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peptide array

Tom Brown, Nick Brown, Elliott J Stollar
A need exists to develop bioinformatics for predicting differences in protein function, especially for members of a domain family who share a common fold, yet are found in a diverse array of proteins. Many domain families have been conserved over large evolutionary spans and representative genomic data during these periods are now available. This allows a simple method for grouping domain sequences to reveal common and unique/specific binding residues. As such, we hypothesize that sequence alignment analysis of the yeast SH3 domain family across ancestral species in the fungal kingdom can determine whether each member encodes specific information to bind unique peptide targets...
2018: PloS One
Joseph O Primeau, Gareth P Armanious, M'Lynn E Fisher, Howard S Young
The calcium pump (a.k.a. Ca2+ -ATPase or SERCA) is a membrane transport protein ubiquitously found in the endoplasmic reticulum (ER) of all eukaryotic cells. As a calcium transporter, SERCA maintains the low cytosolic calcium level that enables a vast array of signaling pathways and physiological processes (e.g. synaptic transmission, muscle contraction, fertilization). In muscle cells, SERCA promotes relaxation by pumping calcium ions from the cytosol into the lumen of the sarcoplasmic reticulum (SR), the main storage compartment for intracellular calcium...
2018: Sub-cellular Biochemistry
Maria Del Pilar Quintana, Jun-Hong Ch'ng, Kirsten Moll, Arash Zandian, Peter Nilsson, Zulkarnain Md Idris, Somporn Saiwaew, Ulrika Qundos, Mats Wahlgren
Naturally acquired antibodies to proteins expressed on the Plasmodium falciparum parasitized red blood cell (pRBC) surface steer the course of a malaria infection by reducing sequestration and stimulating phagocytosis of pRBC. Here we have studied a selection of proteins representing three different parasite gene families employing a well-characterized parasite with a severe malaria phenotype (FCR3S1.2). The presence of naturally acquired antibodies, impact on rosetting rate, surface reactivity and opsonization for phagocytosis in relation to different blood groups of the ABO system were assessed in a set of sera from children with mild or complicated malaria from an endemic area...
February 19, 2018: Scientific Reports
Ya Hao, Na Yang, Da Teng, Xiumin Wang, Ruoyu Mao, Jianhua Wang
Lactoferricin (Lfcin), a multifunction short peptide with a length of 25 residues, is derived from the whey protein lactoferrin by acidic pepsin hydrolysis. It has potent nutritional enhancement, antimicrobial, anticancer, antiviral, antiparasitic, and anti-inflammatory activities. This review describes the research advantages of the above biological functions, with attention to the molecular design and modification of Lfcin. In this examination of design and modification studies, research on the identification of Lfcin active derivatives and crucial amino acid residues is also reviewed...
February 17, 2018: Biometals: An International Journal on the Role of Metal Ions in Biology, Biochemistry, and Medicine
Catarina Loureiro, Marnix H Medema, John van der Oost, Detmer Sipkema
Microorganisms are Nature's little engineers of a remarkable array of bioactive small molecules that represent most of our new drugs. The wealth of genomic and metagenomic sequence data generated in the last decade has shown that the majority of novel biosynthetic gene clusters (BGCs) is identified from cultivation-independent studies, which has led to a strong expansion of the number of microbial taxa known to harbour BGCs. The large size and repeat sequences of BGCs remain a bioinformatic challenge, but newly developed software tools have been created to overcome these issues and are paramount to identify and select the most promising BGCs for further research and exploitation...
February 14, 2018: Current Opinion in Biotechnology
Rafal Tokarz, Nischay Mishra, Teresa Tagliafierro, Stephen Sameroff, Adrian Caciula, Lokendrasingh Chauhan, Jigar Patel, Eric Sullivan, Azad Gucwa, Brian Fallon, Marc Golightly, Claudia Molins, Martin Schriefer, Adriana Marques, Thomas Briese, W Ian Lipkin
Tick-borne diseases are the most common vector-borne diseases in the United States, with serology being the primary method of diagnosis. We developed the first multiplex, array-based assay for serodiagnosis of tick-borne diseases called the TBD-Serochip. The TBD-Serochip was designed to discriminate antibody responses to 8 major tick-borne pathogens present in the United States, including Anaplasma phagocytophilum, Babesia microti, Borrelia burgdorferi, Borrelia miyamotoi, Ehrlichia chaffeensis, Rickettsia rickettsii, Heartland virus and Powassan virus...
February 16, 2018: Scientific Reports
Remigiusz Worch, Anita Dudek, Joanna Krupa, Anna Szymaniec, Piotr Setny
Cleavage of hemagglutinin precursor (HA0) by cellular proteases results in the formation of two subunits, HA1 and HA2. The N-terminal fragment of HA2, named a fusion peptide (HAfp), possess a charged, amine N-terminus. It has been shown that the N-terminus of HAfp stabilizes the structure of a helical hairpin observed for a 23-amino acid long peptide (HAfp1-23), whose larger activity than HAfp1-20 has been demonstrated recently. In this paper, we analyze the effect of N-terminal charge on peptide-mediated fusion efficiency and conformation changes at the membrane interface by comparison with the corresponding N -acetylated peptides of 20- and 23-amino acid lengths...
February 14, 2018: International Journal of Molecular Sciences
W Taleb Bendiab, B Benomrane, B Bounaceur, M Dauchez, A M Krallafa
Theoretical investigations of a solute in liquid water at normal temperature and pressure can be performed at different levels of theory. Static quantum calculations as well as classical and ab initio molecular dynamics are used to completely explore the conformational space for large solvated molecular systems. In the classical approach, it is essential to describe all of the interactions of the solute and the solvent in detail. Water molecules are very often described as rigid bodies when the most commonly used interaction potentials, such as the SPCE and the TIP4P models, are employed...
February 14, 2018: Journal of Molecular Modeling
X Y Luo, J J Xue, Y Zhang, Z P Cao, M H Tian, Y Xiao, B L Zhu
OBJECTIVES: To study the expression pattern of brain natriuretic peptide (BNP) in myocardial tissue from forensic routine cases and to explore its application value in the forensic determination of sudden cardiac death (SCD). METHODS: The data of 96 autopsy cases accepted by the center of Medico-legal Investigation of China Medical University between December 2008 to May 2014 were collected. There were 62 cases in SCD group cardiac and 34 cases in non-SCD group...
December 2017: Fa Yi Xue za Zhi
Hiroki Suzuki, Takahiro Mizumoto, Yoshiki Seto, Hideyuki Sato, Satomi Onoue
The aim of present study was to develop a respirable powder (RP) of a shortened vasoactive intestinal peptide (VIP) analog for inhalation. VIP and C-terminally truncated VIP analogs were synthesized with a solid-phase method. A structure-activity relationship (SAR) study was carried out in terms with binding and relaxant activities of the peptides. Prepared RP formulation of a shortened VIP analog was physicochemically characterized by morphological, in vitro aerodynamic, and pharmacological assessments. The SAR study demonstrated that the N-terminal 23 amino acid residues were required for biological activity of VIP...
February 14, 2018: Journal of Peptide Science: An Official Publication of the European Peptide Society
Yongqiang Sha, Li Yang, Yonggang Lv
Severe hypoxia inhibits the adhesion and mobility of bone marrow-derived mesenchymal stem cells (BMSCs) and limits their application in bone tissue engineering. In this study, CoCl2was used to simulate severe hypoxia and the effects of mechano-growth factor (MGF) E peptide on the morphology, adhesion, migration, and proangiogenic capacity of BMSCs under hypoxia were measured. It was demonstrated that severe hypoxia (500-μM CoCl2) significantly caused cell contraction and reduced cell area, roundness, adhesion, and migration of BMSCs...
February 13, 2018: Cell Biochemistry and Function
Jung Eun Choi, Hee Won Kang, Young Mi Hong, Sejung Sohn
Purpose: To differentiate adenoviral pharyngoconjunctival fever (PCF) from acute Kawasaki disease (KD) using laboratory tests before results of virus-real time polymerase chain reaction and ophthalmologic examination are obtained. Methods: Baseline patient characteristics and laboratory measurements were compared between 40 patients with adenovirus infection and 123 patients with KD. Results: The patients with adenovirus infection were generally older than those with KD (median: 3...
January 2018: Korean Journal of Pediatrics
Maarten G K Ghequire, Susan K Buchanan, René De Mot
Bacteria host an arsenal of antagonism-mediating molecules to combat for ecologic space. Bacteriocins represent a pivotal group of secreted antibacterial peptides and proteins assisting in this fight, mainly eliminating relatives. Colicin M, a model for peptidoglycan-interfering bacteriocins in Gram-negative bacteria, appears to be part of a set of polymorphic toxins equipped with such a catalytic domain (ColM) targeting lipid II. Diversifying recombination has enabled parasitism of different receptors and has also given rise to hybrid bacteriocins in which ColM is associated with another toxin module...
February 13, 2018: MBio
Teizo Yoshimura, Mairi H McLean, Amiran K Dzutsev, Xiaohong Yao, Keqiang Chen, Jiaqiang Huang, Wanghua Gong, Jiamin Zhou, Yi Xiang, Jonathan H Badger, Colm O'hUigin, Vishal Thovarai, Lino Tessarollo, Scott K Durum, Giorgio Trinchieri, Xiu-Wu Bian, Ji Ming Wang
Commensal bacteria are critical for physiological functions in the gut, and dysbiosis in the gut may cause diseases. In this article, we report that mice deficient in cathelin-related antimicrobial peptide (CRAMP) were defective in the development of colon mucosa and highly sensitive to dextran sulfate sodium (DSS)-elicited colitis, as well as azoxymethane-mediated carcinogenesis. Pretreatment of CRAMP-/-mice with antibiotics markedly reduced the severity of DSS-induced colitis, suggesting CRAMP as a limiting factor on dysbiosis in the colon...
February 12, 2018: Journal of Immunology: Official Journal of the American Association of Immunologists
Elisabeth Marchal, Sam Schellens, Emilie Monjon, Evert Bruyninckx, Heather G Marco, Gerd Gäde, Jozef Vanden Broeck, Heleen Verlinden
Adipokinetic hormone (AKH) is a highly researched insect neuropeptide that induces the mobilization of carbohydrates and lipids from the fat body at times of high physical activity, such as flight and locomotion. As a naturally occurring ligand, AKH has undergone quite a number of amino acid changes throughout evolution, and in some insect species multiple AKHs are present. AKH acts by binding to a rhodopsin-like G protein-coupled receptor, which is related to the vertebrate gonadotropin-releasing hormone receptors...
February 11, 2018: International Journal of Molecular Sciences
Inhyuk Yeo, Yong-Jik Lee, Kyeongseop Song, Hyeon-Su Jin, Jae-Eun Lee, Dajeong Kim, Dong-Woo Lee, Nam Joo Kang
Bioactive peptides contribute to various cellular processes including improved skin physiology. Hence, bioactive keratins have attracted considerable attention as active cosmetic ingredients for skin health. Here, we obtained low molecular weight (LMW) keratins from native chicken feathers by anaerobic digestion with an extremely thermophilic bacterium Fervidobacterium islandicum AW-1, followed by stepwise fractionation through ultrafiltration. To assess the effects of the feather keratins on skin health, we performed in vitro and ex vivo assays to investigate their inhibitory effects on matrix metalloproteinases (MMPs)...
February 10, 2018: Journal of Biotechnology
Konstantinos Ypsilantis, John C Plakatouras, Manolis J Manos, Andreas Kourtellaris, Georgios Markopoulos, Evangelos Kolettas, Achilleas Garoufis
Although the interactions of oligopyridine ruthenium complexes with DNA have been widely studied, the biological activity of similar diruthenium oligopyridine complexes conjugated with peptides has not been investigated. Herein, we report the stepwise synthesis and characterization of diruthenium complexes with the general formula [(L a )Ru(tppz)Ru(L b )] n+ (tppz = 2,3,5,6-tetra(2-pyridyl)pyrazine, L a = 2,2':6',2''-terpyridine or 4-phenyl-2,2':6',2''-terpyridine and L b = 2,2':6',2''-terpyridine-4'-CO(Gly 1 -Gly 2 -Gly 3 -LysCONH 2 ) (5), (6), n = 5; 2,2':6',2''-terpyridine-4'-CO(Gly 1 -Gly 2 -Lys 1 -Lys 2 CONH 2 ) (7), (8), n = 6; 2,2':6',2''-terpyridine-4'-CO(Ahx-Lys 1 Lys 2 CONH 2 ) (9), (10), n = 5, Ahx = 6-aminohexanoic acid)...
February 13, 2018: Dalton Transactions: An International Journal of Inorganic Chemistry
Justyna Fraczyk, Małgorzata Walczak, Zbigniew J Kaminski
Two new rigid bi-aromatic linkers for synthesis of peptide arrays by SPOT methodology were obtained from cellulose treated with 2,4-dichloro-6-methoxy-1,3,5-triazine. Reaction with m-phenylenediamine gave non-cleavable TYPE I linker which enabled attachment of the peptides via resistant to harsh reaction conditions amide, ether, and amine bonds. Reaction with 3-Fmoc-aminobenzoic acid followed by thermal isomerization of the intermediate "superactive" ester producing an amide-like bond gave TYPE II linker that was very stable during peptide synthesis...
February 2018: Journal of Peptide Science: An Official Publication of the European Peptide Society
Yuzhuo Zhang, Kellen DeLaney, Limei Hui, Junhua Wang, Robert M Sturm, Lingjun Li
Food intake is regulated by various neuromodulators, including numerous neuropeptides. However, it remains elusive at the molecular and cellular level as to how these important chemicals regulate internal processes and which regions of the neuronal organs are responsible for regulating the behavior. Here we report a comparative neuropeptidomic analysis of the brain and pericardial organ (PO) in response to feeding in two well-studied crustacean physiology model organisms, Callinectes sapidus and Carcinus maenas, using mass spectrometry (MS) techniques...
February 12, 2018: Journal of the American Society for Mass Spectrometry
Gerhard Sponder, Nasrin Abdulhanan, Nadine Fröhlich, Lucia Mastrototaro, Jörg R Aschenbach, Monika Röntgen, Ivana Pilchova, Michal Cibulka, Peter Racay, Martin Kolisek
The Na+/Mg2+ exchanger SLC41A1 (A1), a key component of intracellular Mg homeostasis (IMH), is the major cellular Mg2+ efflux system, and its overexpression decreases [Mg2+]intracellular. IMH plays an important role in the regulation of many cellular processes, including cellular signaling. However, whether the overexpression of A1 and the consequent drop of [Mg2+]i impact on intracellular signaling is unknown. To examine the latter, we utilized dynamic mass redistribution (DMR) assay, PathScan® RTK signaling antibody (PRSA) array, confirmatory Western blot (WB) analyses of phosphorylation of kinases selected by PRSA, and mag-fura 2-assisted fast filter spectrometry (FFS)...
January 12, 2018: Oncotarget
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