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Journal articles on the topic 'Peptide models; Hydrolytic process'

Author: Grafiati

Published: 4 June 2021

Last updated: 6 February 2022

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1

You, Jing-Song, Xiao-Qi Yu, Xiao-Yu Su, et al. "Hydrolytic metalloenzyme models." Journal of Molecular Catalysis A: Chemical 202, no. 1-2 (2003): 17–22. http://dx.doi.org/10.1016/s1381-1169(03)00199-7.

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Siregar, Adrian S., Marie Merci Nyiramana, Eun-Jin Kim, et al. "Dipeptide YA is Responsible for the Positive Effect of Oyster Hydrolysates on Alcohol Metabolism in Single Ethanol Binge Rodent Models." Marine Drugs 18, no. 10 (2020): 512. http://dx.doi.org/10.3390/md18100512.

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Accumulative alcohol hangovers cause liver damage through oxidative and inflammatory stress. Numerous antioxidant and anti-inflammatory reagents have been developed to reduce alcohol hangovers, but these reagents are still insignificant and have limitations in that they can cause liver toxicity. Oyster hydrolysate (OH), another reagent that has antioxidant and anti-inflammatory activity, is a product extracted through an enzymatic hydrolysis process from oysters (Crassostrea gigas), which can be easily eaten in meals. This study was aimed at determining the effects of OH on alcohol metabolism,

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Kubyshkin, Vladimir, and Nediljko Budisa. "Hydrolysis, polarity, and conformational impact of C-terminal partially fluorinated ethyl esters in peptide models." Beilstein Journal of Organic Chemistry 13 (November 16, 2017): 2442–57. http://dx.doi.org/10.3762/bjoc.13.241.

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Fluorinated moieties are highly valuable to chemists due to the sensitive NMR detectability of the 19F nucleus. Fluorination of molecular scaffolds can also selectively influence a molecule’s polarity, conformational preferences and chemical reactivity, properties that can be exploited for various chemical applications. A powerful route for incorporating fluorine atoms in biomolecules is last-stage fluorination of peptide scaffolds. One of these methods involves esterification of the C-terminus of peptides using a diazomethane species. Here, we provide an investigation of the physicochemical c

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Saki, Neslihan, and Engin U. Akkaya. "Bifunctional catalysis of ester hydrolysis: novel hydrolytic enzyme models based on xanthene framework." Journal of Molecular Catalysis A: Chemical 219, no. 2 (2004): 227–32. http://dx.doi.org/10.1016/j.molcata.2004.06.004.

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Plotnikov, Nikolay, Galina Plotnikova, and Natalia Vaynshtok. "Possibilities of using hydrolytic lignin in the production of wood-splicing materials." E3S Web of Conferences 244 (2021): 04006. http://dx.doi.org/10.1051/e3sconf/202124404006.

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The problem of improving the environmental safety of the waste management system of chemical processing of biomass of wood is quite acute in every forest producing and timber processing region. Study of the possibility of using to investigate hydrolytic lignin as a modifier of phenol-formaldehyde resin for the production of plywood have been conducted. Used materials: phenol-formaldehyde resin SFZh-3013; technical hydrolyzed lignin. Mathematical models of the process of pressing glued plywood were developed and the optimal parameters for the production of plywood were determined based on the u

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Silvestre, Marialice P. C., Wendel O. Afonso, Carlos O. Lopes Junior, Viviane D. M. Silva, Mariana W. S. Souza, and Mauro R. Silva. "Effect of Some Hydrolytic Parameters in the Action of Subtilisin and Pancreatin on Whey Protein Concentrate." International Journal of Food Engineering 9, no. 1 (2013): 55–66. http://dx.doi.org/10.1515/ijfe-2012-0158.

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AbstractIn this work, the influence of some reactional parameters in the hydrolysis of whey protein concentrate (WPC) was evaluated, in terms of the nutritional quality of peptide profiles of the hydrolysates as well as the reduction of costs for scaling-up the process. Two enzymes (subtilisin and pancreatin) were used for preparing 18 hydrolysates, using different E:S ratios and reaction times, and the distribution of peptides according to chain length was analyzed by size-exclusion chromatography. The studied parameters affected the peptide profiles of WPC hydrolysates and the best result wa

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Benedé, Sara, and Elena Molina. "Chicken Egg Proteins and Derived Peptides with Antioxidant Properties." Foods 9, no. 6 (2020): 735. http://dx.doi.org/10.3390/foods9060735.

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In addition to their high nutritional value, some chicken egg proteins and derivatives such as protein hydrolysates, peptides and amino acids show antioxidant properties which make them prominent candidates for the development of functional foods, drawing attention to both the food and biopharmaceutical industries. This review summarizes current knowledge on antioxidant activity of chicken egg proteins and their derived peptides. Some egg proteins such as ovalbumin, ovotransferrin and lysozyme from egg white or phosvitin from yolk have shown antioxidant properties, although derived peptides ha

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Savoie, L. "Digestion and absorption of food: usefulness and limitations of in vitro models." Canadian Journal of Physiology and Pharmacology 72, no. 4 (1994): 407–14. http://dx.doi.org/10.1139/y94-060.

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The digestion and absorption of food is a spatiotemporal and dynamic process involving complex enzymatic and transport reactions, and it is illusive to try to reproduce in a single model all these biochemical and physiological events. A more practical and realistic approach is to separately evaluate the specific contributions of oral and gastric digestion, intestinal digestion by pancreatic enzymes, brush-border hydrolysis, and eventually intestinal absorption and enterocyte metabolism. The models proposed must be versatile enough to be able to modify their conditions of operation according to

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Schütz, F., E. A. Kapp, R. J. Simpson, and T. P. Speed. "Deriving statistical models for predicting peptide tandem MS product ion intensities." Biochemical Society Transactions 31, no. 6 (2003): 1479–83. http://dx.doi.org/10.1042/bst0311479.

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Improved search algorithms and scoring functions are required before the identification of peptide tandem MS data can be considered to be fully reliable and automatable. The development of models that can accurately predict product ion spectra from a peptide sequence would certainly help achieve this goal, but this firstly requires a better understanding of the process of fragmentation of peptides in the gas-phase. We summarize recent developments in this area and show that the prediction of product ion spectra is feasible and should improve the identification of peptide tandem MS data, especi

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Wang, Q. P., A. J. Bennet, Robert Stanley Brown, and B. D. Santarsiero. "Distorted amides as models for activated peptide N-C(O) units. 3. Synthesis, hydrolytic profile, and molecular structure of 2,3,4,5-tetrahydro-2-oxo-1,5-propanobenzazepine." Journal of the American Chemical Society 113, no. 15 (1991): 5757–65. http://dx.doi.org/10.1021/ja00015a033.

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11

Cowan, Catherine M., David Shepherd, and Amritpal Mudher. "Insights from Drosophila models of Alzheimer's disease." Biochemical Society Transactions 38, no. 4 (2010): 988–92. http://dx.doi.org/10.1042/bst0380988.

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AD (Alzheimer's disease) is a neurodegenerative disorder characterized by the abnormal hyperphosphorylation and aggregation of the microtubule-associated protein tau and the misfolding and deposition of Aβ peptide. The mechanisms by which tau and Aβ become abnormal is not clearly understood, neither is it known what role either protein plays in the neurodegenerative process underlying AD. We have modelled aspects of AD in Drosophila melanogaster to shed light on these processes and to further our understanding of the relationship between tau and amyloid in this disease.

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Wang, Qingping, A. J. Bennet, R. S. Brown, and B. D. Santarsiero. "Distorted amides as models for activated peptide N-C=O units. 2. The synthesis, hydrolytic profile, and molecular structure of 3,4-dihydro-2-oxo-1,4-propanoquinoline." Canadian Journal of Chemistry 68, no. 10 (1990): 1732–39. http://dx.doi.org/10.1139/v90-269.

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A distorted anilide (3,4-dihydro-2-oxo-1,4-propanoquinoline (3)) has been synthesized, its structure determined by X-ray diffraction, and its hydrolysis profile from pH 0–13 investigated. The amide unit in 3 is distorted in that the N lone pair is twisted 35° and tilted 15° out of optimum conjugation with the C=O II system. Due to this distortion, 3 hydrolyses rapidly in H2O at 25 °C. The pH/rate constant profile exhibits domains consistent with OH− attack on 3[Formula: see text] and H2O attack on a protonated form of 3[Formula: see text]; pKa (3-H+) = 0.56). The kinetic pKa is most consistent

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González, Carol, Daniela González, Rommy N. Zúñiga, Humberto Estay, and Elizabeth Troncoso. "Simulation of Human Small Intestinal Digestion of Starch Using an In Vitro System Based on a Dialysis Membrane Process." Foods 9, no. 7 (2020): 913. http://dx.doi.org/10.3390/foods9070913.

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This work deepens our understanding of starch digestion and the consequent absorption of hydrolytic products generated in the human small intestine. Gelatinized starch dispersions were digested with α-amylase in an in vitro intestinal digestion system (i-IDS) based on a dialysis membrane process. This study innovates with respect to the existing literature, because it considers the impact of simultaneous digestion and absorption processes occurring during the intestinal digestion of starchy foods and adopts phenomenological models that deal in a more realistic manner with the behavior found in

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Kudryavtsev, Pavel. "Research and simulation of hydrated alumina homogeneous precipitation and its application to obtain a carrier for catalysts in the petrochemical industry." International Journal of Petrochemical Science & Engineering 4, no. 2 (2019): 72–79. http://dx.doi.org/10.15406/ipcse.2019.04.00106.

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The results of studies of the process of hydrated alumina homogeneous precipitation were presented in this work. The variants of this process are considered. The most convenient embodiment of this process is the precipitation of hydrated alumina from its salts with the use of auxiliary substances, such as urea. Urea hydrolysis allows a homogeneous precipitation process under the most mild conditions. It is shown that the process of hydrolytic precipitation in the aluminum salt-urea system proceeds according to the dissociative mechanism SN1. This article analyzes the regularities of precipitat

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Kudryavtsev, Pavel. "Research and simulation of hydrated alumina homogeneous precipitation and its application to obtain a carrier for catalysts in the petrochemical industry." International Journal of Petrochemical Science & Engineering 4, no. 2 (2019): 72–79. http://dx.doi.org/10.15406/ipcse.2019.04.00106.

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The results of studies of the process of hydrated alumina homogeneous precipitation were presented in this work. The variants of this process are considered. The most convenient embodiment of this process is the precipitation of hydrated alumina from its salts with the use of auxiliary substances, such as urea. Urea hydrolysis allows a homogeneous precipitation process under the most mild conditions. It is shown that the process of hydrolytic precipitation in the aluminum salt-urea system proceeds according to the dissociative mechanism SN1. This article analyzes the regularities of precipitat

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Balaji Raja, R., and Kantha D. Arunachalam. "Anti-genotoxic potential of casein phosphopeptides (CPPs): a class of fermented milk peptides against low background radiation and prevention of cancer in radiation workers." Toxicology and Industrial Health 27, no. 10 (2011): 867–72. http://dx.doi.org/10.1177/0748233711407244.

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Background: Radiation workers are constantly exposed to low background radiation which is their occupational hazard. This continuous and prolonged exposure produces genotoxicity and cancerous condition in many workers. The authors have tested casein phosphopeptides (CPP) as a radioprotectant against low background radiation using animal models. Methods: Fermented milk was produced by addition of a bacterial culture, Lactobacillus acidophilus to a commercially available milk brand. After the fermentation process is completed in the milk, CPP is isolated from fermented milk by enzymatic hydrolys

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Celińska, Ewelina, Jean-Marc Nicaud, and Wojciech Białas. "Hydrolytic secretome engineering in Yarrowia lipolytica for consolidated bioprocessing on polysaccharide resources: review on starch, cellulose, xylan, and inulin." Applied Microbiology and Biotechnology 105, no. 3 (2021): 975–89. http://dx.doi.org/10.1007/s00253-021-11097-1.

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Abstract Consolidated bioprocessing (CBP) featuring concomitant hydrolysis of renewable substrates and microbial conversion into value-added biomolecules is considered to bring substantial benefits to the overall process efficiency. The biggest challenge in developing an economically feasible CBP process is identification of bifunctional biocatalyst merging the ability to utilize the substrate and convert it to value-added product with high efficiency. Yarrowia lipolytica is known for its exceptional performance in hydrophobic substrates assimilation and storage. On the other hand, its capacit

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WANG, Q. P., A. J. BENNET, R. S. BROWN, and B. D. SANTARSIERO. "ChemInform Abstract: Distorted Amides as Models for Activated Peptide N-C(O) Units. Part 3. Synthesis, Hydrolytic Profile, and Molecular Structure of 2,3,4,5- Tetrahydro-2-oxo-1,5-propanobenzazepine." ChemInform 22, no. 42 (2010): no. http://dx.doi.org/10.1002/chin.199142232.

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Dahlmann, B., L. Kuehn, and H. Reinauer. "Studies on the activation by ATP of the 26 S proteasome complex from rat skeletal muscle." Biochemical Journal 309, no. 1 (1995): 195–202. http://dx.doi.org/10.1042/bj3090195.

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The 26 S proteasome complex is thought to catalyse the breakdown of ubiquitinated proteins within eukaryotic cells. In addition it has been found that the complex also degrades short-lived proteins such as ornithine decarboxylase in a ubiquitin-independent manner. Both proteolytic processes are paralleled by the hydrolysis of ATP. Here we show that ATP also affects the hydrolytic activity towards fluorigenic peptide substrates by the 26 S proteasome complex from rat skeletal muscle tissue. Low concentrations of ATP (about 25 microM) optimally activate the so-called chymotryptic and tryptic act

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Chen, Ko-Fan, and Damian C. Crowther. "Insights into amyloid disease from fly models." Essays in Biochemistry 56 (August 18, 2014): 69–83. http://dx.doi.org/10.1042/bse0560069.

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The formation of amyloid aggregates is a feature of most, if not all, polypeptide chains. In vivo modelling of this process has been undertaken in the fruitfly Drosophila melanogaster with remarkable success. Models of both neurological and systemic amyloid diseases have been generated and have informed our understanding of disease pathogenesis in two main ways. First, the toxic amyloid species have been at least partially characterized, for example in the case of the Aβ (amyloid β-peptide) associated with Alzheimer's disease. Secondly, the genetic underpinning of model disease-linked phenotyp

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WANG, Q., A. J. BENNET, R. S. BROWN, and B. D. SANTARSIERO. "ChemInform Abstract: Distorted Amides as Models for Activated Peptide N-C=O Units. Part 2. The Synthesis, Hydrolytic Profile, and Molecular Structure of 3,4- Dihydro-2-oxo-1,4-propanoquinoline." ChemInform 22, no. 17 (2010): no. http://dx.doi.org/10.1002/chin.199117151.

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22

Vázquez, José Antonio, Carmen G. Sotelo, Noelia Sanz, Ricardo I. Pérez-Martín, Isabel Rodríguez-Amado, and Jesus Valcarcel. "Valorization of Aquaculture By-Products of Salmonids to Produce Enzymatic Hydrolysates: Process Optimization, Chemical Characterization and Evaluation of Bioactives." Marine Drugs 17, no. 12 (2019): 676. http://dx.doi.org/10.3390/md17120676.

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In the present manuscript, various by-products (heads, trimmings, and frames) generated from salmonids (rainbow trout and salmon) processing were evaluated as substrates for the production of fish protein hydrolysates (FPHs), potentially adequate as protein ingredients of aquaculture feeds. Initially, enzymatic conditions of hydrolysis were optimized using second order rotatable designs and multivariable statistical analysis. The optimal conditions for the Alcalase hydrolysis of heads were 0.1% (v/w) of enzyme concentration, pH 8.27, 56.2°C, ratio (Solid:Liquid = 1:1), 3 h of hydrolysis, and a

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Christensen, Sarah L., Steffen Petersen, David Møbjerg Kristensen, Jes Olesen, and Gordon Munro. "Targeting CGRP via receptor antagonism and antibody neutralisation in two distinct rodent models of migraine-like pain." Cephalalgia 39, no. 14 (2019): 1827–37. http://dx.doi.org/10.1177/0333102419861726.

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Introduction Rodent disease models can play an indispensable role in drug development. Confirming that translationally-relevant disease mechanisms are engaged in such models is a crucial facet of this process. Accordingly, we have validated the role of calcitonin gene-related peptide signaling in a mouse model of glyceryl trinitrate-provoked migraine-like pain and a spontaneous rat model of migraine-like pain by assessing their pharmacological responsiveness to the small molecule calcitonin gene-related peptide receptor antagonist olcegepant, and the humanised monoclonal calcitonin gene-relate

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Sandomenico, Annamaria, Andrea Caporale, Nunzianna Doti, et al. "Synthetic Peptide Libraries: From Random Mixtures to In Vivo Testing." Current Medicinal Chemistry 27, no. 6 (2020): 997–1016. http://dx.doi.org/10.2174/0929867325666180716110833.

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Combinatorially generated molecular repertoires have been largely used to identify novel bioactive compounds. Ever more sophisticated technological solutions have been proposed to simplify and speed up such process, expanding the chemical diversity space and increasing the prospect to select new molecular entities with specific and potent activities against targets of therapeutic relevance. In this context, random mixtures of oligomeric peptides were originally used and since 25 years they represent a continuous source of bioactive molecules with potencies ranging from the sub-nM to microM con

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Flemer, Stevenson. "A Comprehensive One-Pot Synthesis of Protected Cysteine and Selenocysteine SPPS Derivatives." Protein & Peptide Letters 21, no. 12 (2014): 1257–64. http://dx.doi.org/10.2174/0929866521666140526094224.

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A proof-of-principle methodology is presented in which all commercially-available cysteine (Cys) and selenocysteine (Sec) solid phase peptide synthesis (SPPS) derivatives are synthesized in high yield from easily prepared protected dichalcogenide precursors. A Zn-mediated biphasic reduction process applied to a series of four bis-Nα-protected dichalcogenide compounds allows facile conversion to their corresponding thiol and selenol intermediates followed by insitu S- or Se-alkylation with various electrophiles to directly access twenty one known Cys and Sec SPPS derivatives. Most of these deri

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Li, Zhen-guo, and Anders A. F. Sima. "C-peptide and Central Nervous System Complications in Diabetes." Experimental Diabesity Research 5, no. 1 (2004): 79–90. http://dx.doi.org/10.1080/15438600490424550.

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Substantial evidence collected from clinical data and experimental studies has indicated that CNS is not spared from diabetes complications. Impairments in CNS function are well documented in both type 1 and type 2 diabetic patients as well as in various animal models of diabetes, in terms of alterations in cognition, neuropsychology, neurobehavior, electrophysiology, structure, neurochemistry and apoptotic activities. These data suggest thatprimary diabetic encephalopathyexists as a definable diabetic complication. The mechanisms underlying this CNS complication are not clear. Experimental st

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Wang, Haibin, Sudhansu K. Dey, and Mauro Maccarrone. "Jekyll and Hyde: Two Faces of Cannabinoid Signaling in Male and Female Fertility." Endocrine Reviews 27, no. 5 (2006): 427–48. http://dx.doi.org/10.1210/er.2006-0006.

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Mammalian reproduction is a complicated process designed to diversify and strengthen the genetic complement of the offspring and to safeguard regulatory systems at various steps for propagating procreation. An emerging concept in mammalian reproduction is the role of endocannabinoids, a group of endogenously produced lipid mediators, that bind to and activate cannabinoid receptors. Although adverse effects of cannabinoids on fertility have been implicated for years, the mechanisms by which they exert these effects were not clearly understood. With the identification of cannabinoid receptors, e

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Pastagia, Mina, Raymond Schuch, Vincent A. Fischetti, and David B. Huang. "Lysins: the arrival of pathogen-directed anti-infectives." Journal of Medical Microbiology 62, no. 10 (2013): 1506–16. http://dx.doi.org/10.1099/jmm.0.061028-0.

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Lysins represent a novel class of anti-infectives derived from bacteriophage. Lysins are bacterial cell-wall hydrolytic enzymes that selectively and rapidly kill (≥3 log c.f.u. in 30 min) specific Gram-positive bacteria providing a targeted therapeutic approach with minimal impact on unrelated commensal flora. The potential for bacterial resistance to lysins is considered low due to targeting of highly conserved peptidoglycan components. Through cutting-edge genetic engineering, lysins can be assembled into large libraries of anti-infective agents tailored to any bacterium of interest includin

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Joo, Johan, Christopher Poon, Sang Yoo, and Eun Chung. "Shape Effects of Peptide Amphiphile Micelles for Targeting Monocytes." Molecules 23, no. 11 (2018): 2786. http://dx.doi.org/10.3390/molecules23112786.

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Peptide amphiphile micelles (PAMs) are a nanoparticle platform that have gained popularity for their targeting versatility in a wide range of disease models. An important aspect of micelle design is considering the type of hydrophobic moiety used to synthesize the PAM, which can act as a contributing factor regarding their morphology and targeting capabilities. To delineate and compare the characteristics of spherical and cylindrical micelles, we incorporated the monocyte-targeting chemokine, monocyte chemoattractant protein-1 (MCP-1), into our micelles (MCP-1 PAMs). We report that both shapes

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Fan, Yu, Xiang-Dan Li, Ping-Ping He, et al. "A biomimetic peptide recognizes and traps bacteria in vivo as human defensin-6." Science Advances 6, no. 19 (2020): eaaz4767. http://dx.doi.org/10.1126/sciadv.aaz4767.

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Using broad-spectrum antibiotics for microbial infection may cause flora disequilibrium, drug-resistance, etc., seriously threatening human health. Here, we design a human defensin-6 mimic peptide (HDMP) that inhibits bacterial invasion in vivo through mimicking the mechanisms of human defensin-6 with high efficiency and precision. The HDMP with ligand and self-assembling peptide sequence recognizes bacteria through ligand-receptor interactions and subsequently traps bacteria by an in situ adaptive self-assembly process and resulting nanofibrous networks; these trapped bacteria are unable to i

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Abhyankar, Suhas Vidyadhar, Arvind Madhusudan Vartak, and Gautam Vinod Daftary. "Potential role of systemic enzyme therapy with trypsin, bromelain and rutoside combination in burns." International Surgery Journal 8, no. 7 (2021): 2254. http://dx.doi.org/10.18203/2349-2902.isj20212752.

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Burns is a global public health problem, with a higher prevalence rate in the Southeast Asia region, including India. The therapeutic interventions mainly target the control of complications following burn injury and assisting in physiological recovery. However, the excessive inflammatory changes and loss of immunological integrity, seen in burns patients, interfere with the healing process. An orally applied formulation composed of hydrolytic enzymes (bromelain, trypsin) and the flavonoid rutoside has a long history of use as natural anti-inflammatory agents. This combination has been found t

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Kaavessina, Mujtahid, Sperisa Distantina, and Esa Nur Shohih. "A Slow-Release Fertilizer of Urea Prepared via Melt Blending with Degradable Poly(lactic acid): Formulation and Release Mechanisms." Polymers 13, no. 11 (2021): 1856. http://dx.doi.org/10.3390/polym13111856.

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In this research, a low molecular weight poly(lactic acid) (or PLA) synthesized from direct polycondensation was melt compounded with urea to formulate slow-release fertilizer (SRF). We studied the influence of the molecular weight (MW) of PLA as a matrix and the urea composition of SRF towards release kinetics in water at 30 °C. The physical appearance of solid samples, the change in urea concentration, and acidity (pH) of water were monitored periodically during the release test. Three studied empirical models exhibited that diffusion within the matrix dominated the urea release process, esp

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Ketova, Yu, B. Bai, G. Khizhnyak, Ye Gladkikh, and S. Galkin. "Testing of preformed particles polymer gel technology on core filtration models to limit water inflows." Journal of Mining Institute 241 (February 25, 2020): 91. http://dx.doi.org/10.31897/pmi.2020.1.91.

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In order to reduce watering of wells and equalize their injectivity profiles, the prospects of introducing PPG technology in Russian fields are considered, in which preformed particles polymer gel are pumped into the injection well. These particles, being a supersorbent based on polyacrylamide, absorb water, become elastic, which allows them to shrink and tear in narrow filtration channels. When the polymer is filtered along permeable layers saturated with water, polymer particles accumulate in waterlogged intervals and thus they form a polymer plug, which redistributes the filtration flows an

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Arafat, Md Easin, Md Wakil Ahmad, S. M. Shovan, et al. "Accurately Predicting Glutarylation Sites Using Sequential Bi-Peptide-Based Evolutionary Features." Genes 11, no. 9 (2020): 1023. http://dx.doi.org/10.3390/genes11091023.

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Post Translational Modification (PTM) is defined as the alteration of protein sequence upon interaction with different macromolecules after the translation process. Glutarylation is considered one of the most important PTMs, which is associated with a wide range of cellular functioning, including metabolism, translation, and specified separate subcellular localizations. During the past few years, a wide range of computational approaches has been proposed to predict Glutarylation sites. However, despite all the efforts that have been made so far, the prediction performance of the Glutarylation

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Ciemny, Maciej, Aleksandra Badaczewska-Dawid, Monika Pikuzinska, Andrzej Kolinski, and Sebastian Kmiecik. "Modeling of Disordered Protein Structures Using Monte Carlo Simulations and Knowledge-Based Statistical Force Fields." International Journal of Molecular Sciences 20, no. 3 (2019): 606. http://dx.doi.org/10.3390/ijms20030606.

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The description of protein disordered states is important for understanding protein folding mechanisms and their functions. In this short review, we briefly describe a simulation approach to modeling protein interactions, which involve disordered peptide partners or intrinsically disordered protein regions, and unfolded states of globular proteins. It is based on the CABS coarse-grained protein model that uses a Monte Carlo (MC) sampling scheme and a knowledge-based statistical force field. We review several case studies showing that description of protein disordered states resulting from CABS

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Fan, Shaohua, Qianfeng Xiong, Xin Zhang, Lihui Zhang, and Yawei Shi. "Glucagon-like peptide 1 reverses myocardial hypertrophy through cAMP/PKA/RhoA/ROCK2 signaling." Acta Biochimica et Biophysica Sinica 52, no. 6 (2020): 612–19. http://dx.doi.org/10.1093/abbs/gmaa038.

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Abstract Myocardial hypertrophy is a major pathological and physiological process during heart failure. Glucagon-like peptide 1 (GLP-1) is a glucagon incretin hormone released from the gut endocrine L-cells that has protective effects on various cardiovascular diseases, including hypertension, atherosclerosis, and myocardial hypertrophy. However, the protective mechanisms of GLP-1 in myocardial hypertrophy remain unclear. Here, we showed that the GLP-1 agonist liraglutide and dipeptidyl peptidase 4 inhibitor alogliptin decreased heart weight and cardiac muscle cell volume in spontaneously hype

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McDermott, Jason E., John R. Cort, Ernesto S. Nakayasu, Jonathan N. Pruneda, Christopher Overall, and Joshua N. Adkins. "Prediction of bacterial E3 ubiquitin ligase effectors using reduced amino acid peptide fingerprinting." PeerJ 7 (June 7, 2019): e7055. http://dx.doi.org/10.7717/peerj.7055.

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Background Although pathogenic Gram-negative bacteria lack their own ubiquitination machinery, they have evolved or acquired virulence effectors that can manipulate the host ubiquitination process through structural and/or functional mimicry of host machinery. Many such effectors have been identified in a wide variety of bacterial pathogens that share little sequence similarity amongst themselves or with eukaryotic ubiquitin E3 ligases. Methods To allow identification of novel bacterial E3 ubiquitin ligase effectors from protein sequences we have developed a machine learning approach, the SVM-

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Burrin, Douglas, Per Torp Sangild, Barbara Stoll, et al. "Translational Advances in Pediatric Nutrition and Gastroenterology: New Insights from Pig Models." Annual Review of Animal Biosciences 8, no. 1 (2020): 321–54. http://dx.doi.org/10.1146/annurev-animal-020518-115142.

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Pigs are increasingly important animals for modeling human pediatric nutrition and gastroenterology and complementing mechanistic studies in rodents. The comparative advantages in size and physiology of the neonatal pig have led to new translational and clinically relevant models of important diseases of the gastrointestinal tract and liver in premature infants. Studies in pigs have established the essential roles of prematurity, microbial colonization, and enteral nutrition in the pathogenesis of necrotizing enterocolitis. Studies in neonatal pigs have demonstrated the intestinal trophic effe

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Capucciati, Andrea, Fabio A. Zucca, Enrico Monzani, Luigi Zecca, Luigi Casella, and Tim Hofer. "Interaction of Neuromelanin with Xenobiotics and Consequences for Neurodegeneration; Promising Experimental Models." Antioxidants 10, no. 6 (2021): 824. http://dx.doi.org/10.3390/antiox10060824.

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Neuromelanin (NM) accumulates in catecholamine long-lived brain neurons that are lost in neurodegenerative diseases. NM is a complex substance made of melanic, peptide and lipid components. NM formation is a natural protective process since toxic endogenous metabolites are removed during its formation and as it binds excess metals and xenobiotics. However, disturbances of NM synthesis and function could be toxic. Here, we review recent knowledge on NM formation, toxic mechanisms involving NM, go over NM binding substances and suggest experimental models that can help identifying xenobiotic mod

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Kolesnikov, A. V., and I. V. Tsyganova. "Investigation of flocculant influence on the kinetic parameters of copper recovery in aqueous solution with metal zinc." Izvestiya Vuzov Tsvetnaya Metallurgiya (Proceedings of Higher Schools Nonferrous Metallurgy, no. 3 (June 19, 2019): 4–11. http://dx.doi.org/10.17073/0021-3438-2019-3-4-11.

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We studied a number of models for the description of copper reduction by fine zinc powder in aqueous solutions. The experimentswere carried out in devices with a magnetic stirrer at mixing speeds of 40–150 rpm and temperatures of 15–50 °C. We investigated the influence exerted on the process by macromolecular flocculants such as non-ionic magnafloc 333, cationic besflok 6645 and anionic besfloc 4034. Under industrial conditions, these flocculants are used at the hydrolytic solution purification stage and then they are fed to cementing purification together with the clarified solution. Aqueous

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Zhang, Yixiang, Masahiko Miyauchi, and Steven Nutt. "Moisture absorption and hydrothermal aging of phenylethynyl-terminated pyromellitic dianhydride-type asymmetric polyimide and composites." High Performance Polymers 31, no. 9-10 (2018): 1020–29. http://dx.doi.org/10.1177/0954008318816754.

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The effects of moisture on a polymerized monomeric reactant (PMR)-type polyimide (TriA X) and associated composites were investigated. Water uptake tests were performed on the polyimide at various temperatures and relative humidity levels to investigate moisture absorption behavior. Two-stage moisture absorption was observed, in which the first stage was diffusion controlled, whereas the second stage was moisture plasticization controlled. As exposure temperature increased, the equilibrium moisture content of the polyimide decreased, indicating an exothermic absorption process. The Arrhenius t

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Gavins, F. N. E., G. Leoni, and S. J. Getting. "Annexin 1 and Melanocortin Peptide Therapy for Protection Against Ischaemic-Reperfusion Damage in the Heart." Scientific World JOURNAL 6 (2006): 1008–23. http://dx.doi.org/10.1100/tsw.2006.196.

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Cardiovascular disease is a major cause of mortality within the western world affecting 2.7 million British people. This review highlights the beneficial effects of naturally occurring hormones and their peptides, in myocardial ischaemic-injury (MI) models, a disease pathology in which cytokines and neutrophils play a causal role. Here we discuss two distinct classes of endogenous peptides: the steroid inducible annexin 1 and the melanocortin peptides. Annexin 1 and the melanocortins counteract the most important part of the host inflammatory response, namely, the process of leukocyte extravas

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González-Díaz, Humberto, Lázaro G. Pérez-Montoto, and Florencio M. Ubeira. "Model for Vaccine Design by Prediction of B-Epitopes of IEDB Given Perturbations in Peptide Sequence, In Vivo Process, Experimental Techniques, and Source or Host Organisms." Journal of Immunology Research 2014 (2014): 1–15. http://dx.doi.org/10.1155/2014/768515.

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Perturbation methods add variation terms to a known experimental solution of one problem to approach a solution for a related problem without known exact solution. One problem of this type in immunology is the prediction of the possible action of epitope of one peptide after a perturbation or variation in the structure of a known peptide and/or other boundary conditions (host organism, biological process, and experimental assay). However, to the best of our knowledge, there are no reports of general-purpose perturbation models to solve this problem. In a recent work, we introduced a new quanti

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Firbank, S. J., M. Rogers, R. Hurtado-Guerrero, et al. "Cofactor processing in galactose oxidase." Biochemical Society Transactions 31, no. 3 (2003): 506–9. http://dx.doi.org/10.1042/bst0310506.

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Galactose oxidase (GO; EC 1.1.3.9) is a monomeric 68 kDa enzyme that contains a single copper and an amino acid-derived cofactor. The mechanism of this radical enzyme has been widely studied by structural, spectroscopic, kinetic and mutational approaches and there is a reasonable understanding of the catalytic mechanism and activation by oxidation to generate the radical cofactor that resides on Tyr-272, one of the copper ligands. Biogenesis of this cofactor involves the post-translational, autocatalytic formation of a thioether cross-link between the active-site residues Cys-228 and Tyr-272.

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Liñares-Blanco, Jose, and Carlos Fernandez-Lozano. "Prediction of Peptide Vascularization Inhibitory Activity in Tumor Tissue as a Possible Target for Cancer Treatment." Proceedings 21, no. 1 (2019): 15. http://dx.doi.org/10.3390/proceedings2019021015.

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The prediction of metabolic activities in silico form is crucial to be able to address all research possibilities without exceeding the experimental costs. In particular, for cancer research, the prediction of certain activities can be of great help in the discovery of different treatments. In this work it has been proposed to predict, through Machine Learning, the anti-angiogenic activity of peptides is currently being used in cancer treatment and is giving hopeful results. From a list of peptide sequences, three types of molecular descriptors were obtained (AAC, DC and TC) that offered the p

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Verde, Valeria, Anna Longo, Lorena Maria Cucci, et al. "Anti-Angiogenic and Anti-Proliferative Graphene Oxide Nanosheets for Tumor Cell Therapy." International Journal of Molecular Sciences 21, no. 15 (2020): 5571. http://dx.doi.org/10.3390/ijms21155571.

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Graphene oxide (GO) is a bidimensional novel material that exhibits high biocompatibility and angiogenic properties, mostly related to the intracellular formation of reactive oxygen species (ROS). In this work, we set up an experimental methodology for the fabrication of GO@peptide hybrids by the immobilization, via irreversible physical adsorption, of the Ac-(GHHPH)4-NH2 peptide sequence, known to mimic the anti-angiogenic domain of the histidine-proline-rich glycoprotein (HPRG). The anti-proliferative capability of the graphene-peptide hybrids were tested in vitro by viability assays on pros

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Dvorak, AM, DW Jr MacGlashan, ES Morgan, and LM Lichtenstein. "Vesicular transport of histamine in stimulated human basophils." Blood 88, no. 11 (1996): 4090–101. http://dx.doi.org/10.1182/blood.v88.11.4090.4090.

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Abstract Human basophils participating in experimentally produced contact allergy display progressive secretion of electron-dense secretory granule contents and retention of cytoplasmic granule containers in the absence of entire granule extrusion, a process termed piecemeal degranulation (PMD) and postulated to be effected by vesicular transport (Dvorak HF, Dvorak AM: Clin Hematol 4:651, 1975). Proof of this hypothesis was sought using models of human basophil-stimulated secretion, partially purified human peripheral blood basophils, and a morphometric analysis of the fraction of total cellul

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Dvorak, AM, DW Jr MacGlashan, ES Morgan, and LM Lichtenstein. "Vesicular transport of histamine in stimulated human basophils." Blood 88, no. 11 (1996): 4090–101. http://dx.doi.org/10.1182/blood.v88.11.4090.bloodjournal88114090.

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Human basophils participating in experimentally produced contact allergy display progressive secretion of electron-dense secretory granule contents and retention of cytoplasmic granule containers in the absence of entire granule extrusion, a process termed piecemeal degranulation (PMD) and postulated to be effected by vesicular transport (Dvorak HF, Dvorak AM: Clin Hematol 4:651, 1975). Proof of this hypothesis was sought using models of human basophil-stimulated secretion, partially purified human peripheral blood basophils, and a morphometric analysis of the fraction of total cellular cytopl

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Yu, Jin, Hong Zhu, Saeid Taheri, et al. "Effects of GrandFusion Diet on Cognitive Impairment in Transgenic Mouse Model of Alzheimer’s Disease." Nutrients 13, no. 1 (2020): 117. http://dx.doi.org/10.3390/nu13010117.

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Alzheimer’s disease (AD) is the result of the deposition of amyloid β (Aβ) peptide into amyloid fibrils and tau into neurofibrillary tangles. At the present time, there are no possible treatments for the disease. We have recently shown that diets enriched in phytonutrients show protection or limit the extent of damage in a number of neurological disorders. GrandFusion (GF) diets have attenuated the outcomes in animal models of traumatic brain injury, cerebral ischemia, and chronic traumatic encephalopathy. In this study, we investigated the effect of GF diets in a mouse model of AD prior to th

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Znalesniak, Eva B., Ting Fu, Karina Guttek, Ulrike Händel, Dirk Reinhold, and Werner Hoffmann. "Increased Cerebral Tff1 Expression in Two Murine Models of Neuroinflammation." Cellular Physiology and Biochemistry 39, no. 6 (2016): 2287–96. http://dx.doi.org/10.1159/000447921.

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Background/Aims: The trefoil factor family (TFF) peptide TFF1 is a typical secretory product of the gastric mucosa and a very low level of expression occurs in nearly all regions of the murine brain. TFF1 possesses a lectin activity and binding to a plethora of transmembrane glycoproteins could explain the diverse biological effects of TFF1 (e.g., anti-apoptotic effect). It was the aim to test whether TFF expression is changed during neuroinflammation. Methods: Expression profiling was performed using semi-quantitative RT-PCR analyses in two murine models of neuroinflammation, i.e. Toxoplasma

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