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Amino acids

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https://www.readbyqxmd.com/read/28434103/structure-restraints-from-heteronuclear-pseudocontact-shifts-generated-by-lanthanide-tags-at-two-different-sites
#1
Benjamin J G Pearce, Shereen Jabar, Choy-Theng Loh, Monika Szabo, Bim Graham, Gottfried Otting
Pseudocontact shifts (PCS) encode long-range information on 3D structures of protein backbones and side-chains. The level of structural detail that can be obtained increases with the number of different sites tagged with a paramagnetic metal ion to generate PCSs. Here we show that PCSs from two different sites can suffice to determine the structure of polypeptide chains and their location and orientation relative to the magnetic susceptibility tensor χ, provided that PCSs are available for (1)H as well as heteronuclear spins...
April 22, 2017: Journal of Biomolecular NMR
https://www.readbyqxmd.com/read/28434099/the-complete-genome-sequence-of-a-novel-virus-bellflower-veinal-mottle-virus-suggests-the-existence-of-a-new-genus-within-the-family-potyviridae
#2
Jang-Kyun Seo, Hae-Ryun Kwak, Mi-Kyeong Kim, Jeong-Soo Kim, Hong-Soo Choi
A new virus was isolated from a bellflower (Campanula takesimana) plant showing veinal mottle symptoms, and its complete genome sequence was determined. The viral genome consists of a positive-sense single-stranded RNA of 8,259 ribonucleotides. Electron microscopic observation revealed that the viral genome is packaged as a filamentous particle with an average length of approximately 760 nm. BLAST searches of protein databases showed that the encoded polyprotein has a maximum amino acid sequence identity of 34...
April 22, 2017: Archives of Virology
https://www.readbyqxmd.com/read/28434033/the-gut-microbiome-as-a-target-for-prevention-and-treatment-of-hyperglycaemia-in-type-2-diabetes-from-current-human-evidence-to-future-possibilities
#3
REVIEW
Louise Brunkwall, Marju Orho-Melander
The totality of microbial genomes in the gut exceeds the size of the human genome, having around 500-fold more genes that importantly complement our coding potential. Microbial genes are essential for key metabolic processes, such as the breakdown of indigestible dietary fibres to short-chain fatty acids, biosynthesis of amino acids and vitamins, and production of neurotransmitters and hormones. During the last decade, evidence has accumulated to support a role for gut microbiota (analysed from faecal samples) in glycaemic control and type 2 diabetes...
April 22, 2017: Diabetologia
https://www.readbyqxmd.com/read/28433934/amino-acid-functionalized-gadofullerene-nanoparticles-with-superior-antitumor-activity-via-destruction-of-tumor-vasculature-in%C3%A2-vivo
#4
Yue Zhou, Ruijun Deng, Mingming Zhen, Jie Li, Mirong Guan, Wang Jia, Xue Li, Ying Zhang, Tong Yu, Toujun Zou, Zhigao Lu, Jun Guo, Lei Sun, Chunying Shu, Chunru Wang
Researchers have been puzzled of the therapy of malignant tumors and the current therapeutic strategies are always accompanied by toxicity or side effects. Developing efficient nanodrugs could reduce the dosage and greatly improve the therapeutic effects in cancer treatments. Here we initially reported a novel kind of gadofullerene nanoparticles functionalized with amino acid (β-alanine), which exhibited a superior antitumor activity in hepatoma H22 models via a novel therapeutic mechanism. The involvement of β-alanine improved the tumor inhibition rate up to 76...
April 14, 2017: Biomaterials
https://www.readbyqxmd.com/read/28433795/helicobacter-pylori-cagl-amino-acid-polymorphism-d58e59-pave-the-way-toward-peptic-ulcer-disease-while-n58e59-is-associated-with-gastric-cancer-in-north-of-iran
#5
Mina Rezaee Cherati, Javad Shokri-Shirvani, Ahmad Karkhah, Ramzan Rajabnia, Hamid Reza Nouri
The cagL protein of Helicobacter pylori involving in pathogenesis of gastroduodenal disorders. Therefore, the current study was conducted to determine the cagL amino acid polymorphisms in patients with gastric diseases. One hundred gastric biopsies were collected from gastritis, peptic ulcer (PUD) and gastric cancer (GC) patients and were screened for cagL using polymerase chain reaction (PCR). Also, sequence variations of the cagL were assessed via sequence translation. The cagL geneopositivity was 71.6% in patients were infected with H...
April 19, 2017: Microbial Pathogenesis
https://www.readbyqxmd.com/read/28433761/a-glycoproteomic-approach-reveals-that-the-s-layer-glycoprotein-of-lactobacillus-kefiri-cidca-83111-is-o-and-n-glycosylated
#6
Gustavo J Cavallero, Mariano Malamud, Adriana C Casabuono, M de Los Ángeles Serradell, Alicia S Couto
In Gram-positive bacteria, such as lactic acid bacteria, general glycosylation systems have not been documented so far. The aim of this work was to characterize in detail the glycosylation of the S-layer protein of Lactobacillus kefiri CIDCA 83111. A reductive β-elimination treatment followed by anion exchange high performance liquid chromatography analysis was useful to characterize the O-glycosidic structures. MALDI-TOF mass spectrometry analysis confirmed the presence of oligosaccharides bearing from 5 to 8 glucose units carrying galacturonic acid...
April 19, 2017: Journal of Proteomics
https://www.readbyqxmd.com/read/28433730/detection-of-rickettsia-helvetica-and-candidatus-r-tarasevichiae-dna-in-ixodes-persulcatus-ticks-collected-in-northeastern-european-russia-komi-republic
#7
Mikhail Yu Kartashov, Ludmila I Glushkova, Tamara P Mikryukova, Igor V Korabelnikov, Yulia I Egorova, Natalia L Tupota, Elena V Protopopova, Svetlana N Konovalova, Vladimir A Ternovoi, Valery B Loktev
The number of tick-borne infections in the northern European regions of Russia has increased considerably in the last years. In the present study, 676 unfed adult Ixodes persulcatus ticks were collected in the Komi Republic from 2011 to 2013 to study tick-borne rickettsioses. Rickettsia spp. DNA was detected by PCR in 51 (7.6%) ticks. The nucleotide sequence analysis of gltA fragments (765bp) from 51 ticks indicated that 60.8% and 39.2% of the ticks were infected with Rickettsia helvetica and Candidatus R. tarasevichiae, respectively...
April 6, 2017: Ticks and Tick-borne Diseases
https://www.readbyqxmd.com/read/28433718/three-new-piscidins-from-orange-spotted-grouper-epinephelus-coioides-phylogeny-expression-and-functional-characterization
#8
Ze-Rui Zhuang, Xiao-Dong Yang, Xia-Zi Huang, Hui-Xian Gu, Han-Yin Wei, Yi-Jun He, Li Deng
The present study reports the identification, and characterization of three new putative piscidin paralogues, ecPis-2, ecPis-3 and ecPis-4, from orange-spotted grouper (Epinephelus coioides). The cDNA of the three piscidins with the 207, 216, and 231 nt open reading frame encoded respectively a 68-, 71-, and 76-amino acid preprotein consisting of the predicted signal peptide, and putative mature peptide and prodomain. The phylogenetic analysis indicated that multiple piscidin paralogues in one fish species are highly diversified, the analysis suggested that the piscidins should be a family belonging to the superfamily of ancient cationic, linear, and amphipathic host defence peptides widespread across invertebrate and vertebrate taxa comprising insect cecropins and ceratotoxins, and the amphibian dermaseptins...
April 19, 2017: Fish & Shellfish Immunology
https://www.readbyqxmd.com/read/28433686/mitochatting-if-only-we-could-be-a-fly-on-the-cell-wall
#9
REVIEW
Michal Eisenberg-Bord, Maya Schuldiner
Mitochondria, cellular metabolic hubs, perform many essential processes and are required for the production of metabolites such as ATP, iron-sulfur clusters, heme, amino acids and nucleotides. To fulfill their multiple roles, mitochondria must communicate with all other organelles to exchange small molecules, ions and lipids. Since mitochondria are largely excluded from vesicular trafficking routes, they heavily rely on membrane contact sites. Contact sites are areas of close proximity between organelles that allow efficient transfer of molecules, saving the need for slow and untargeted diffusion through the cytosol...
April 19, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/28433658/molecular-cloning-of-esr2-and-gene-expression-analysis-of-esr1-and-esr2-in-the-pituitary-gland-of-the-chinese-alligator-alligator-sinensis-during-female-reproductive-cycle
#10
Ruidong Zhang, Yanan Yin, Long Sun, Peng Yan, Yongkang Zhou, Rong Wu, Xiaobing Wu
Estrogens play critical roles in reproductive physiology via estrogen receptors (ESRs) in vertebrates, including reptiles. Chinese alligator (Alligator sinensis) is an endemic and endangered reptile species in China. In the present study, we cloned ESR2 gene from the ovary using rapid amplification of cDNA ends (RACE), investigated the spatial expression of ESRs in various tissues and temporal expression of ESRs in the pituitary glands during the reproductive cycle in Chinese alligators by quantitative real-time PCR (qPCR)...
April 19, 2017: Gene
https://www.readbyqxmd.com/read/28433638/metabolomic-analysis-for-combined-hepatotoxicity-of-chlorpyrifos-and-cadmium-in-rats
#11
Ming-Yuan Xu, Pan Wang, Ying-Jian Sun, Yi-Jun Wu
Pesticides and heavy metals are widespread environmental pollutants. Although the acute toxicity of organophosphorus pesticide chlorpyrifos (CPF) and toxic heavy metal cadmium (Cd) is well characterized, the combined toxicity of CPF and Cd, especially the hepatotoxicity of the two chemicals with long-term exposure at a low dose, remained unclear. In this study, we investigated the toxicity in the liver of rats upon subchronic exposure to CPF and Cd at environmentally relevant doses. Rats were given three different doses (1/135 LD50, 1/45 LD50 and 1/15 LD50) of CPF and Cd as well as their mixtures by oral gavage for 90 days...
April 19, 2017: Toxicology
https://www.readbyqxmd.com/read/28433594/favouring-no-over-h2o2-production-will-increase-pb-tolerance-in-prosopis-farcta-via-altered-primary-metabolism
#12
Somaieh Zafari, Mohsen Sharifi, Luis A J Mur, Najmeh Ahmadian Chashmi
Reactive oxygen species (ROS) and nitric oxide (NO) are known in triggering defense functions to detoxify heavy metal stresses. To investigate the relevance of ROS production, Pb treatment (400µM) alone and in combination with 400µM sodium ascorbate (Asc: as H2O2 scavenger) were given to hydroponically grown Prosopis farcta seedlings over a time course of 72h. Data presented here indicate that, the low extent of H2O2 due to scavenging by ascorbate, together with high level of NO improved Pb+Asc- treated Prosopis growth...
April 20, 2017: Ecotoxicology and Environmental Safety
https://www.readbyqxmd.com/read/28433582/effects-of-twenty-standard-amino-acids-on-biochemical-constituents-docosahexaenoic-acid-production-and-metabolic-activity-changes-of-crypthecodinium-cohnii
#13
Waseem Safdar, Xinyi Zan, Muhammad Shamoon, Hafiz Rizwan Sharif, Omar Mukama, Xin Tang, Yuanda Song
The influence of 20 standard amino acids was investigated on growth, lipid accumulation, docosahexaenoic acid (DHA) production and cell biochemical composition of Crypthecodinium cohnii. C. cohnii efficiently utilize organic nitrogen (predominantly threonine and to a lesser extent tyrosine and serine) as compared to inorganic nitrogen (NH4)2SO4. However, No significant effect was observed on major biochemical composition of C. cohnii (lipids, carbohydrates and proteins) under N limitation or supplementation with different N-sources...
April 9, 2017: Bioresource Technology
https://www.readbyqxmd.com/read/28433562/characterization-of-the-complete-mitochondrial-genome-of-khawia-sinensis-belongs-among-platyhelminths-cestodes
#14
Yan Feng, Han-Li Feng, Yi-Hui Fang, Ying-Bing Su
Khawia sinensis is an important species in freshwater fish causing considerable economic losses to the breeding industry. This is the first mt genome of a caryophyllidean cestode characterised. The entire mt genome of K. sinensis is 13,759 bp in length. This mt genome contains 12 protein-coding genes, 22 transfer RNA genes, two ribosomal RNA genes and two non-coding regions. The arrangement of the K. sinensis mt genome is the same as other tapeworms, however, the incomplete stop codon (A) is more frequent that other species...
April 19, 2017: Experimental Parasitology
https://www.readbyqxmd.com/read/28433539/rationally-designed-pi3k%C3%AE-mutants-to-mimic-atr-and-their-use-to-understand-binding-specificity-of-atr-inhibitors
#15
Yipin Lu, Mark Knapp, Kenneth Crawford, Robert Warne, Robert Elling, Kelly Yan, Michael Doyle, Gwynn Pardee, Li Zhang, Sylvia Ma, Mulugeta Mamo, Elizabeth Ornelas, Yue Pan, Dirksen Bussiere, Johanna Jansen, Isabel Zaror, Albert Lai, Paul Barsanti, Janet Sim
ATR, a protein kinase in the PIKK family, plays a critical role in the cell DNA-damage response and is an attractive anticancer drug target. Several potent and selective inhibitors of ATR have been reported showing significant antitumor efficacy, with most advanced ones entering clinical trials. However, due to the absence of an experimental ATR structure, the determinants contributing to ATR inhibitors' potency and specificity are not well understood. Here we present the mutations in the ATP-binding site of PI3Kα to progressively transform the pocket to mimic that of ATR...
April 19, 2017: Journal of Molecular Biology
https://www.readbyqxmd.com/read/28433529/antimicrobial-peptides-within-the-yellowtail-kingfish-seriola-lalandi
#16
Simon Muncaster, Kirsty Kraakman, Olivia Gibbons, Koen Mensink, Maria Forlenza, Gregory Jacobson, Steve Bird
A number of Seriola species are currently farmed or being investigated as future aquaculture species in countries around the world. However they face a number of issues and limitations which will need to be overcome to ensure future stability and growth, one of which are disease outbreaks. Despite this, very little has been done to understand the immune system of Seriola species and very few immune genes have been characterised. Antimicrobial peptides (AMP) are naturally occurring low molecular weight polypeptides that play a major role in an organism's immune system and act effectively as a first line of defence...
April 19, 2017: Developmental and Comparative Immunology
https://www.readbyqxmd.com/read/28433487/ramping-up-stress-signaling-protein-ampylation-in-metazoans
#17
REVIEW
Matthias C Truttmann, Hidde L Ploegh
Protein AMPylation - the covalent attachment of an AMP residue to amino acid side chains using ATP as the donor - is a post-translational modification (PTM) increasingly appreciated as relevant for both normal and pathological cell signaling. In metazoans single copies of filamentation induced by cAMP (fic)-domain-containing AMPylases - the enzymes responsible for AMPylation - preferentially modify a set of dedicated targets and contribute to the perception of cellular stress and its regulation. Pathogenic bacteria can exploit AMPylation of eukaryotic target proteins to rewire host cell signaling machinery in support of their propagation and survival...
April 19, 2017: Trends in Cell Biology
https://www.readbyqxmd.com/read/28433433/design-selection-and-development-of-cyclic-peptide-ligands-for-human-erythropoietin
#18
William S Kish, Hiroyuki Sachi, Amith D Naik, Matthew K Roach, Benjamin G Bobay, Robert K Blackburn, Stefano Menegatti, Ruben G Carbonell
This work presents the selection and characterization of erythropoietin (EPO)-binding cyclic peptide ligands. The sequences were selected by screening a focused library of cyclic depsipeptides cyclo[(Nα-Ac)Dap(A)-X1-X6-AE], whose structure and amino acid compositions were tailored to mimic the EPO receptor. The sequences identified through library screening were synthesized on chromatographic resin and characterized via binding-and-elution studies against EPO to select a pool of candidate ligands. Sequences with higher hydrophobicity consistently showed stronger binding to EPO, with the exception of FSLLSH, which was noted for its lower hydrophobicity and high EPO binding...
April 12, 2017: Journal of Chromatography. A
https://www.readbyqxmd.com/read/28433062/electrospun-nafion-polyacrylonitrile-nanofibers-as-an-ion-exchange-ultrathin-layer-chromatographic-stationary-phase
#19
Yanhui Wang, Susan V Olesik
An ion-exchange method to separate charged biomolecules on ultrathin layer chromatographic (UTLC) plates using electrospun Nafion-Polyacrylonitrile (PAN) nanofibers as the stationary phase is described. Sulfonate groups on Nafion provide the ion-exchange sites. The addition of PAN (a higher molecular weight polymer than Nafion) was used to facilitate the nanofiber formation process using electrospinning. Electrospinning parameters and separation conditions were optimized using fractional factorial design and response surface methodology...
June 1, 2017: Analytica Chimica Acta
https://www.readbyqxmd.com/read/28433061/graphene-coated-polymeric-anion-exchangers-for-ion-chromatography
#20
Kai Zhang, Minyi Cao, Chaoyan Lou, Shuchao Wu, Peimin Zhang, Mingyu Zhi, Yan Zhu
Carbonaceous stationary phases have gained much attention for their peculiar selectivity and robustness. Herein we report the fabrication and application of a graphene-coated polymeric stationary phase for anion exchange chromatography. The graphene-coated particles were fabricated by a facile evaporation-reduction method. These hydrophilic particles were proven appropriate substrates for grafting of hyperbranched condensation polymers (HBCPs) to make pellicular anion exchangers. The new phase was characterized by zeta potentials, Fourier transform infrared spectroscopy, thermogravimetry and scanning electron microscope...
June 1, 2017: Analytica Chimica Acta
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