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Protein chemistry

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https://www.readbyqxmd.com/read/28433992/the-aachen-minipig-phenotype-genotype-hematological-and-biochemical-characterization-and-comparison-to-the-g%C3%A3-ttingen-minipig
#1
Kerstin Pawlowsky, Lisa Ernst, Julia Steitz, Thaddäus Stopinski, Babette Kögel, Anna Henger, Reinhart Kluge, René Tolba
BACKGROUND: The pig is one of the most frequently used large animal models for biomedical research, especially in the field of translational research and surgical models. While standard livestock breeds are used in short-term and acute studies, minipig breeds are the preferred breeds in long-term and chronic studies due to their limited growth and body weight. OBJECTIVE: In consideration of the 3R principle (refinement, reduction, replacement) and the increasing demand, the aim of this study was to generate a new, robust, non-specific-pathogen-free minipig breed, the Aachen minipig...
April 22, 2017: European Surgical Research. Europäische Chirurgische Forschung. Recherches Chirurgicales Européennes
https://www.readbyqxmd.com/read/28433569/vitamin-d-binding-protein-rs7041-polymorphism-and-high-residual-platelet-reactivity-in-patients-receiving-dual-antiplatelet-therapy-with-clopidogrel-or-ticagrelor
#2
Monica Verdoia, Veronica Daffara, Patrizia Pergolini, Roberta Rolla, Paolo Marino, Giorgio Bellomo, Alessandro Carriero, Giuseppe De Luca
BACKGROUND: Vitamin D deficiency represents a major health problem in general population, especially for its association with cardiovascular disorders and thrombotic risk, even in patients on dual antiplatelet therapy (DAPT). Vitamin D Binding Protein (VDBP) is the main transporter of vitamin D in the bloodstream and genetic polymorphisms of this protein have been shown to account for a significant variability of vitamin D levels and its systemic effects. Contrasting data have linked the rs7041 T→G substitution with cardiovascular disease...
April 19, 2017: Vascular Pharmacology
https://www.readbyqxmd.com/read/28430416/a-complimentary-benzophenone-cross-linking-mass-spectrometry-photochemistry
#3
Adam Belsom, Gemma Mudd, Sven H Giese, Manfred Auer, Juri Rappsilber
Use of a heterobifunctional photoactivatable cross-linker, sulfo-SDA (diazirine), has yielded high-density data that facilitated structure modelling of individual proteins. We expand the photoactivatable chemistry toolbox here with a second reagent, sulfo-SBP (benzophenone). This further increases the density of photo-cross-linking to a factor of 20x over conventional cross-linking. Importantly, the two different photoactivatable groups display orthogonal directionality, enabling access to different protein regions, unreachable with a single cross-linker...
April 21, 2017: Analytical Chemistry
https://www.readbyqxmd.com/read/28429417/immobilization-methods-for-the-rapid-total-chemical-synthesis-of-proteins-on-microtiter-plates
#4
Robert Zitterbart, Michael Krumrey, Oliver Seitz
The chemical synthesis of proteins typically involves the solid-phase peptide synthesis of unprotected peptide fragments that are stitched together in solution by native chemical ligation (NCL). The process is slow, and throughput is limited because of the need for repeated high performance liquid chromatography purification steps after both solid-phase peptide synthesis and NCL. With an aim to provide faster access to functional proteins and to accelerate the functional analysis of synthetic proteins by parallelization, we developed a method for the high performance liquid chromatography-free synthesis of proteins on the surface of microtiter plates...
April 21, 2017: Journal of Peptide Science: An Official Publication of the European Peptide Society
https://www.readbyqxmd.com/read/28428445/pectinase-treated-panax-ginseng-protects-heat-stress-induced-testicular-damage-in-rats
#5
Min Kyoung Kim, Kyu-Min Cha, Seock-Yeon Hwang, Un-Kyu Park, Seok Kyo Seo, Sang-Ho Lee, Min-Sik Jeong, SiHyun Cho, Spandana Rajendra Kopalli, Si-Kwan Kim
Testicular hyperthermia is well studied to cause impaired spermatogenesis. In the present study, the protective effect of enzymatically modified (pectinase-treated) Panax ginseng (GINST) against intermittent sub-chronic heat stress-induced testicular damage in rats was investigated. Male Sprague-Dawley rats were divided into four groups: normal control (NC), heat-stressed control (HC), heat-stressed plus GINST-100 mg/kg/day (HG100) and heat-stressed plus GINST-200 mg/kg/day (HG200) treatment groups. GINST (100 and 200 mg/kg/day) was mixed separately with a regular pellet diet and was administered orally for 8 weeks starting from 1 week before heat exposure...
June 2017: Reproduction: the Official Journal of the Society for the Study of Fertility
https://www.readbyqxmd.com/read/28426192/profiling-cellular-substrates-of-lysine-acetyltransferases-gcn5-and-p300-with-orthogonal-labeling-and-click-chemistry
#6
Zhen Han, Chau-Wen Chou, Xiangkun Yang, Michael G Bartlett, Y George Zheng
p300 and GCN5 are two representative histone/lysine acetyltransferase (HAT/KAT) enzymes in mammalian cells. It was recently reported that they possess multiple acyltransferase activities including acetylation, propionylation, and butyrylation of the -amino group of lysine residues of histones and non-histone protein substrates. Although thousands of acetylated substrates and acetylation sites have been identified by mass spectrometry-based proteomic screening, our knowledge about protein acylation, especially the causative connection between individual KAT members and their substrates remain limited...
April 20, 2017: ACS Chemical Biology
https://www.readbyqxmd.com/read/28422167/biotin-transfer-from-a-trifunctional-crosslinker-for-identification-of-cell-surface-receptors-of-soluble-protein-ligands
#7
Tammy-Lynn Tremblay, Jennifer J Hill
Here we describe a novel crosslinker and its application as a biotin-transfer reagent to identify cell surface receptors of soluble protein ligands on live cells. This crosslinker contains three functional groups: an aldehyde-reactive aminooxy group, a sulfhydryl, and a biotin (ASB). It is readily synthesized via a 3-step addition reaction using standard solid-phase peptide synthesis methods and commercially available intermediates, allowing access to laboratories without specialized synthetic chemistry capabilities...
April 19, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28420299/surface-chemistry-of-gold-nanoparticles-determines-the-biocorona-composition-impacting-cellular-uptake-toxicity-and-gene-expression-profiles-in-human-endothelial-cells
#8
Parwathy Chandran, Jim E Riviere, Nancy A Monteiro-Riviere
This study investigated the role of nanoparticle size and surface chemistry on biocorona composition and its effect on uptake, toxicity and cellular responses in human umbilical vein endothelial cells (HUVEC), employing 40 and 80 nm gold nanoparticles (AuNP) with branched polyethyleneimine (BPEI), lipoic acid (LA) and polyethylene glycol (PEG) coatings. Proteomic analysis identified 59 hard corona proteins among the various AuNP, revealing largely surface chemistry-dependent signature adsorbomes exhibiting human serum albumin (HSA) abundance...
April 19, 2017: Nanotoxicology
https://www.readbyqxmd.com/read/28419525/method-comparison-and-generation-of-plasma-biochemistry-ris-for-the-white-rhinoceros-on-a-point-of-care-and-wet-chemistry-analyzer
#9
Emma H Hooijberg, Gerhard Steenkamp, Peter Buss, Amelia Goddard
BACKGROUND: Plasma biochemistry analysis may aid the management of White rhinoceros with poaching or other injuries. Analyzer- and species-specific RIs are necessary to evaluate health status and identify abnormalities. OBJECTIVES: The purpose of the study was to perform a comparison study between the IDEXX VetTest and Roche Cobas Integra 400 Plus, and to generate analyzer-specific RIs for White rhinoceros according to published guidelines. METHODS: Comparison was carried out using White rhinoceros plasma samples from healthy and diseased animals...
April 17, 2017: Veterinary Clinical Pathology
https://www.readbyqxmd.com/read/28416550/identification-and-optimization-of-thienopyridine-carboxamides-as-inhibitors-of-hiv-regulatory-complexes
#10
Robert L Nakamura, Mark A Burlingame, Shumin Yang, David C Crosby, Dale J Talbot, Kitty Chui, Alan D Frankel, Adam R Renslo
Viral regulatory complexes perform critical functions during virus replication and are important targets for therapeutic intervention. In HIV, the Tat and Rev proteins form complexes with multiple viral and cellular factors to direct transcription and export of the viral RNA. These complexes are composed of many proteins and are dynamic, making them difficult to fully recapitulate in vitro Therefore we developed a cell-based reporter assay to monitor the assembly of viral complexes for inhibitor screening. We screened a small molecule library and identified multiple hits that inhibit the activity of the viral complexes...
April 17, 2017: Antimicrobial Agents and Chemotherapy
https://www.readbyqxmd.com/read/28415589/gabaergic-neurons-in-nucleus-accumbens-are-correlated-to-resilience-and-vulnerability-to-chronic-stress-for-major-depression
#11
Zhaoming Zhu, Guangyan Wang, Ke Ma, Shan Cui, Jin-Hui Wang
BACKGROUND: Major depression, persistent low mood, is one of common psychiatric diseases. Chronic stressful life is believed to be a major risk factor that leads to dysfunctions of the limbic system. However, a large number of the individuals with experiencing chronic stress do not suffer from major depression, called as resilience. Endogenous mechanisms underlying neuronal invulnerability to chronic stress versus major depression are largely unknown. As GABAergic neurons are vulnerable to chronic stress and their impairments is associated with major depression, we have examined whether the invulnerability of GABAergic neurons in the limbic system is involved in resilience...
March 21, 2017: Oncotarget
https://www.readbyqxmd.com/read/28415450/impact-of-silica-nanoparticle-surface-chemistry-on-protein-corona-formation-and-consequential-interactions-with-biological-cells
#12
Andréa Kurtz-Chalot, Christian Villiers, Jérémie Pourchez, Delphine Boudard, Matteo Martini, Patrice N Marche, Michèle Cottier, Valérie Forest
Nanoparticles (NP) physico-chemical features greatly influence NP/cell interactions. NP surface functionalization is often used to improve NP biocompatibility or to enhance cellular uptake. But in biological media, the formation of a protein corona adds a level of complexity. The aim of this study was to investigate in vitro the influence of NP surface functionalization on their cellular uptake and the biological response induced. 50nm fluorescent silica NP were functionalized either with amine or carboxylic groups, in presence or in absence of polyethylene glycol (PEG)...
June 1, 2017: Materials Science & Engineering. C, Materials for Biological Applications
https://www.readbyqxmd.com/read/28415050/free-radicals-and-polyphenols-the-redox-chemistry-of-neurodegenerative-diseases
#13
REVIEW
Sonia Losada-Barreiro, Carlos Bravo-Díaz
The oxidation of bioorganic materials by air and, particularly, the oxidative stress involved in the cell loss and other pathologies associated with neurodegenerative diseases (NDs) are of enormous social and economic importance. NDs generally involve free radical reactions, beginning with the formation of an initiating radical by some redox, thermal or photochemical process, causing nucleic acid, protein and lipid oxidations and the production of harmful oxidative products. Physically, persons afflicted by NDs suffer progressive loss of memory and thinking ability, mood swings, personality changes, and loss of independence...
March 29, 2017: European Journal of Medicinal Chemistry
https://www.readbyqxmd.com/read/28414900/precision-templated-bottom-up-multiprotein-nanoassembly-through-defined-click-chemistry-linkage-to-dna
#14
Gabriella Marth, Andrew M Hartley, Samuel C Reddington, Lauren L Sargisson, Marlène Parcollet, Katherine E Dunn, D Dafydd Jones, Eugen Stulz
We demonstrate an approach that allows attachment of single-stranded DNA (ssDNA) to a defined residue in a protein of interest (POI) so as to provide optimal and well-defined multicomponent assemblies. Using an expanded genetic code system, azido-phenylalanine (azF) was incorporated at defined residue positions in each POI; copper-free click chemistry was used to attach exactly one ssDNA at precisely defined residues. By choosing an appropriate residue, ssDNA conjugation had minimal impact on protein function, even when attached close to active sites...
April 20, 2017: ACS Nano
https://www.readbyqxmd.com/read/28411645/polymer-based-protein-engineering-synthesis-and-characterization-of-armored-high-graft-density-polymer-protein-conjugates
#15
Sheiliza Carmali, Hironobu Murata, Chad Cummings, Krzysztof Matyjaszewski, Alan J Russell
Atom transfer radical polymerization (ATRP) from the surface of a protein can generate remarkably dense polymer shells that serve as armor and rationally tune protein function. Using straightforward chemistry, it is possible to covalently couple or display multiple small molecule initiators onto a protein surface. The chemistry is fine-tuned to be sequence specific (if one desires a single targeted site) at controlled density. Once the initiator is anchored on the protein surface, ATRP is used to grow polymers on protein surface, in situ...
2017: Methods in Enzymology
https://www.readbyqxmd.com/read/28411642/semisynthetic-enzymes-by-protein-peptide-site-directed-covalent-conjugation-methods-and-applications
#16
Jose M Palomo
This chapter describes the rational design and synthesis of semisynthetic lipases by site-directed incorporation of tailor-made peptides on the lipase-lid site to improve its activity, specificity, and enantioselectivity in specific biotransformations. Cysteine was genetically introduced at a particular point of the oligopeptide lid of the enzyme, and cysteine-containing peptides, complementary to the amino acid sequence on the lid site of Geobacillus thermocatenulatus lipase (BTL), were covalently attached on the lid of two different cysteine-BTL variants based on a fast thiol-disulfide exchange ligation followed by desulfurization...
2017: Methods in Enzymology
https://www.readbyqxmd.com/read/28411638/approaches-for-conjugating-tailor-made-polymers-to-proteins
#17
Matthew Paeth, Jacob Stapleton, Melissa L Dougherty, Henry Fischesser, Jerry Shepherd, Matthew McCauley, Rebecca Falatach, Richard C Page, Jason A Berberich, Dominik Konkolewicz
A series of methods are outlined for attaching functional polymers to proteins. Polymers with good control over structure, functionality, and composition can be created using reversible addition-fragmentation chain transfer (RAFT) polymerization. These polymers can be covalently linked to enzymes and proteins using either the "grafting-to" approach, where a preformed polymer is attached to the protein surface, or the "grafting-from" approach, where the polymer is grown from the protein surface. Methods for grafting-to, or attaching the RAFT chain transfer agent to the protein surface outlined include the commonly used carbodiimide/activated ester (EDC/NHS) coupling...
2017: Methods in Enzymology
https://www.readbyqxmd.com/read/28411477/comparative-surface-energetic-study-of-matrigel-%C3%A2-and-collagen-i-interactions-with-endothelial-cells
#18
Michael J Hill, Debanjan Sarkar
Understanding of the surface energetic aspects of the spontaneously deposited proteins on biomaterial surfaces and how this influences cell adhesion and differentiation is an area of regenerative medicine that has not received adequate attention. Current controversies surround the role of the biomaterial substratum surface chemistry, the range of influence of said substratum, and the effects of different surface energy components of the protein interface. Endothelial cells (ECs) are a highly important cell type for regenerative medicine applications, such as tissue engineering, and In-vivo they interact with collagen I based stromal tissue and basement membranes producing different behavioral outcomes...
April 4, 2017: Colloids and Surfaces. B, Biointerfaces
https://www.readbyqxmd.com/read/28409625/privileged-structural-motif-detection-and-analysis-using-generative-topographic-maps
#19
Shilva Kayastha, Dragos Horvath, Erik Gilberg, Michael Gütschow, Jürgen Bajorath, Alexandre Varnek
Identification of "privileged structural motifs" associated with specific target families is of particular importance for designing novel bioactive compounds. Here, we demonstrate that they can be extracted from a data distribution represented on a two-dimensional map obtained by Generative Topographic Mapping (GTM) . In GTM, structurally related molecules are grouped together on the map. Zones of the map preferentially populated by target-specific compounds were delineated, which helped to capture common substructures on the basis of which these compounds were grouped together by the GTM...
April 14, 2017: Journal of Chemical Information and Modeling
https://www.readbyqxmd.com/read/28409494/association-between-metabolically-healthy-central-obesity-in-women-and-levels-of-soluble-receptor-for-advanced-glycation-end-products-soluble-vascular-adhesion-protein-1-and-the-activity-of-semicarbazide-sensitive-amine-oxidase
#20
Ivana Koborová, Radana Gurecká, Melinda Csongová, Katarína Volkovová, Éva Szökő, Tamás Tábi, Katarína Šebeková
AIM: To determine the levels of circulating soluble receptor for advanced glycation end products (sRAGE), as a biomarker of risk of metabolic syndrome and cardiovascular disease development in centrally obese (CO) women considered metabolically healthy (COH) in comparison with those metabolically unhealthy (COU). METHODS: 47 lean healthy, 17 COH (presenting waist-to-height ratio ≥0.5 but not elevated blood pressure, atherogenic lipid profile, and insulin resistance), and 50 COU (CO presenting ≥2 risk factors) women aged 40-45 years were included...
April 14, 2017: Croatian Medical Journal
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