophils...
July 17, 2017: Fitoterapia
https://www.readbyqxmd.com/read/28728910/rapid-differentiation-of-bacterial-communities-using-high-resolution-melting-analysis
#17
Steven Everman, Shiao Y Wang
Analysis of microbial communities is of broad interest in biology and high throughput sequencing is now the preferred method. However, some studies may not need the level of detail high throughput sequencing provides and its cost may limit the number of samples that can be sequenced. High resolution melting analysis (HRM) of 16S rRNA gene variable regions has been proposed as an efficient and low cost method to prioritize samples for sequencing but more specific primers are needed and its efficacy needs to be confirmed...
July 17, 2017: Journal of Microbiological Methods
https://www.readbyqxmd.com/read/28728897/1-3-oxazole-based-selective-picomolar-inhibitors-of-cytosolic-human-carbonic-anhydrase-ii-alleviate-ocular-hypertension-in-rabbits-potency-is-supported-by-x-ray-crystallography-of-two-leads
#18
Marta Ferraroni, Laura Luccarini, Emanuela Masini, Mikhail Korsakov, Andrea Scozzafava, Claudiu T Supuran, Mikhail Krasavin
Two lead 1,3-oxazole-based carbonic anhydrase inhibitors (CAIs) earlier identified as selective, picomolar inhibitors of hCA II (a cytosolic target for treatment of glaucoma) have been investigated further. Firstly, they were found to be conveniently synthesized on multigram scale, which enables further development. These compounds were found to be comparable in efficacy to dorzolamide eye drops when applied in the eye drop form as well. Finally, the reasons for unusually high potency of these compounds became understood from their high-resolution X-ray crystallography structures...
July 11, 2017: Bioorganic & Medicinal Chemistry
https://www.readbyqxmd.com/read/28728829/short-term-double-natural-orifice-catheterization-nonoperative-management-of-hydrocolpos-in-persistent-cloaca-patients-case-series
#19
Stjepan Višnjić, Mislav Bastić, Mateja Marčec, Marko Mesić
PURPOSE: Management of hydrocolpos in cloaca patients is of clinical importance. We report a nonoperative method for the management of hydrocolpos in the form of initial catheter decompression, followed by an endoscopy with catheters placement into both the bladder and vagina, and leaving these catheters for 9 and 14days respectively. METHODS: The medical records of six cloaca patients with hydrocolpos in the last 12years were reviewed. The outcomes measured were the renal function, bladder emptying, the presence/resolution of hydronephrosis, and the recurrence of hydrocolpos...
June 27, 2017: Journal of Pediatric Surgery
https://www.readbyqxmd.com/read/28728815/the-structural-basis-for-sensing-by%C3%A2-the-piezo1-protein
#20
W Li, N Gao, M Yang
Mechanotransduction is one of the processes by which cells sense and convert mechanical stimuli into biological signals. Experimental data from various species have revealed crucial roles for mechanotransduction in organ development and a plethora of physiological activities. Piezo proteins have recently been identified as the long-sought-after mechanically activated cation channels in eukaryotes. The architecture of mouse Piezo1 (mPiezo1) channel determined by cryoelectron microscopic single-particle analysis at medium resolution yielded important insights into the mechanical force sensing mechanism...
2017: Current Topics in Membranes
keyword
keyword
64633
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"