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Stability engineering

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https://www.readbyqxmd.com/read/29036273/scoop-an-accurate-and-fast-predictor-of-protein-stability-curves-as-a-function-of-temperature
#1
Fabrizio Pucci, Jean Marc Kwasigroch, Marianne Rooman
Motivation: The molecular bases of protein stability remain far from elucidated even though substantial progress has been made through both computational and experimental investigations. One of the most challenging goals is the development of accurate prediction tools of the temperature dependence of the standard folding free energy Δ G ( T ). Such predictors have an enormous series of potential applications, which range from drug design in the biopharmaceutical sector to the optimization of enzyme activity for biofuel production...
June 26, 2017: Bioinformatics
https://www.readbyqxmd.com/read/29035868/comparative-analysis-of-codon-usage-pattern-and-its-influencing-factors-in-schistosoma-japonicum-and-ascaris-suum
#2
Gulshana A Mazumder, Arif Uddin, Supriyo Chakraborty
Schistosoma japonicum and Ascaris suum are considered as the major parasites of human which cause various life threatening diseases such as schistomiasis and ascariasis. The codon usage bias (CUB) is known as the phenomenon of more usage of a specific codon than the other synonymous codons for an amino acid. The factors that influence the codon usage bias are mutation pressure, natural selection, gene expression, gene length, GC content, RNA stability, recombination rates, codon position etc. Here we had used various bioinformatic tools and statistical analyses to understand the compositional features, expression level and codon usage bias in the genes of these two species...
December 20, 2017: Acta Parasitologica
https://www.readbyqxmd.com/read/29029979/immunoaffinity-capture-coupled-with-capillary-electrophoresis-mass-spectrometry-to-study-protein-therapeutic-stability-in-vivo
#3
Mei Han, Josh T Pearson, Yunan Wang, Dwight Winters, Marcus Soto, Dan A Rock, Brooke M Rock
Protein engineering is at an all-time high in biopharmaceutics. As a result, absorption, distribution, metabolism and excretion (ADME) of proteins has become more important to understand in the context of engineering strategies to optimize therapeutic properties of potential lead constructs. Immunoaffinity capture coupled with a newly developed capillary electrophoresis - mass spectrometry (CE-MS) system was used to characterize intact protein mass analysis of a wildtype Fc-FGF21 construct and a sequence re-engineered Fc-FGF21 construct from an in vivo study...
October 10, 2017: Analytical Biochemistry
https://www.readbyqxmd.com/read/29028537/facile-surface-engineered-polymeric-absorbents-for-simultaneous-adsorption-and-degradation-of-organic-wastes
#4
Shun Yang, Yaru Wang, Shiting Lin, Jie Fan, Chang Liu, Xiao Yan
Polymeric absorbents were surface-engineered with photocatalysts for simultaneous adsorption and degradation of organic wastes in water using a facile Pickering emulsion polymerization method. This facile strategy not only overcome the low light energy utilization of traditional photocatalysts-polymer nanocomposites due to the core-shell structure, but also could convenient control the microstructure of the photocatalysts owing to the separated preparation procedure when compared to the direct growth method...
October 4, 2017: Chemosphere
https://www.readbyqxmd.com/read/29028313/anomalous-corrosion-of-bulk-transition-metal-diselenides-leading-to-stable-monolayers
#5
Yu-Ting Huang, Akhil Dodda, Daniel S Schulman, Amritanand Sebastian, Fu Zhang, Drew Buzzell, Mauricio Terrones, Shien-Ping Feng, Saptarshi Das
In this paper we provide insight into an anomalous corrosion process, referred to as electro-ablation (EA), which converts multi-layer flakes of transition metal diselenides like MoSe2 into their corresponding monolayers when micromechanically exfoliated on a conductive electrode and subsequently subjected to a high anodic potential inside a conventional electrochemical cell. Photoluminescence intensity map and scanning transmission electron microscopy (STEM) images confirmed the single crystalline nature and 2H-hexagonal lattice structure of the remnant monolayer MoSe2 flakes, indicating the superior corrosion stability of the monolayers compared to the bulk counterpart...
October 13, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/29028138/2d-ruddlesden-popper-perovskites-for-optoelectronics
#6
REVIEW
Yani Chen, Yong Sun, Jiajun Peng, Junhui Tang, Kaibo Zheng, Ziqi Liang
Conventional 3D organic-inorganic halide perovskites have recently undergone unprecedented rapid development. Yet, their inherent instabilities over moisture, light, and heat remain a crucial challenge prior to the realization of commercialization. By contrast, the emerging 2D Ruddlesden-Popper-type perovskites have recently attracted increasing attention owing to their great environmental stability. However, the research of 2D perovskites is just in their infancy. In comparison to 3D analogues, they are natural quantum wells with a much larger exciton binding energy...
October 13, 2017: Advanced Materials
https://www.readbyqxmd.com/read/29027158/isq-calculation-evaluation-of-in-vitro-laser-scanning-vibrometry-captured-resonance-frequency
#7
Stijn Debruyne, Nicolas Grognard, Gino Verleye, Korneel Van Massenhove, Dimitrios Mavreas, Bart Vande Vannet
BACKGROUND: Implant stability testing at various stages of implant therapy by means of resonance frequency analysis is extensively used. The overall measurement outcome is a function of the resulting stiffness of three entities: surrounding bone, bone-implant complex, and implant-Smartpeg complex. The influence of the latter on the overall measurement results is presently unknown. It can be investigated in vitro by use of imbedded implants with mounted Smartpegs. This enables to keep the influence of the two other entities constant and controlled...
October 12, 2017: International Journal of Implant Dentistry
https://www.readbyqxmd.com/read/29024683/the-thermoduric-effects-of-site-directed-mutagenesis-of-proline-and-lysine-on-dextransucrase-from-leuconostoc-mesenteroides-0326
#8
Meng-Qi Li, Hong-Bin Zhang, Yao Li, Xue-Qin Hu, Jing-Wen Yang
Dextransucrase (DSR, EC2.4.5.1) from Leuconostoc mesenteroides 0326 which catalyzes sucrose to produce dextran, are popularly used in food and medicine industries. However, its poor kinetic stability especially at higher temperatures is a limiting factor for developing industrial applications. The aim of this study is to improve the enzyme activity and thermal stability of dextransucrase by single, double and triple mutations of proline and lysine. In this work, Pro-473, Pro-678, and Pro-856 were selected as engineering targets and individually replaced with serine...
October 9, 2017: International Journal of Biological Macromolecules
https://www.readbyqxmd.com/read/29024072/structurally-deformed-mos2-for-electrochemically-stable-thermally-resistant-and-highly-efficient-hydrogen-evolution-reaction
#9
Yen-Chang Chen, Ang-Yu Lu, Ping Lu, Xiulin Yang, Chang-Ming Jiang, Marina Mariano, Brian Kaehr, Oliver Lin, André Taylor, Ian D Sharp, Lain-Jong Li, Stanley S Chou, Vincent Tung
The emerging molybdenum disulfide (MoS2 ) offers intriguing possibilities for realizing a transformative new catalyst for driving the hydrogen evolution reaction (HER). However, the trade-off between catalytic activity and long-term stability represents a formidable challenge and has not been extensively addressed. This study reports that metastable and temperature-sensitive chemically exfoliated MoS2 (ce-MoS2 ) can be made into electrochemically stable (5000 cycles), and thermally robust (300 °C) while maintaining synthetic scalability and excellent catalytic activity through physical-transformation into 3D structurally deformed nanostructures...
October 12, 2017: Advanced Materials
https://www.readbyqxmd.com/read/29022401/green-synthesis-of-silver-nanoparticles-using-transgenic-nicotiana-tabacum-callus-culture-expressing-silicatein-gene-from-marine-sponge-latrunculia-oparinae
#10
Yuri N Shkryl, Galina N Veremeichik, Dmitriy G Kamenev, Tatiana Y Gorpenchenko, Yulia A Yugay, Dmitriy V Mashtalyar, Aleksander V Nepomnyaschiy, Tatiana V Avramenko, Aleksandr A Karabtsov, Vladimir V Ivanov, Victor P Bulgakov, Sergey V Gnedenkov, Yury N Kulchin, Yury N Zhuravlev
In the present investigation, transgenic tobacco callus cultures and plants overexpressing the silicatein gene LoSilA1 from marine sponge Latrunculia oparinae were obtained and their bioreduction behaviour for the synthesis of silver nanoparticles (AgNPs) was studied. Synthesized nanoparticles were characterized using UV-visible spectroscopy, Fourier transformed infrared spectroscopy (FTIR), X-ray diffraction (XRD), scanning electron microscopy (SEM), energy-dispersive X-ray spectroscopy (EDX), atomic flame electron microscopy (AFM) and nanoparticle tracking analysis (NTA)...
October 12, 2017: Artificial Cells, Nanomedicine, and Biotechnology
https://www.readbyqxmd.com/read/29022206/effect-of-an-alkaline-environment-on-the-engineering-behavior-of-cement-stabilized-solidified-zn-contaminated-soils
#11
Jingjing Liu, Fusheng Zha, Yongfeng Deng, Kerui Cui, Xueqin Zhang
Although the stabilization/solidification method has been widely used for remediation of heavy metal-contaminated soils in recent decades, the engineering behavior and mobility of heavy metal ions under alkaline groundwater conditions are still unclear. Therefore, the unconfined compressive strength test (UCS) combined with toxicity characteristic leaching procedure (TCLP) and general acid neutralization capacity (GANC) was used to investigate the effects of alkalinity (using NaOH to simulate alkalinity in the environment) on the mechanical and leaching characteristics of cement-solidified/stabilized (S/S) Zn-contaminated soils...
October 12, 2017: Environmental Science and Pollution Research International
https://www.readbyqxmd.com/read/29021918/protection-of-calves-by-a-prefusion-stabilized-bovine-rsv-f-vaccine
#12
Baoshan Zhang, Lei Chen, Chiara Silacci, Michelle Thom, Jeffrey C Boyington, Aliaksandr Druz, M Gordon Joyce, Efrain Guzman, Wing-Pui Kong, Yen-Ting Lai, Guillaume B E Stewart-Jones, Yaroslav Tsybovsky, Yongping Yang, Tongqing Zhou, Ulrich Baxa, John R Mascola, Davide Corti, Antonio Lanzavecchia, Geraldine Taylor, Peter D Kwong
Bovine respiratory syncytial virus, a major cause of respiratory disease in calves, is closely related to human RSV, a leading cause of respiratory disease in infants. Recently, promising human RSV-vaccine candidates have been engineered that stabilize the metastable fusion (F) glycoprotein in its prefusion state; however, the absence of a relevant animal model for human RSV has complicated assessment of these vaccine candidates. Here, we use a combination of structure-based design, antigenic characterization, and X-ray crystallography to translate human RSV F stabilization into the bovine context...
March 8, 2017: NPJ Vaccines
https://www.readbyqxmd.com/read/29019465/facile-and-controllable-electrochemical-fabrication-of-cell-adhesive-polypyrrole-electrodes-using-pyrrole-rgd-peptides
#13
Lindy K Jang, Semin Kim, Jiwon Seo, Jae Young Lee
Electrically conductive polymers, such as polypyrrole (PPy), have been widely used for the fabrication of various biosensors and tissue engineering scaffolds. For their biologically relevant applications, conductive biomaterials capable of intimate cellular interactions are highly desired. However, conventional methods to incorporate biomolecules into conductive polymers do not offer fine and easy control over the surface density of the biomolecules and/or their stability. We present a novel method to electrochemically immobilize cell adhesive Arg-Gly-Asp (RGD) ligands on PPy electrode surfaces with a simple control over the peptide surface density by varying the electrodeposition time...
October 11, 2017: Biofabrication
https://www.readbyqxmd.com/read/29019398/exploration-of-a-variety-of-copper-molybdate-coordination-hybrids-based-on-a-flexible-bis-1-2-4-triazole-ligand-a-look-through-the-composition-space-diagram
#14
Ganna A Senchyk, Andrey B Lysenko, Konstantin V Domasevitch, Oliver Erhart, Stefan Henfling, Harald Krautscheid, Eduard B Rusanov, Karl W Krämer, Silvio Decurtins, Shi-Xia Liu
We investigated the coordination ability of the bis(1,2,4-triazolyl) module, tr2pr = 1,3-bis(1,2,4-triazol-4-yl)propane, toward the engineering of solid-state structures of copper polyoxomolybdates utilizing a composition space diagram approach. Different binding modes of the ligand including [N-N]-bridging and N-terminal coordination and the existence of favorable conformation forms (anti/anti, gauche/anti, and gauche/gauche) resulted in varieties of mixed metal Cu(I)/Mo(VI) and Cu(II)/Mo(VI) coordination polymers prepared under hydrothermal conditions...
October 11, 2017: Inorganic Chemistry
https://www.readbyqxmd.com/read/29017502/the-presence-of-residual-gold-nanoparticles-in-samples-interferes-with-the-rt-qpcr-assay-used-for-gene-expression-profiling
#15
Natasha M Sanabria, Mary Gulumian
BACKGROUND: RT-qPCR is routinely used in expression profiling of toxicity pathway genes. However, genetic and molecular level studies used to determine, understand and clarify potential risks of engineered nanomaterials (ENMs) are still incomplete. Concerns regarding possible interference caused by intracellular ENMs during analyses have been raised. The aim of this study was to verify a qPCR procedure for gene expression assays, which can be used in toxicity and exposure assessments...
October 10, 2017: Journal of Nanobiotechnology
https://www.readbyqxmd.com/read/29016101/molecular-orbital-principles-of-oxygen-redox-battery-electrodes
#16
Masashi Okubo, Atsuo Yamada
Lithium-ion batteries are key energy-storage devices for a sustainable society. The most widely used positive electrode materials are LiMO2 (M: transition metal), in which a redox reaction of M occurs in association with Li(+) (de)intercalation. Recent developments of Li-excess transition-metal oxides, which deliver a large capacity of more than 200 mAh/g using an extra redox reaction of oxygen, introduce new possibilities for designing higher energy density lithium-ion batteries. For better engineering using this fascinating new chemistry, it is necessary to achieve a full understanding of the reaction mechanism by gaining knowledge on the chemical state of oxygen...
October 10, 2017: ACS Applied Materials & Interfaces
https://www.readbyqxmd.com/read/28993161/new-class-of-early-stage-enterovirus-inhibitors-with-a-novel-mechanism-of-action
#17
Yipeng Ma, Rana Abdelnabi, Leen Delang, Mathy Froeyen, Walter Luyten, Johan Neyts, Carmen Mirabelli
4-dimethylamino benzoic acid (compound 12, synonym: 4EDMAB) was identified as an in vitro inhibitor of Coxsackie virus B3 (CVB3) replication in CPE-based assays (EC50 of 9.1 ± 1.5 μM). Next, the activity of twenty-three analogues was assessed, their structure-activity relationship was deduced and a more potent analogue was identified (EC50 of 2.6 ± 0.5 μM). The antiviral activity of 4EDMAB was further confirmed by quantifying viral RNA yield. Time-of-drug-addition assay revealed that 4EDMAB exerts its antiviral activity at the early stages of virus replication...
October 7, 2017: Antiviral Research
https://www.readbyqxmd.com/read/28992447/magnetic-hyperthermia-efficiency-and-mri-contrast-sensitivity-of-colloidal-soft-hard-ferrite-nanoclusters
#18
Kosmas Vamvakidis, Stefanos Mourdikoudis, Antonis Makridis, Eleni Paulidou, Mavroeidis Angelakeris, Catherine Dendrinou-Samara
The use of magnetic nanostructures as theranostic agents is a multiplex task as physiochemical and biochemical properties including excellent magneto-responsive properties, low toxicity, colloidal stability and facile surface engineering capability are all required. Nonetheless, much progress has been made in recent years synthesis of "all-in-one" MNPs remain unambiguously challenging. Towards this direction, in this study is presented a facile incorporation of a soft magnetic phase (MnFe2O4 NPs) with a hard phase (CoFe2O4 NPs) in the presence of the biocompatible polymer sodium dodecyl sulfate (SDS), into spherical and compact bi-magnetic nanoclusters (NCs) with modulated magnetic properties that critically enhance hyperthermic efficiency and MRI contrast effect...
October 3, 2017: Journal of Colloid and Interface Science
https://www.readbyqxmd.com/read/28991781/a-heterogeneous-computing-accelerated-sce-ua-global-optimization-method-using-openmp-opencl-cuda-and-openacc
#19
Guangyuan Kan, Xiaoyan He, Liuqian Ding, Jiren Li, Ke Liang, Yang Hong
The shuffled complex evolution optimization developed at the University of Arizona (SCE-UA) has been successfully applied in various kinds of scientific and engineering optimization applications, such as hydrological model parameter calibration, for many years. The algorithm possesses good global optimality, convergence stability and robustness. However, benchmark and real-world applications reveal the poor computational efficiency of the SCE-UA. This research aims at the parallelization and acceleration of the SCE-UA method based on powerful heterogeneous computing technology...
October 2017: Water Science and Technology: a Journal of the International Association on Water Pollution Research
https://www.readbyqxmd.com/read/28991427/molecular-engineering-of-platinum-ii-terpyridine-complexes-with-tetraphenylethylene-modified-alkynyl-ligands-supramolecular-assembly-via-pt%C3%A2-%C3%A2-%C3%A2-pt-and-or-%C3%AF-%C3%AF-stacking-interactions-and-the-formation-of-various-superstructures
#20
Heung-Kiu Cheng, Margaret Ching-Lam Yeung, Vivian Wing-Wah Yam
A series of platinum(II) terpyridine complexes with tetraphenylethylene-modified alkynyl ligands has been designed and synthesized. The introduction of the tetraphenylethylene motif has led to aggregation-induced emission (AIE) properties, which upon self-assembly led to the formation of metal-metal-to-ligand charge transfer (MMLCT) behavior stabilized by Pt···Pt and/or π-π interactions. Tuning the steric bulk or hydrophilicity through molecular engineering of the platinum(II) complexes has been found to alter their spectroscopic properties and result in interesting superstructures (including nanorods, nanospheres, nanowires, and nanoleaves) in the self-assembly process...
October 9, 2017: ACS Applied Materials & Interfaces
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