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Biological Chemistry

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https://www.readbyqxmd.com/read/28106994/enzymatic-halogenation-and-dehalogenation-reactions-pervasive-and-mechanistically-diverse
#1
Vinayak Agarwal, Zachary D Miles, Jaclyn M Winter, Alessandra S Eustáquio, Abrahim A El Gamal, Bradley S Moore
Naturally produced halogenated compounds are ubiquitous across all domains of life where they perform a multitude of biological functions and adopt a diversity of chemical structures. Accordingly, a diverse collection of enzyme catalysts to install and remove halogens from organic scaffolds has evolved in nature. Accounting for the different chemical properties of the four halogen atoms (fluorine, chlorine, bromine, and iodine) and the diversity and chemical reactivity of their organic substrates, enzymes performing biosynthetic and degradative halogenation chemistry utilize numerous mechanistic strategies involving oxidation, reduction, and substitution...
January 20, 2017: Chemical Reviews
https://www.readbyqxmd.com/read/28106805/synthetic-assembly-of-mannose-moieties-using-polymer-chemistry-and-the-biological-evaluation-of-its-interaction-towards-concanavalin-a
#2
Deepti Diwan, Kohei Shinkai, Toshihiro Tetsuka, Bin Cao, Hidenao Arai, Tetsuo Koyama, Ken Hatano, Koji Matsuoka
Protein-carbohydrate interactions exhibit myriad intracellular recognition events, so understanding and investigating their specific interaction with high selectivity and strength are of crucial importance. In order to examine the effect of multivalent binding on the specificity of protein-carbohydrate interactions, we synthesized mannose glycosides as a novel type of glycosylated monomer and glycopolymers of polyacrylamide derivatives with α-mannose (α-Man) by radical polymerization and monitored their strength of interaction with concanavalin A (Con A) by surface plasmon resonance (SPR) detection...
January 18, 2017: Molecules: a Journal of Synthetic Chemistry and Natural Product Chemistry
https://www.readbyqxmd.com/read/28102523/the-effect-of-superparamagnetic-iron-oxide-nanoparticle-surface-charge-on-antigen-cross-presentation
#3
Yongbin Mou, Yun Xing, Hongyan Ren, Zhihua Cui, Yu Zhang, Guangjie Yu, Walter J Urba, Qingang Hu, Hongming Hu
Magnetic nanoparticles (NPs) of superparamagnetic iron oxide (SPIO) have been explored for different kinds of applications in biomedicine, mechanics, and information. Here, we explored the synthetic SPIO NPs as an adjuvant on antigen cross-presentation ability by enhancing the intracellular delivery of antigens into antigen presenting cells (APCs). Particles with different chemical modifications and surface charges were used to study the mechanism of action of antigen delivery. Specifically, two types of magnetic NPs, γFe2O3/APTS (3-aminopropyltrimethoxysilane) NPs and γFe2O3/DMSA (meso-2, 3-Dimercaptosuccinic acid) NPs, with the same crystal structure, magnetic properties, and size distribution were prepared...
December 2017: Nanoscale Research Letters
https://www.readbyqxmd.com/read/28099019/combined-molecular-dynamics-atoms-in-molecules-and-ir-studies-of-the-bulk-mono-fluoro-ethanol-and-bulk-ethanol-to-understand-the-role-of-organic-fluorine-in-hydrogen-bond-network
#4
Biswajit Biswas, Saptarsi Mondal, Prashant Chandra Singh
Presence of the fluorocarbon group in fluorinated alcohols makes them an important class of molecules which have diverse applications in the field of separation techniques, synthetic chemistry, polymer industry, and biology. In this paper, we have performed the density function theory calculation along with atom in molecule analysis, molecular dynamics simulation as well as IR measurements of the bulk mono fluoro-ethanol (MFE) and compared them with the bulk ethanol (ETH) in order to understand the effect of fluorocarbon group in the structure as well as hydrogen bond network of the bulk MFE...
January 18, 2017: Journal of Physical Chemistry. A
https://www.readbyqxmd.com/read/28097641/natural-products-diversity-of-marine-ascidians-tunicates-ascidiacea-and-successful-drugs-in-clinical-development
#5
REVIEW
Satheesh Kumar Palanisamy, N M Rajendran, Angela Marino
This present study reviewed the chemical diversity of marine ascidians and their pharmacological applications, challenges and recent developments in marine drug discovery reported during 1994-2014, highlighting the structural activity of compounds produced by these specimens. Till date only 5% of living ascidian species were studied from <3000 species, this study represented from family didemnidae (32%), polyclinidae (22%), styelidae and polycitoridae (11-12%) exhibiting the highest number of promising MNPs...
January 17, 2017: Natural Products and Bioprospecting
https://www.readbyqxmd.com/read/28096391/network-based-integration-of-systems-genetics-data-reveals-pathways-associated-with-lignocellulosic-biomass-accumulation-and-processing
#6
Eshchar Mizrachi, Lieven Verbeke, Nanette Christie, Ana C Fierro, Shawn D Mansfield, Mark F Davis, Erica Gjersing, Gerald A Tuskan, Marc Van Montagu, Yves Van de Peer, Kathleen Marchal, Alexander A Myburg
As a consequence of their remarkable adaptability, fast growth, and superior wood properties, eucalypt tree plantations have emerged as key renewable feedstocks (over 20 million ha globally) for the production of pulp, paper, bioenergy, and other lignocellulosic products. However, most biomass properties such as growth, wood density, and wood chemistry are complex traits that are hard to improve in long-lived perennials. Systems genetics, a process of harnessing multiple levels of component trait information (e...
January 17, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28096386/molecular-imaging-of-biological-systems-with-a-clickable-dye-in-the-broad-800-to-1-700-nm-near-infrared-window
#7
Shoujun Zhu, Qinglai Yang, Alexander L Antaris, Jingying Yue, Zhuoran Ma, Huasen Wang, Wei Huang, Hao Wan, Joy Wang, Shuo Diao, Bo Zhang, Xiaoyang Li, Yeteng Zhong, Kuai Yu, Guosong Hong, Jian Luo, Yongye Liang, Hongjie Dai
Fluorescence imaging multiplicity of biological systems is an area of intense focus, currently limited to fluorescence channels in the visible and first near-infrared (NIR-I; ∼700-900 nm) spectral regions. The development of conjugatable fluorophores with longer wavelength emission is highly desired to afford more targeting channels, reduce background autofluorescence, and achieve deeper tissue imaging depths. We have developed NIR-II (1,000-1,700 nm) molecular imaging agents with a bright NIR-II fluorophore through high-efficiency click chemistry to specific molecular antibodies...
January 17, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/28094985/beyond-the-hofmeister-series-ion-specific-effects-on-proteins-and-their-biological-functions
#8
Halil I Okur, Jana Hladílková, Kelvin B Rembert, Younhee Cho, Jan Heyda, Joachim Dzubiella, Paul S Cremer, Pavel Jungwirth
Ions differ in their ability to salt out proteins from solution as expressed in the lyotropic or Hofmeister series of cations and anions. Since its first formulation in 1888, this series has been invoked in a plethora of effects, going beyond the original salting-out/salting-in idea to include enzyme activities and the crystallization of proteins, as well as to processes not involving proteins like ion exchange, the surface tension of electrolytes, or bubble coalescence. Although it has been clear that the Hofmeister series is intimately connected to ion hydration in homogeneous and heterogeneous environments and to ion pairing, its molecular origin has not been fully understood...
January 17, 2017: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/28093991/cancer-nanotechnology-recent-trends-and-developments-in-strategies-for-targeting-cancer-cells-to-improve-cancer-imaging-and-treatment
#9
Jingyao Xu, Xiaoling Zhou, Yifei Li, Yudan Tian
Nanotechnology is a multidisciplinary field, which have the potential to cover applications in many subjects such as biology, chemistry and physics. The combined efforts of these subjects can lead to the successful engineering of nanodevices and nanovectors for targeted delivery and sensing/detection of cancer cells/tissues. The modulation of nanomaterials at surface and bulk level further adds value to this technology and develop strategies for early detection of precancerous and malignant cells from biological fluids...
January 16, 2017: Current Drug Metabolism
https://www.readbyqxmd.com/read/28093983/an-approach-towards-structure-based-antimicrobial-peptide-design-for-use-in-development-of-transgenic-plants-a-strategy-for-plant-disease-management
#10
Humaira Ilyas, Aritreyee Datta, Anirban Bhunia
Antimicrobial peptides (AMPs), also known as host defense peptides (HDPs), are ubiquitous and vital components of innate defense response that present themselves as potential candidates for drug design, aimed to control plant and animal diseases. Though their application for plant disease management has long been studied with natural AMPs, cytotoxicity and stability related shortcomings for the development of transgenic plants limits their usage. Newer technologies like molecular modelling, NMR spectroscopy and combinatorial chemistry allow screening for potent candidates and provide new avenues for the generation of rationally designed synthetic AMPs with multiple biological functions...
January 16, 2017: Current Medicinal Chemistry
https://www.readbyqxmd.com/read/28093981/chemical-and-biological-aspects-of-the-natural-1-4-benzoquinone-embelin-and-its-semi-synthetic-derivatives
#11
Priti Singh Shuveksh, Subhash Padhye, Rainer Schobert, Bernhard Biersack
BACKGROUND: Like the impressive biological properties of embelin, its chemical aspects have raised the interest of scientists in the field as well. A detailed understanding of the chemistry of embelin is necessary to fully exploit it medicinally. METHODS: Search for embelin isolation and its chemical modifications was carried out using web-based literature searching tools such as Pubmed and Scifinder. Pertinent literature is covered up to 2016. Structures of bioactive embelin derivatives are provided...
January 16, 2017: Current Medicinal Chemistry
https://www.readbyqxmd.com/read/28092796/global-open-data-management-in-metabolomics
#12
REVIEW
Kenneth Haug, Reza M Salek, Christoph Steinbeck
Chemical Biology employs chemical synthesis, analytical chemistry and other tools to study biological systems. Recent advances in both molecular biology such as next generation sequencing (NGS) have led to unprecedented insights towards the evolution of organisms' biochemical repertoires. Because of the specific data sharing culture in Genomics, genomes from all kingdoms of life become readily available for further analysis by other researchers. While the genome expresses the potential of an organism to adapt to external influences, the Metabolome presents a molecular phenotype that allows us to asses the external influences under which an organism exists and develops in a dynamic way...
January 13, 2017: Current Opinion in Chemical Biology
https://www.readbyqxmd.com/read/28091741/chemical-physical-and-biological-factors-shape-littoral-invertebrate-community-structure-in-coal-mining-end-pit-lakes
#13
Andreas Luek, Joseph B Rasmussen
Aquatic invertebrates form the base of the consumer food web in lakes. In coal-mining end-pit lakes, invertebrates are exposed to an environment with potentially challenging physical and chemical features. We hypothesized that the physical and chemical features of end-pit lakes reduce critical littoral habitat and thus reduce invertebrate diversity, thereby limiting the potential for these lakes to be naturalized. We used a multivariate approach using principle component analysis and redundancy analysis to study relationships between invertebrate community structure, habitat features, and water quality in five end-pit lakes and five natural lakes in the Rocky Mountain foothills of west-central Alberta, Canada...
January 13, 2017: Environmental Management
https://www.readbyqxmd.com/read/28091443/molecular-characterization-of-exon-28-of-von-willebrand-s-factor-gene-in-nigerian-population
#14
E D Ezigbo, E O Ukaejiofo, T U Nwagha
BACKGROUND: Polymorphisms in von Willebrand factor (VWF) gene are an important contributor to the expression of VWF gene and differences in ethnic distribution of these single nucleotide polymorphisms (SNPs) exists. AIMS: Our objective was to molecularly characterize the exon 28 of the VWF gene in the three major ethnic groups of Nigeria. SUBJECTS AND METHODS: We recruited 90 subjects, 45 had a history of bleeding. Questions included those used in the Zimmerman Program for the Molecular and Clinical Biology of von Willebrand disease (VWD), and the bleeding scores were calculated using the Molecular and Clinical Markers for the Diagnosis and Management of type 1 VWD scoring system...
February 2017: Nigerian Journal of Clinical Practice
https://www.readbyqxmd.com/read/28090121/redox-signaling-through-dna
#15
Elizabeth O'Brien, Rebekah M B Silva, Jacqueline K Barton
Biological electron transfer reactions between metal cofactors are critical to many essential processes within the cell. Duplex DNA is, moreover, capable of mediating the transport of charge through its π-stacked nitrogenous bases. Increasingly, [4Fe4S] clusters, generally redox-active cofactors, have been found to be associated with enzymes involved in DNA processing. DNA-binding enzymes containing [4Fe4S] clusters can thus utilize DNA charge transport (DNA CT) for redox signaling to coordinate reactions over long molecular distances...
October 2016: Israel Journal of Chemistry
https://www.readbyqxmd.com/read/28088667/cell-laden-hydrogels-for-osteochondral-and-cartilage-tissue-engineering
#16
REVIEW
Jingzhou Yang, Yu Shrike Zhang, Kan Yue, Ali Khademhosseini
: Despite tremendous advances in the field of regenerative medicine, it still remains challenging to repair the osteochondral interface and full-thickness articular cartilage defects. This inefficiency largely originates from the lack of appropriate tissue engineered artificial matrices that can replace the damaged regions and promote tissue regeneration. Hydrogels are emerging as a promising class of biomaterials for both soft and hard tissue regeneration. Many critical properties of hydrogels, such as mechanical stiffness, elasticity, water content, bioactivity, and degradation, can be rationally designed and conveniently tuned by proper selection of the material and chemistry...
January 11, 2017: Acta Biomaterialia
https://www.readbyqxmd.com/read/28088276/solid-supports-for-extraction-and-preconcentration-of-proteins-and-peptides-in-microfluidic-devices-a-review
#17
REVIEW
Szymon Dziomba, Monica Araya-Farias, Claire Smadja, Myriam Taverna, Benjamin Carbonnier, N Thuy Tran
Determination of proteins and peptides is among the main challenges of today's bioanalytical chemistry. The application of microchip technology in this field is an exhaustively developed concept that aims to create integrated and fully automated analytical devices able to quantify or detect one or several proteins from a complex matrix. Selective extraction and preconcentration of targeted proteins and peptides especially from biological fluids is of the highest importance for a successful realization of these microsystems...
February 22, 2017: Analytica Chimica Acta
https://www.readbyqxmd.com/read/28087479/synthesis-and-characterization-of-gold-nanostructured-chorin-e6-for-photodynamic-therapy
#18
L Vieira, M L Castilho, I Ferreira, J Ferreira-Strixino, K C Hewitt, L Raniero
Photodynamic therapy is an alternative treatment for cancer based on cellular uptake of a photosensitizer, illuminated with an appropriate wavelength in the presence of oxygen. A cascade of reactions generates reactive oxygen species leading to cell death. Using carbodiimide chemistry, chlorin e6 (Ce6) was covalently bonded to thiourea, and (via the sulphur end group) to gold nanoparticles (AuNPs), forming the Ce6-AuNP complex. Ce6 absorbs in the range 650-680nm, where the coefficient of biological tissue absorption is low (part of the therapeutic window), which is ideal for biological application...
January 10, 2017: Photodiagnosis and Photodynamic Therapy
https://www.readbyqxmd.com/read/28087422/nano-qsar-in-cell-biology-model-of-cell-viability-as-a-mathematical-function-of-available-eclectic-data
#19
Alla P Toropova, Andrey A Toropov
The prediction of biochemical endpoints is an important task of the modern medicinal chemistry, cell biology, and nanotechnology. Simplified molecular input-line entry system (SMILES) is a tool for representation of the molecular structure. In particular, SMILES can be used to build up the quantitative structure - property/activity relationships (QSPRs/QSARs). The QSPR/QSAR is a tool to predict an endpoint for a new substance, which has not been examined in experiment. Quasi-SMILES are representation of eclectic data related to an endpoint...
January 11, 2017: Journal of Theoretical Biology
https://www.readbyqxmd.com/read/28087127/the-route-from-problem-to-solution-in-multistep-continuous-flow-synthesis-of-pharmaceutical-compounds
#20
Péter Bana, Róbert Örkényi, Klára Lövei, Ágnes Lakó, György István Túrós, János Éles, Ferenc Faigl, István Greiner
Recent advances in the field of continuous flow chemistry allow the multistep preparation of complex molecules such as APIs (Active Pharmaceutical Ingredients) in a telescoped manner. Numerous examples of laboratory-scale applications are described, which are pointing towards novel manufacturing processes of pharmaceutical compounds, in accordance with recent regulatory, economical and quality guidances. The chemical and technical knowledge gained during these studies is considerable; nevertheless, connecting several individual chemical transformations and the attached analytics and purification holds hidden traps...
December 29, 2016: Bioorganic & Medicinal Chemistry
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