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https://www.readbyqxmd.com/read/27915403/a-simple-approach-for-the-development-of-urban-climatic-maps-based-on-the-urban-characteristics-in-tainan-taiwan
#1
Yu-Cheng Chen, Tzu-Ping Lin, Chien-Ting Lin
Motivated by the increasing thermal load in urban environment, this work established Urban Climatic map (UCmap) focusing on thermal environment issues based on urban development factors, e.g., land cover and building characteristics, representing thermal load of human body and ventilation path in the urban structures. In the established process of UCmap in this work, Tainan city, which is a highly developed city in southern Taiwan, is selected as the research area. A 50-m resolution grid is used to capture urban development factors and the climate data based on 1 year of mobile and fix-point measurements, from which the thermal load and the wind environment map are constructed...
December 3, 2016: International Journal of Biometeorology
https://www.readbyqxmd.com/read/27915153/room-temperature-structure-of-human-igg4-fc-from-crystals-analysed-in-situ
#2
Anna M Davies, Theo Rispens, Pleuni Ooijevaar-de Heer, Rob C Aalberse, Brian J Sutton
The Fc region of IgG antibodies (Cγ2 and Cγ3 domains) is responsible for effector functions such as antibody-dependent cell-mediated cytotoxicity and phagocytosis, through engagement with Fcγ receptors, although the ability to elicit these functions differs between the four human IgG subclasses. A key determinant of Fcγ receptor interactions is the FG loop in the Cγ2 domain. High resolution cryogenic IgG4-Fc crystal structures have revealed a unique conformation for this loop, which could contribute to the particular biological properties of this subclass...
December 1, 2016: Molecular Immunology
https://www.readbyqxmd.com/read/27915028/catalytic-synthesis-of-%C3%AE-amino-chromone-phosphonates-and-their-antimicrobial-toxicity-and-potential-hiv-1-rt-inhibitors-based-on-silico-screening
#3
Abosede Oluwabukola Jaiyeola, K Anand, K Kasumbwe, M Ramesh, R M Gengan
The α-amino phosphonates exhibit a wide range of biological properties which create demand for simple and efficient synthetic routes of new molecules. In this study synthesis of a new series of derivatives of α-amino chromone phosphonates (ACPs) was reported using RhBT catalyst. The RhBT was first prepared by simply mixing boron nitride in a solution of rhodium acetate, under inert atmosphere for a week followed by filtration (yield: 92%). The catalyst can be re-used for up to four times and showed minimal loss of activity...
November 23, 2016: Journal of Photochemistry and Photobiology. B, Biology
https://www.readbyqxmd.com/read/27914893/near-atomic-resolution-structure-determination-of-a-cypovirus-capsid-and-polymerase-complex-using-cryo-em-at-200kv
#4
Xiaowu Li, Niyun Zhou, Wenyuan Chen, Bin Zhu, Xurong Wang, Bin Xu, Jiawei Wang, Hongrong Liu, Lingpeng Cheng
Single particle cryo-electron microscopy (cryo-EM) allows high-resolution structural determination of biological assemblies in a near-native environment. However, all high-resolution (better than 3.5Å) cryo-EM structures reported to date were obtained by using 300kV transmission electron microscopes (TEMs). We report here the structures of a cypovirus capsid of 750Å diameter at 3.3Å resolution and RNA-dependent RNA polymerase (RdRp) complexes within the capsid at 3.9Å resolution using a 200kV TEM. The newly resolved structure revealed conformational changes of two subdomains in the RdRp...
November 30, 2016: Journal of Molecular Biology
https://www.readbyqxmd.com/read/27914608/evaluation-of-size-exclusion-chromatography-columns-packed-with-sub-3%C3%AE-m-particles-for-the-analysis-of-biopharmaceutical-proteins
#5
Alexandre Goyon, Alain Beck, Olivier Colas, Koen Sandra, Davy Guillarme, Szabolcs Fekete
The aim of this study was to evaluate the practical possibilities and limitations of several recently introduced size exclusion chromatographic (SEC) columns of 150×4.6mm, sub-3μm (Agilent AdvanceBioSEC 2.7μm, Tosoh TSKgel UP-SW3000 2.0μm, Phenomenex Yarra SEC X-150 1.8μm and Waters Acquity BEH200 1.7μm) for the separation of biopharmaceutical proteins. For this purpose, some model proteins were tested, as well as several commercial therapeutic monoclonal antibodies (mAbs) and antibody-drug-conjugates (ADCs)...
November 27, 2016: Journal of Chromatography. A
https://www.readbyqxmd.com/read/27914382/multichannel-processing-for-dispersion-curves-extraction-of-ultrasonic-axial-transmission-signals-comparisons-and-case-studies
#6
Kailiang Xu, Dean Ta, Didier Cassereau, Bo Hu, Weiqi Wang, Pascal Laugier, Jean-Gabriel Minonzio
Some pioneering studies have shown the clinical feasibility of long bones evaluation using ultrasonic guided waves. Such a strategy is typically designed to determine the dispersion information of the guided modes to infer the elastic and structural characteristics of cortical bone. However, there are still some challenges to extract multimode dispersion curves due to many practical limitations, e.g., high spectral density of modes, limited spectral resolution and poor signal-to-noise ratio. Recently, two representative signal processing methods have been proposed to improve the dispersion curves extraction...
September 2016: Journal of the Acoustical Society of America
https://www.readbyqxmd.com/read/27914348/favorable-minimal-invasive-surgery-in-the-treatment-of-superior-mesenteric-artery-syndrome-case-report
#7
Leandro Cardoso Barchi, Aline Marcílio Alves, Carlos Eduardo Jacob, Claudio José Caldas Bresciani, Osmar Kenji Yagi, Tarsila Gasparotto Nogueira, Ivan Cecconello, Bruno Zilberstein
INTRODUCTION: The Superior Mesenteric Artery Syndrome (SMAS) is a rare form of intestinal obstruction. The diagnosis is based on findings from imaging studies, including vascular compression of the duodenum by the SMA and can be associated with duodenal dilatation. PRESENTATION OF CASE: We report a case of a patient with SMAS and recurrent episodes of intestinal obstruction, which was successfully treated by laparoscopic duodenojejunostomy. DISCUSSION: The initial treatment is usually conservative for patient's clinical improvement...
October 26, 2016: International Journal of Surgery Case Reports
https://www.readbyqxmd.com/read/27914340/nickelocene-as-precursor-of-microporous-organometallic-derived-carbon-and-nickel-oxide-carbon-nanocomposite
#8
P González-García, D Arenas-Esteban, D Ávila-Brande, E Urones-Garrote, L C Otero-Díaz
Microporous flower-like and spherical carbon particles, made of graphene-like layers, have been obtained via chlorination of nickelocene (Ni(C5H5)2). Their mechanism of formation, in terms of morphology and micro-nanostructure, has been followed from 200 to 900°C. Conventional transmission electron microscopy and high-resolution-TEM observations allow determining that their structure is made of highly disordered graphene-like layers. The Raman spectrum of the high temperature sample exhibits the characteristics D and G bands...
November 10, 2016: Journal of Colloid and Interface Science
https://www.readbyqxmd.com/read/27914200/assembling-the-tat-protein-translocase
#9
Felicity Alcock, Phillip J Stansfeld, Hajra Basit, Johann Habersetzer, Matthew Ab Baker, Tracy Palmer, Mark I Wallace, Ben C Berks
The twin-arginine protein translocation system (Tat) transports folded proteins across the bacterial cytoplasmic membrane and the thylakoid membranes of plant chloroplasts. The Tat transporter is assembled from multiple copies of the membrane proteins TatA, TatB, and TatC. We combine sequence co-evolution analysis, molecular simulations, and experimentation to define the interactions between the Tat proteins of Escherichia coli at molecular-level resolution. In the TatBC receptor complex the transmembrane helix of each TatB molecule is sandwiched between two TatC molecules, with one of the inter-subunit interfaces incorporating a functionally important cluster of interacting polar residues...
December 3, 2016: ELife
https://www.readbyqxmd.com/read/27914081/negative-staining-and-transmission-electron-microscopy-of-bacterial-surface-structures
#10
Matthias Mörgelin
Negative staining is an essential and versatile staining technique in transmission electron microscopy that can be employed for visualizing bacterial cell morphology, size, and surface architecture at high resolution. Bacteria are usually transferred by passive electrostatic adsorption from suspensions in physiological saline onto suitable hydrophilic support films on electron microscopic grids. There they are contrasted, or "stained," by heavy metal ions in solution such as tungsten, uranyl, molybdate, or vanadate compounds...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27914080/immobilization-techniques-of-bacteria-for-live-super-resolution-imaging-using-structured-illumination-microscopy
#11
Amy L Bottomley, Lynne Turnbull, Cynthia B Whitchurch, Elizabeth J Harry
Advancements in optical microscopy technology have allowed huge progression in the ability to understand protein structure and dynamics in live bacterial cells using fluorescence microscopy. Paramount to high-quality microscopy is good sample preparation to avoid bacterial cell movement that can result in motion blur during image acquisition. Here, we describe two techniques of sample preparation that reduce unwanted cell movement and are suitable for application to a number of bacterial species and imaging methods...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27914045/achievements-and-challenges-in-computational-protein-design
#12
Ilan Samish
Computational protein design (CPD), a yet evolving field, includes computer-aided engineering for partial or full de novo designs of proteins of interest. Designs are defined by a requested structure, function, or working environment. This chapter describes the birth and maturation of the field by presenting 101 CPD examples in a chronological order emphasizing achievements and pending challenges. Integrating these aspects presents the plethora of CPD approaches with the hope of providing a "CPD 101". These reflect on the broader structural bioinformatics and computational biophysics field and include: (1) integration of knowledge-based and energy-based methods, (2) hierarchical designated approach towards local, regional, and global motifs and the integration of high- and low-resolution design schemes that fit each such region, (3) systematic differential approaches towards different protein regions, (4) identification of key hot-spot residues and the relative effect of remote regions, (5) assessment of shape-complementarity, electrostatics and solvation effects, (6) integration of thermal plasticity and functional dynamics, (7) negative design, (8) systematic integration of experimental approaches, (9) objective cross-assessment of methods, and (10) successful ranking of potential designs...
2017: Methods in Molecular Biology
https://www.readbyqxmd.com/read/27913884/plasmid-pvax1-nh36-purification-by-membrane-and-bead-perfusion-chromatography
#13
Diana Ivonne Franco-Medrano, Patricia Guerrero-Germán, Rosa María Montesinos-Cisneros, Jaime Ortega-López, Armando Tejeda-Mansir
The demand for plasmid DNA (pDNA) has increased in response to the rapid advances in vaccines applications to prevent and treat infectious diseases caused by virus, bacteria or parasites, such as Leishmania species. The immunization protocols require large amounts of supercoiled plasmid DNA (sc-pDNA) challenging the development of efficient and profitable processes for capturing and purified pDNA molecules from large volumes of lysates. A typical bioprocess involves four steps: fermentation, primary recovery, intermediate recovery and final purification...
December 2, 2016: Bioprocess and Biosystems Engineering
https://www.readbyqxmd.com/read/27913727/regulated-complex-assembly-safeguards-the-fidelity-of-sleeping-beauty-transposition
#14
Yongming Wang, Diana Pryputniewicz-Dobrinska, Enikö Éva Nagy, Christopher D Kaufman, Manvendra Singh, Steve Yant, Jichang Wang, Anna Dalda, Mark A Kay, Zoltán Ivics, Zsuzsanna Izsvák
The functional relevance of the inverted repeat structure (IR/DR) in a subgroup of the Tc1/mariner superfamily of transposons has been enigmatic. In contrast to mariner transposition, where a topological filter suppresses single-ended reactions, the IR/DR orchestrates a regulatory mechanism to enforce synapsis of the transposon ends before cleavage by the transposase occurs. This ordered assembly process shepherds primary transposase binding to the inner 12DRs (where cleavage does not occur), followed by capture of the 12DR of the other transposon end...
December 1, 2016: Nucleic Acids Research
https://www.readbyqxmd.com/read/27913623/chac2-an-enzyme-for-slow-turnover-of-cytosolic-glutathione
#15
Amandeep Kaur, Ruchi Gautam, Ritika Srivastava, Avinash Chandel, Akhilesh Kumar, Subramanian Karthikeyan, Anand Kumar Bachhawat
Glutathione degradation plays an important role in glutathione and redox homeostasis and thus it is imperative to understand the enzymes and the mechanisms involved in glutathione degradation in detail. We describe here ChaC2, a member of the ChaC family of γ-glutamylcyclotransferases, as an enzyme that degrades glutathione in the cytosol of mammalian cells. ChaC2 is distinct from the previously described ChaC1, to which ChaC2 shows about 50% sequence identity. Human and mouse ChaC2 proteins, purified in vitro, show 10-20 fold lower catalytic efficiency than ChaC1, although they showed comparable Km values (Km of 3...
December 2, 2016: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/27913325/increasing-axial-resolution-of-ultrasonic-imaging-with-a-joint-sparse-representation-model
#16
Junbo Duan, Hui Zhong, Bowen Jing, Siyuan Zhang, Mingxi Wan
The axial resolution of ultrasonic imaging is confined by the temporal width of acoustic pulse generated by the transducer, which has a limited bandwidth. Deconvolution can eliminate this effect and, therefore, improve the resolution. However, most ultrasonic imaging methods perform deconvolution scan line by scan line, and therefore the information embedded within the neighbor scan lines is unexplored, especially for those materials with layered structures such as blood vessels. In this paper, a joint sparse representation model is proposed to increase the axial resolution of ultrasonic imaging...
December 2016: IEEE Transactions on Ultrasonics, Ferroelectrics, and Frequency Control
https://www.readbyqxmd.com/read/27913205/trp-channels-in-calcium-homeostasis-from-hormonal-control-to-structure-function-relationship-of-trpv5-and-trpv6
#17
REVIEW
Mark K C van Goor, Joost G J Hoenderop, Jenny van der Wijst
Maintaining plasma calcium levels within a narrow range is of vital importance for many physiological functions. Therefore, calcium transport processes in the intestine, bone and kidney are tightly regulated to respectively fine-tune the rate of absorption, storage and excretion. The TRPV5 and TRPV6 calcium channels are viewed as the gatekeepers of epithelial calcium transport. Several calciotropic hormones control the channels at the level of transcription, membrane expression, and function. Recent technological advances have provided the first near-atomic resolution structural models of several TRPV channels, allowing insight into their architecture...
November 29, 2016: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/27912134/uncertainties-in-mapping-forest-carbon-in-urban-ecosystems
#18
Gang Chen, Emre Ozelkan, Kunwar K Singh, Jun Zhou, Marilyn R Brown, Ross K Meentemeyer
Spatially explicit urban forest carbon estimation provides a baseline map for understanding the variation in forest vertical structure, informing sustainable forest management and urban planning. While high-resolution remote sensing has proven promising for carbon mapping in highly fragmented urban landscapes, data cost and availability are the major obstacle prohibiting accurate, consistent, and repeated measurement of forest carbon pools in cities. This study aims to evaluate the uncertainties of forest carbon estimation in response to the combined impacts of remote sensing data resolution and neighborhood spatial patterns in Charlotte, North Carolina...
November 29, 2016: Journal of Environmental Management
https://www.readbyqxmd.com/read/27912064/modular-assembly-of-the-bacterial-large-ribosomal-subunit
#19
Joseph H Davis, Yong Zi Tan, Bridget Carragher, Clinton S Potter, Dmitry Lyumkis, James R Williamson
The ribosome is a complex macromolecular machine and serves as an ideal system for understanding biological macromolecular assembly. Direct observation of ribosome assembly in vivo is difficult, as few intermediates have been isolated and thoroughly characterized. Herein, we deploy a genetic system to starve cells of an essential ribosomal protein, which results in the accumulation of assembly intermediates that are competent for maturation. Quantitative mass spectrometry and single-particle cryo-electron microscopy reveal 13 distinct intermediates, which were each resolved to ∼4-5 Å resolution and could be placed in an assembly pathway...
December 1, 2016: Cell
https://www.readbyqxmd.com/read/27912062/atomic-structure-of-the-cystic-fibrosis-transmembrane-conductance-regulator
#20
Zhe Zhang, Jue Chen
The cystic fibrosis transmembrane conductance regulator (CFTR) is an anion channel evolved from the ATP-binding cassette (ABC) transporter family. In this study, we determined the structure of zebrafish CFTR in the absence of ATP by electron cryo-microscopy to 3.7 Å resolution. Human and zebrafish CFTR share 55% sequence identity, and 42 of the 46 cystic-fibrosis-causing missense mutational sites are identical. In CFTR, we observe a large anion conduction pathway lined by numerous positively charged residues...
December 1, 2016: Cell
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