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Journal articles on the topic 'Peptides – Analysis'

Author: Grafiati

Published: 4 June 2021

Last updated: 6 September 2023

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1

Ito, Toshihiko, Yuki Taguchi, Haruka Oue, et al. "Formation of taste-active pyroglutamyl peptide ethyl esters in sake by rice koji peptidases." Bioscience, Biotechnology, and Biochemistry 85, no. 6 (2021): 1476–84. http://dx.doi.org/10.1093/bbb/zbab041.

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ABSTRACT Formation of taste-active pyroglutamyl (pGlu) peptide ethyl esters in sake was investigated: 2 enzymes (A and B) responsible for the esterification were purified from a rice koji extract. MADLI-TOF/TOF analysis after deglycosylation identified enzyme (A) as peptidase S28 (GenBank accession number OOO13707.1) and enzyme (B) as serine-type carboxypeptidase (accession number AO090010000534). Both enzymes hydrolyzed pGlu peptides and formed ethyl esters under sake mash conditions: acidic pH (3-4) and in ethanol (5%-20% v/v) aqueous solutions. Enzyme (A) formed pGlu penta-peptide ethyl est

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2

Tani, Naoki, Kohei Kazuma, Yukio Ohtsuka, et al. "Mass Spectrometry Analysis and Biological Characterization of the Predatory Ant Odontomachus monticola Venom and Venom Sac Components." Toxins 11, no. 1 (2019): 50. http://dx.doi.org/10.3390/toxins11010050.

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We previously identified 92 toxin-like peptides and proteins, including pilosulin-like peptides 1–6 from the predatory ant Odontomachus monticola, by transcriptome analysis. Here, to further characterize venom components, we analyzed the venom and venom sac extract by ESI-MS/MS with or without trypsin digestion and reducing agent. As the low-molecular-mass components, we found amino acids (leucine/isoleucine, phenylalanine, and tryptophan) and biogenic amines (histamine and tyramine) in the venom and venom sac extract. As the higher molecular mass components, we found peptides and proteins suc

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3

Sharmin, K. N., M. A. Amiza, F. Ahmad, S. A. Razali, and F. Hashim. "In silico analysis of Gracilaria changii proteins for potential bioactive peptides." IOP Conference Series: Earth and Environmental Science 967, no. 1 (2022): 012017. http://dx.doi.org/10.1088/1755-1315/967/1/012017.

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Abstract Gracilaria changii is a red seaweed species in Malaysia with high protein content (12.57% (dry basis)). Thus, G. changii proteins are potential precursors for producing bioactive peptides. To date, no study has been reported on the potential of G. changii proteins as potential precursors for bioactive peptides. In this study, fourteen G. changii proteins were selected as potential precursors of bioactive peptides using in silico approach. It was found that the most potential bioactivity was dipeptidyl peptidase-IV (DPP IV) inhibitory and angiotensin-I converting enzyme (ACE) inhibitor

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4

Zhang, Li, Xuejun Wang, Mengwen Feng, et al. "Peptidomics Analysis Reveals Peptide PDCryab1 Inhibits Doxorubicin-Induced Cardiotoxicity." Oxidative Medicine and Cellular Longevity 2020 (October 13, 2020): 1–23. http://dx.doi.org/10.1155/2020/7182428.

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Doxorubicin (DOX) is limited due to dose-dependent cardiotoxicity. Peptidomics is an emerging field of proteomics that has attracted much attention because it can be used to study the composition and content of endogenous peptides in various organisms. Endogenous peptides participate in various biological processes and are important sources of candidates for drug development. To explore peptide changes related to DOX-induced cardiotoxicity and to find peptides with cardioprotective function, we compared the expression profiles of peptides in the hearts of DOX-treated and control mice by mass s

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5

Nong, Nhung Thi Phuong, Christoper Caesar Yudho Sutopo, Wei-Ting Hung, Ping-Hsun Wu, and Jue-Liang Hsu. "The Molecular Docking and Inhibition Kinetics of Angiotensin I-Converting Enzyme Inhibitory Peptides Derived from Soft-Shelled Turtle Yolk." Applied Sciences 12, no. 23 (2022): 12340. http://dx.doi.org/10.3390/app122312340.

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The soft-shelled turtle yolk (SSTY) protein hydrolysate contains a potential source of bioactive peptides. Our previous study found that five SSTY peptides (WLQL, LPSW, LPLF, VPGLAL and LVGLPL) showed moderate to high dipeptidyl peptidase IV (DPP-IV) inhibitory activities. This study further investigated their angiotensin-I-converting enzyme (ACE) inhibitory activity. Consequently, WLQL was identified as the most potent ACE inhibitory peptide with a remarkably low IC50 value (16.87 ± 0.54 µM). The Lineweaver–Burk plot analysis was performed for the characterization of the peptide’s inhibition

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6

Uttam, Tanishka. "Computational Analysis Comparison Prediction of Anticancer Peptide (ACP)." International Journal for Research in Applied Science and Engineering Technology 10, no. 6 (2022): 3316–19. http://dx.doi.org/10.22214/ijraset.2022.44641.

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Abstract: Anticancer peptides (ACPs) contain short peptides composed of 10–60 amino acids that can inhibit tumors cell proliferation or migration, or suppress the formation of tumors blood vessels, and are less likely to cause drug resistance. The aforementioned merits make ACPs the most promising anti-cancer candidate. ACPs may be degraded by proteases and result in cytotoxicity in many cases. To overcome these drawbacks, a plethora of research has focused on the reconstruction or modification of ACPs to improve their anti-cancer activity, while reducing their cytotoxicity. ACPs modification

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7

Kawada, Tsuyoshi, Michio Ogasawara, Toshio Sekiguchi, et al. "Peptidomic Analysis of the Central Nervous System of the Protochordate, Ciona intestinalis: Homologs and Prototypes of Vertebrate Peptides and Novel Peptides." Endocrinology 152, no. 6 (2011): 2416–27. http://dx.doi.org/10.1210/en.2010-1348.

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The phylogenetic position of ascidians as the chordate invertebrates closest to vertebrates suggests that they might possess homologs and/or prototypes of vertebrate peptide hormones and neuropeptides as well as ascidian-specific peptides. However, only a small number of peptides have so far been identified in ascidians. In the present study, we have identified various peptides in the ascidian, Ciona intestinalis. Mass spectrometry-based peptidomic analysis detected 33 peptides, including 26 novel peptides, from C. intestinalis. The ascidian peptides are largely classified into three categorie

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8

Gaseitsiwe, Simani, Davide Valentini, Raija Ahmed, et al. "Major Histocompatibility Complex Class II Molecule-Human Immunodeficiency Virus Peptide Analysis Using a Microarray Chip." Clinical and Vaccine Immunology 16, no. 4 (2009): 567–73. http://dx.doi.org/10.1128/cvi.00441-08.

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ABSTRACT Identification of major histocompatibility complex (MHC) class II binding peptides is a crucial step in rational vaccine design and immune monitoring. We designed a novel MHC class II molecule-peptide microarray binding assay and evaluated 346 peptides from already identified human immunodeficiency virus (HIV) epitopes and an additional set (n = 206) of 20-mer peptides, overlapping by 15 amino acid residues, from HIV type 1B (HIV-1B) gp160 and Nef as a paradigm. Peptides were attached via the N-terminal part to a linker that covalently binds to the epoxy glass slide. The 552 peptides

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9

Syvitski, Raymond T., Xiao-Lin Tian, Kamal Sampara, et al. "Structure-Activity Analysis of Quorum-Sensing Signaling Peptides from Streptococcus mutans." Journal of Bacteriology 189, no. 4 (2006): 1441–50. http://dx.doi.org/10.1128/jb.00832-06.

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ABSTRACT Streptococcus mutans secretes and utilizes a 21-amino-acid signaling peptide pheromone to initiate quorum sensing for genetic competence, biofilm formation, stress responses, and bacteriocin production. In this study, we designed and synthesized a series of truncated peptides and peptides with amino acid substitutions to investigate their structure-activity relationships based on the three-dimensional structures of S. mutans wild-type signaling peptide UA159sp and C-terminally truncated peptide TPC3 from mutant JH1005 defective in genetic competence. By analyzing these peptides, we de

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10

Hayes, Maria, Leticia Mora, and Simona Lucakova. "Identification of Bioactive Peptides from Nannochloropsis oculata Using a Combination of Enzymatic Treatment, in Silico Analysis and Chemical Synthesis." Biomolecules 12, no. 12 (2022): 1806. http://dx.doi.org/10.3390/biom12121806.

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In vitro ACE-1 inhibitory peptides were characterised previously from a number of microalgal species including Spirulina platensis (peptide IAPG), Chlorella vulgaris (peptides FDL, AFL, VVPPA), Isochrysis galbana (peptide YMGLDLK), Chlorella sorokiniana (peptides IW and LW) and indeed Nannochloropsis oculata (peptides GMNNLTP and LEQ). The isolation of protein from Nannochloropsis oculata using a combination of ammonium salt precipitation and xylanase treatment of resulting biomass combined with molecular weight cut off filtration to produce a permeate and characterisation of bioactive peptide

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11

Bracci, Laura, David F. Stroncek, Stefanie Slezak, Giulio C. Spagnoli, and Maurizio Provenzano. "Comprehensive Analysis of CD8 T Cell Immune Response Specific for Two Novel HLA-A*0201 Restriced CMV pp65 Peptides." Blood 106, no. 11 (2005): 3928. http://dx.doi.org/10.1182/blood.v106.11.3928.3928.

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Abstract In immune compromised subjects such as patients undergoing bone marrow, organ transplantation or immunosuppressive therapies, Cytomegalovirus (CMV) infection is associated with significant morbidity until the individual’s immune system is completely reconstituted. One method of preventing CMV infection during immune suppression in transplant patients is represented by adoptive administration of CMV peptide-specific cytotoxic T lymphocytes (CTLs) from HLA-matched donors. Despite the strong immunogenicity demonstrated by specific HLA class I peptides, the peptide’s responsiveness varies

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12

Lichti, Cheryl, Anthony N. Vomund, Orion J. Peterson, Xiaoxiao Wan, and Emil R. Unanue. "Analysis of the nonobese diabetic mouse islet MHC-II peptidome reveals posttranslationally modified autoantigens." Journal of Immunology 204, no. 1_Supplement (2020): 142.12. http://dx.doi.org/10.4049/jimmunol.204.supp.142.12.

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Abstract Autoimmune diabetes results from the destruction of insulin-producing beta cells, a process initiated by CD4 T cells recognizing MHC-II bound beta cell-derived peptides. We identified MHC-II bound peptides in the islets and throughout the peripheral lymphatic system in order to better understand diabetes initiation and progression. Toward this end, we performed unbiased nanoflow liquid chromatography-tandem mass spectrometry (nLC-MS/MS) analysis to obtain sequence information for MHC-II peptides isolated from islets, pancreatic lymph nodes and spleens of nonobese diabetic (NOD) mice.

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13

Yates, John R., Edwin Carmack, Lara Hays, and Jimmy Eng. "High Throughput Analysis of Tandem Mass Spectrometry Data for Peptides." Laboratory Automation News 2, no. 2 (1997): 28–31. http://dx.doi.org/10.1177/221106829700200206.

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In recent years tandem mass spectrometry has made a substantial impact on the sequence analysis of peptides ( 1 ). In this process peptide ions are dissociated in a collision cell to produce a collection of fragment ions. The m/z values of the fragment ions are determined in the second mass analyzer. Fortuitously, peptide ions fragment primarily around the amide linkages or peptide bonds in a manner that produces a ladder of sequence ions. This method of analysis for peptides has several advantages; high throughput and sensitivity, the ability to analyze peptides contained in mixtures, and las

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14

Kraszewska, Joanna, Michael C. Beckett, Tharappel C. James, and Ursula Bond. "Comparative Analysis of the Antimicrobial Activities of Plant Defensin-Like and Ultrashort Peptides against Food-Spoiling Bacteria." Applied and Environmental Microbiology 82, no. 14 (2016): 4288–98. http://dx.doi.org/10.1128/aem.00558-16.

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ABSTRACTAntimicrobial peptides offer potential as novel therapeutics to combat food spoilage and poisoning caused by pathogenic and nonpathogenic bacteria. Our previous studies identified the peptide human beta-defensin 3 (HBD3) as a potent antimicrobial agent against a wide range of beer-spoiling bacteria. Thus, HBD3 is an excellent candidate for development as an additive to prevent food and beverage spoilage. To expand the repertoire of peptides with antimicrobial activity against bacteria associated with food spoilage and/or food poisoning, we carried out anin silicodiscovery pipeline to i

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15

Burkitt, William I., Anastassios E. Giannakopulos, Foteini Sideridou, Sajid Bashir, and Peter J. Derrick. "Discrimination Effects in MALDI-MS of Mixtures of Peptides—Analysis of the Proteome." Australian Journal of Chemistry 56, no. 5 (2003): 369. http://dx.doi.org/10.1071/ch02155.

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Peptide ion suppression in matrix-assisted laser desorption/ionization mass spectrometry (MALDI-MS) can hinder the detection of site-specific post-translational protein modifications. Within a peptide mixture, the presence or absence of a particular peptide can affect the ion intensities of other peptides in the mixture. These effects have been studied using equimolar solutions of target peptides and observation of the increase or decrease in ion intensity of the peptides upon the removal or addition of individual peptides. Gas-phase basicities and hydrophobicity measures have been used to rat

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16

Momburg, F., J. Roelse, G. J. Hämmerling, and J. J. Neefjes. "Peptide size selection by the major histocompatibility complex-encoded peptide transporter." Journal of Experimental Medicine 179, no. 5 (1994): 1613–23. http://dx.doi.org/10.1084/jem.179.5.1613.

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The major histocompatibility complex (MHC)-encoded heterodimeric TAP1/TAP2 transporter (TAP) translocates cytosolic peptides into the lumen of the endoplasmic reticulum (ER), where peptides of 8 to 11 amino acids long associate with MHC class I molecules. We have studied the selectivity of peptide translocation by TAP in streptolysin O-permeabilized cells using glycosylatable, radioiodinated model peptides to detect import into the ER lumen. TAP-dependent translocation of a radiolabeled nonamer peptide was most efficiently inhibited by unlabeled 9- to 11-mer peptides. Peptides between 7 and 40

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17

Liu, Xiaoguang, Xia Ning, Yan Zhang, Wenfeng Chen, Zhangwu Zhao, and Qingwen Zhang. "Peptidomic Analysis of the Brain and Corpora Cardiaca-Corpora Allata Complex in the Bombyx mori." International Journal of Peptides 2012 (December 17, 2012): 1–11. http://dx.doi.org/10.1155/2012/640359.

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The silkworm, Bombyx mori, is an important economic insect for silk production. However, many of the mature peptides relevant to its various life stages remain unknown. Using RP-HPLC, MALDI-TOF MS, and previously identified peptides from B. mori and other insects in the transcriptome database, we created peptide profiles showing a total of 6 ion masses that could be assigned to peptides in eggs, including one previously unidentified peptide. A further 49 peptides were assigned to larval brains. 17 new mature peptides were identified in isolated masses. 39 peptides were found in pupal brains wi

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18

Skerlavaj, Barbara, Marco Scocchi, Renato Gennaro, Angela Risso, and Margherita Zanetti. "Structural and Functional Analysis of Horse Cathelicidin Peptides." Antimicrobial Agents and Chemotherapy 45, no. 3 (2001): 715–22. http://dx.doi.org/10.1128/aac.45.3.715-722.2001.

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ABSTRACT Cathelicidin-derived antimicrobial peptides are a component of the peptide-based host defense of neutrophils and epithelia, with a widespread distribution in mammals. We recently reported the cDNA sequences of three putative horse myeloid cathelicidins, named eCATH-1, -2, and -3. A Western analysis was performed to investigate their presence in neutrophils and processing to mature peptides. eCATH-2 and eCATH-3, but not eCATH-1, were found to be present in uncleaved forms in horse neutrophils. The corresponding mature peptides were detected in inflammatory sites, suggesting that proces

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19

Delgado, Julio, Hernando Escobar, David Crockett, Eduardo Reyes-Vargas, and Peter Jensen. "Analysis of the performance of peptide predicting methods using MHC class I peptide sequencing in the C57BL/6 mouse (78.11)." Journal of Immunology 182, no. 1_Supplement (2009): 78.11. http://dx.doi.org/10.4049/jimmunol.182.supp.78.11.

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Abstract MHC class I peptide-binding motifs can defined by sequencing of peptides naturally bound to MHC class I molecules. More recently MHC class I-peptide binding motifs have be defined on the basis of quantitative MHC-peptide binding assays in vitro using peptide libraries. The information on peptide binding motifs obtained using binding assays have been useful to develop numerous bioinformatics-based tools to predict the binding of peptides to MHC class I molecules. To date few studies have analyzed the performance of these bioinformatics tools to predict peptides determined by sequencing

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20

Neagu, Anca-Narcisa, Madhuri Jayathirtha, Emma Baxter, Mary Donnelly, Brindusa Alina Petre, and Costel C. Darie. "Applications of Tandem Mass Spectrometry (MS/MS) in Protein Analysis for Biomedical Research." Molecules 27, no. 8 (2022): 2411. http://dx.doi.org/10.3390/molecules27082411.

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Mass Spectrometry (MS) allows the analysis of proteins and peptides through a variety of methods, such as Electrospray Ionization-Mass Spectrometry (ESI-MS) or Matrix-Assisted Laser Desorption Ionization-Mass Spectrometry (MALDI-MS). These methods allow identification of the mass of a protein or a peptide as intact molecules or the identification of a protein through peptide-mass fingerprinting generated upon enzymatic digestion. Tandem mass spectrometry (MS/MS) allows the fragmentation of proteins and peptides to determine the amino acid sequence of proteins (top-down and middle-down proteomi

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Kowalska, Marta, Dominik Popiel, Martyna Walter, et al. "Veni, Vidi, Vici: Immobilized Peptide-Based Conjugates as Tools for Capture, Analysis, and Transformation." Chemosensors 10, no. 1 (2022): 31. http://dx.doi.org/10.3390/chemosensors10010031.

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Analysis of peptide biomarkers of pathological states of the organism is often a serious challenge, due to a very complex composition of the cell and insufficient sensitivity of the current analytical methods (including mass spectrometry). One of the possible ways to overcome this problem is sample enrichment by capturing the selected components using a specific solid support. Another option is increasing the detectability of the desired compound by its selective tagging. Appropriately modified and immobilized peptides can be used for these purposes. In addition, they find application in study

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Wang, Guangshun. "Bioinformatic Analysis of 1000 Amphibian Antimicrobial Peptides Uncovers Multiple Length-Dependent Correlations for Peptide Design and Prediction." Antibiotics 9, no. 8 (2020): 491. http://dx.doi.org/10.3390/antibiotics9080491.

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Amphibians are widely distributed on different continents, except for the polar regions. They are important sources for the isolation, purification and characterization of natural compounds, including peptides with various functions. Innate immune antimicrobial peptides (AMPs) play a critical role in warding off invading pathogens, such as bacteria, fungi, parasites, and viruses. They may also have other biological functions such as endotoxin neutralization, chemotaxis, anti-inflammation, and wound healing. This article documents a bioinformatic analysis of over 1000 amphibian antimicrobial pe

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23

Chandra, Deepika, P. Gayathri, Mudita Vats, R. Nagaraj, MK Ray, and MV Jagannadham. "Mass spectral analysis of acetylated peptides: Implications in proteomics." European Journal of Mass Spectrometry 26, no. 1 (2019): 36–45. http://dx.doi.org/10.1177/1469066719857564.

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Sequence determination of peptides using mass spectrometry plays a crucial role in the bottom-up approaches for the identification of proteins. It is crucially important to minimise false detection and validate sequence of the peptides in order to correctly identify a protein. Chemical modification of peptides followed by mass spectrometry is an option for improving the spectral quality. In silico-derived tryptic peptides with different N-terminal amino acids were designed from human proteins and synthesized. The effect of acetylation on the fragmentation of peptides was studied. N-terminal ac

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Larive, Cynthia K., Dimuthu Jayawickrama, and Laszlo Orfi. "Quantitative Analysis of Peptides with NMR Spectroscopy." Applied Spectroscopy 51, no. 10 (1997): 1531–36. http://dx.doi.org/10.1366/0003702971939055.

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The determination of peptide concentration with 1H nuclear magnetic resonance (NMR) spectroscopy using an internal standard or an external standard in a sealed glass capillary was investigated for three tyrosine-containing tripeptides. Trimethylsilylpropionic acid (TSP) and maleic acid were tested as external standards for quantitation by proton NMR. Although comparable results were obtained for either standard, the performance of maleic acid was found to be superior because of its better long-term stability in the sealed capillary. Loss of TSP from solution occurred over time due to adsorptio

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Paziewska, Agnieszka, Marcin Polkowski, Tymon Rubel, et al. "Mass Spectrometry-Based Comprehensive Analysis of Pancreatic Cyst Fluids." BioMed Research International 2018 (November 29, 2018): 1–12. http://dx.doi.org/10.1155/2018/7169595.

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Pancreatic cyst fluids (PCFs) enriched in tumour-derived proteins are considered a potential source of new biomarkers. This study aimed to determine compositional and quantitative differences between the degradome and proteome of PCFs aspirated from different types of pancreatic cyst lesions (PCLs). 91 patients who underwent endoscopic ultrasound-fine needle aspiration under routine clinical diagnosis of PCLs were enrolled. Four cysts were malignant (CAs), and 87 were nonmalignant and consisted of 18 intraductal papillary mucinous neoplasms (IPMNs), 14 mucinous cystic neoplasms (MCNs), nine se

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Ma, Menglin, Jihong Li, and Bruce A. McClane. "Structure-Function Analysis of Peptide Signaling in the Clostridium perfringens Agr-Like Quorum Sensing System." Journal of Bacteriology 197, no. 10 (2015): 1807–18. http://dx.doi.org/10.1128/jb.02614-14.

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ABSTRACTThe accessory growth regulator (Agr)-like quorum sensing (QS) system ofClostridium perfringenscontrols the production of many toxins, including beta toxin (CPB). We previously showed (J. E. Vidal, M. Ma, J. Saputo, J. Garcia, F. A. Uzal, and B. A. McClane, Mol Microbiol 83:179–194, 2012,http://dx.doi.org/10.1111/j.1365-2958.2011.07925.x) that an 8-amino-acid, AgrD-derived peptide named 8-R upregulates CPB production by this QS system. The current study synthesized a series of small signaling peptides corresponding to sequences within theC. perfringensAgrD polypeptide to investigate the

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27

Zhou, Zemin, Eduardo Reyes-Vargas, Hernando Escobar, et al. "Peptidomic analysis of type-1 diabetes associated HLA-DQ molecules and impact of HLA-DM editing (APP5P.108)." Journal of Immunology 194, no. 1_Supplement (2015): 183.10. http://dx.doi.org/10.4049/jimmunol.194.supp.183.10.

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Abstract HLA-DM is critical in editing peptide repertoires presented by APC, thus influencing the selection/activation of CD4+ T cells. We previously reported that type-1 diabetes (T1D) associated HLA-DQ2, 8 & DQ2/8 molecules (DQs) are relatively resistant to DM editing of the CLIP peptides. In this study, we further studied DM sensitivity of T1D-associated DQs by peptidomic analysis. Compared to a T1D-protective DQ6, the percentages of shared peptides among T1D-associated DQs were significantly higher. There were greater numbers of nested peptide sets and long peptides (&gt;20 aa) elu

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Stephenson, Sophie, Christian Mueller, Min Jiang, and Marta Perego. "Molecular Analysis of Phr Peptide Processing in Bacillus subtilis." Journal of Bacteriology 185, no. 16 (2003): 4861–71. http://dx.doi.org/10.1128/jb.185.16.4861-4871.2003.

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ABSTRACT In Bacillus subtilis, an export-import pathway regulates production of the Phr pentapeptide inhibitors of Rap proteins. Processing of the Phr precursor proteins into the active pentapeptide form is a key event in the initiation of sporulation and competence development. The PhrA (ARNQT) and PhrE (SRNVT) peptides inhibit the RapA and RapE phosphatases, respectively, whose activity is directed toward the Spo0F∼P intermediate response regulator of the sporulation phosphorelay. The PhrC (ERGMT) peptide inhibits the RapC protein acting on the ComA response regulator for competence with reg

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Pullen, Jeffrey K., George W. Anderson, Susan L. Welkos, and Arthur M. Friedlander. "Analysis of the Yersinia pestis V Protein for the Presence of Linear Antibody Epitopes." Infection and Immunity 66, no. 2 (1998): 521–27. http://dx.doi.org/10.1128/iai.66.2.521-527.1998.

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ABSTRACT The V protein expressed by pathogenic Yersinia pestisis an important virulence factor and protective immunogen. The presence of linear B-cell epitopes in the V protein was investigated by using a series of 17 overlapping linear peptides. Groups of 10 mice were immunized intraperitoneally with 30 μg of each peptide on days 0, 30, and 60. Although the V protein-specific antibody response to the peptides varied, most of the peptides elicited high antibody titers. The immunized mice were challenged subcutaneously with 60 50% lethal doses (LD50) (1 LD50 = 1.9 CFU) of a virulent Y. pestis s

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30

Tussey, L. G., M. Matsui, S. Rowland-Jones, R. Warburton, J. A. Frelinger, and A. McMichael. "Analysis of mutant HLA-A2 molecules. Differential effects on peptide binding and CTL recognition." Journal of Immunology 152, no. 3 (1994): 1213–21. http://dx.doi.org/10.4049/jimmunol.152.3.1213.

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Abstract Previous studies have identified several residues lining the groove of the HLA-A2.1 molecule that are critical for Ag presentation. However, it is not clear whether these residues are critical for binding of the peptide epitope per se or for determining the appropriate conformation of bound peptide. To distinguish between these possibilities, mutations at eight of these residues have been tested for their effects on the ability of the molecule to bind and present two known peptide epitopes--one derived from the influenza A matrix protein, the other from HIV pol. With only one exceptio

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Kraft, Jennifer R., Russell E. Vance, Jan Pohl, Amy M. Martin, David H. Raulet, and Peter E. Jensen. "Analysis of Qa-1bPeptide Binding Specificity and the Capacity of Cd94/Nkg2a to Discriminate between Qa-1–Peptide Complexes." Journal of Experimental Medicine 192, no. 5 (2000): 613–24. http://dx.doi.org/10.1084/jem.192.5.613.

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The major histocompatibility complex class Ib protein, Qa-1b, serves as a ligand for murine CD94/NKG2A natural killer (NK) cell inhibitory receptors. The Qa-1b peptide-binding site is predominantly occupied by a single nonameric peptide, Qa-1 determinant modifier (Qdm), derived from the leader sequence of H-2D and L molecules. Five anchor residues were identified in this study by measuring the peptide-binding affinities of substituted Qdm peptides in experiments with purified recombinant Qa-1b. A candidate peptide-binding motif was determined by sequence analysis of peptides eluted from Qa-1 t

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Sin, Wai-Ching, Hon-Ming Lam, and Sai-Ming Ngai. "Identification of Diverse Stress-Responsive Xylem Sap Peptides in Soybean." International Journal of Molecular Sciences 23, no. 15 (2022): 8641. http://dx.doi.org/10.3390/ijms23158641.

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Increasing evidence has revealed that plant secretory peptides are involved in the long-distance signaling pathways that help to regulate plant development and signal stress responses. In this study, we purified small peptides from soybean (Glycine max) xylem sap via o-chlorophenol extraction and conducted an in-depth peptidomic analysis using a mass spectrometry (MS) and bioinformatics approach. We successfully identified 14 post-translationally modified peptide groups belonging to the peptide families CEP (C-terminally encoded peptides), CLE (CLAVATA3/embryo surrounding region-related), PSY

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Helal, Ahmed, Sara Pierri, Davide Tagliazucchi, and Lisa Solieri. "Effect of Fermentation with Streptococcus thermophilus Strains on In Vitro Gastro-Intestinal Digestion of Whey Protein Concentrates." Microorganisms 11, no. 7 (2023): 1742. http://dx.doi.org/10.3390/microorganisms11071742.

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Three Streptococcus thermophilus strains, namely RBC6, RBC20, and RBN16, were proven to release bioactive peptides during whey protein concentrate (WPC) fermentation, resulting in WPC hydrolysates with biological activities. However, these bioactive peptides can break down during gastro-intestinal digestion (GID), hindering the health-promoting effect of fermented WPC hydrolysates in vivo. In this work, the effect of simulated GID on three WPC hydrolysates fermented with S. thermophilus strains, as well as on unfermented WPC was studied in terms of protein hydrolysis, biological activities, an

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Osugi, Tomohiro, Katsuhisa Uchida, Masumi Nozaki, and Kazuyoshi Tsutsui. "Characterization of Novel RFamide Peptides in the Central Nervous System of the Brown Hagfish: Isolation, Localization, and Functional Analysis." Endocrinology 152, no. 11 (2011): 4252–64. http://dx.doi.org/10.1210/en.2011-1375.

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RFamide (RFa) peptides play various important roles in the central nervous system in both invertebrates and vertebrates. However, there is no evidence of the existence of any RFamide peptide in the brain of hagfish, one of the oldest lineages of vertebrates. In this study, we sought to identify novel RFamide peptides from the brains of hagfish (Paramyxine atami). We identified four novel RFamide peptides, which had the C-terminal Pro-Gln-Arg-Phe-NH2 structure. cDNA cloning revealed that the identified RFamide peptides are encoded in two types of cDNA. Molecular phylogenetic analysis of the two

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Yin, Liusong, Mauricio Calvo-Calle, and Lawrence Stern. "Characterization of HLA-DM susceptibility of MHC II-peptide complex in antigen presentation and epitope selection (100.54)." Journal of Immunology 186, no. 1_Supplement (2011): 100.54. http://dx.doi.org/10.4049/jimmunol.186.supp.100.54.

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Abstract HLA-DM (DM) is a non-classic major histocompatibility complex II (MHC II), which mediates the exchange of peptides loading to MHC II during antigen presentation. However, the role of DM-mediated peptide exchange in epitope selection is still unclear. In this study, we addressed this question systematically using overlapping peptides from vaccinia virus protein A10L. We measured the binding affinity, intrinsic half life, DM-mediated half life and immunogenecity of 126 A10L peptides bound to HLA-DR1. Correlation coefficient analysis shows that immunogenecity of peptides is very weakly c

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Wang, Qin, Yanchao Wang, Xiaoming Jiang, et al. "Amino Acid Profiling with Chemometric Analysis as a Feasible Tool for the Discrimination of Marine-Derived Peptide Powders." Foods 10, no. 6 (2021): 1294. http://dx.doi.org/10.3390/foods10061294.

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Marine-derived peptide powders have suffered from adulteration via the substitution of lower-price peptides or the addition of adulterants in the market. This study aims to establish an effective approach for the discrimination and detection of adulterants for four representative categories of marine-derived peptide powders, namely, oyster peptides, sea cucumber peptides, Antarctic krill peptides, and fish skin peptides, based on amino acid profiling alongside chemometric analysis. The principal component analysis and orthogonal partial least squares discriminant analysis results indicate that

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Peng, Zhenghong. "NMR conformational analysis on cyclic decapeptide template molecule." Canadian Journal of Chemistry 77, no. 8 (1999): 1394–404. http://dx.doi.org/10.1139/v99-128.

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We report the synthesis and conformational analysis of a series of cyclic and bicyclic decapeptide templates for combinatorial chemistry. The peptides were synthesized via solid phase synthesis and followed by solution cyclization. The conformation of the peptides was studied by proton NMR spectroscopy in DMSO and in TFE-water. The structure of the peptide template was calculated with the program DIANA and followed by SA from the NMR experimental constraints. The peptide adopts a fold comprising two β-strands and two type II β-turns. The design of such a restained cyclic decapeptide template w

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Kusumaningtyas, Eni, R. Widiastuti, H. D. Kusumaningrum, and M. T. Suhartono. "Bioactivities and analysis of peptides from Sumbawa horse milk generated by Bacillus thuringiensis protease." Jurnal Ilmu Ternak dan Veteriner 21, no. 4 (2018): 244. http://dx.doi.org/10.14334/jitv.v21i4.1627.

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<p class="abstrak2">Sumbawa horse milk is claimed to cure some diseases such as asthma, hypertension, diabetes and gastrointestinal disorder but its potential bioactive peptide has not been explored. The aims of this study are to evaluate bioactivities peptides from Sumbawa horse milk protein hydrolysate and to analyzethe physio-chemical properties of selected peptides. The milk protein was hydrolyzed by Bacillus thuringiensis protease, the peptide produced were sequential fractionated and then analyzed for antibacterial and antioxidant activities. The peptide fraction &lt;3 kDa was

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Anusha, G., and M. Monisha. "Molecular modeling and screening of antiviral peptides for Influenza A virus Polymerase basic protein 2(PB2) protein using Hpepdock software for the therapy of Influenza A." CARDIOMETRY, no. 25 (February 14, 2023): 1693–701. http://dx.doi.org/10.18137/cardiometry.2022.25.16931701.

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Aim: To determine the binding affinity (kcal/mol) for various antiviral peptides to target Influenza A virus PB2 protein using Hpepdock software and comparison with the Macrocyclic iHA100 peptide (Reference peptide). Materials and methods: The three-dimensional (3D) coordinates for PB2 protein were retrieved from Protein Data Bank (PDB ID 4P1U). The structures of 16 antiviral peptides were modeled using HPEPDOCK. The Molecular docking analysis of PB2 protein with derived antiviral peptides was performed using Hpepdock software. This software employs an algorithm that generates the output compl

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He, Ronghai, Haile Ma, Weirui Zhao, et al. "Modeling the QSAR of ACE-Inhibitory Peptides with ANN and Its Applied Illustration." International Journal of Peptides 2012 (June 9, 2012): 1–9. http://dx.doi.org/10.1155/2012/620609.

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A quantitative structure-activity relationship (QSAR) model of angiotensin-converting enzyme- (ACE-) inhibitory peptides was built with an artificial neural network (ANN) approach based on structural or activity data of 58 dipeptides (including peptide activity, hydrophilic amino acids content, three-dimensional shape, size, and electrical parameters), the overall correlation coefficient of the predicted versus actual data points is , and the model was applied in ACE-inhibitory peptides preparation from defatted wheat germ protein (DWGP). According to the QSAR model, the C-terminal of the pept

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Polak-Berecka, Magdalena, Magdalena Michalak-Tomczyk, Katarzyna Skrzypczak, Katarzyna Michalak, Kamila Rachwał, and Adam Waśko. "Potential Biological Activities of Peptides Generated during Casein Proteolysis by Curly Kale (Brassica oleracea L. var. sabellica L.) Leaf Extract: An In Silico Preliminary Study." Foods 10, no. 11 (2021): 2877. http://dx.doi.org/10.3390/foods10112877.

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This study is a brief report on the proteolytic activity of curly kale leaf extract against casein. Casein degradation products and an in silico analysis of the biological activity of the peptides obtained was performed. The efficiency of casein hydrolysis by curly kale extract was determined using SDS–PAGE and by peptide concentration determination. The pattern of the enzymatic activity was determined by MALDI–TOF MS analysis. The results showed that α- and β-casein were more resistant to curly kale extract hydrolysis, whereas κ-casein was absent in the protein profile after 8 h of proteolysi

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Bourganou, Maria V., Evangelos Kontopodis, George Th Tsangaris, et al. "Unique Peptides of Cathelicidin-1 in the Early Detection of Mastitis—In Silico Analysis." International Journal of Molecular Sciences 24, no. 12 (2023): 10160. http://dx.doi.org/10.3390/ijms241210160.

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Based on the results of previously performed clinical studies, cathelicidin-1 has been proposed as a potential biomarker for the early diagnosis of mastitis in ewes. It has been hypothesized that the detection of unique peptides (defined as a peptide, irrespective of its length, that exists in only one protein of a proteome of interest) and core unique peptides (CUPs) (representing the shortest peptide that is unique) of cathelicidin-1 may potentially improve its identification and consequently the diagnosis of sheep mastitis. Peptides of sizes larger than those of the size of CUPs, which incl

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Boesen, Agnieszka, Krishnan Sundar, and Richard Coico. "Lassa Fever Virus Peptides Predicted by Computational Analysis Induce Epitope-Specific Cytotoxic-T-Lymphocyte Responses in HLA-A2.1 Transgenic Mice." Clinical Diagnostic Laboratory Immunology 12, no. 10 (2005): 1223–30. http://dx.doi.org/10.1128/cdli.12.10.1223-1230.2005.

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ABSTRACT Lassa fever is a hemorrhagic disease caused by Lassa fever virus (LV). Although the precise host defense mechanism(s) that affords protection against LV is not completely understood, cellular immunity mediated by cytotoxic T lymphocytes (CTLs) plays a pivotal role in controlling viral replication and LV infection. To date, there have been no reports mapping major histocompatibility complex (MHC) class I-binding CTL epitopes for LV. Using computer-assisted algorithms, we identified five HLA-A2.1-binding peptides of LV glycoprotein (GP) and two peptides from LV nucleoprotein (NP). Synth

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Van, Julie A. D., Sergi Clotet-Freixas, Joyce Zhou, et al. "Peptidomic Analysis of Urine from Youths with Early Type 1 Diabetes Reveals Novel Bioactivity of Uromodulin Peptides In Vitro." Molecular & Cellular Proteomics 19, no. 3 (2019): 501–17. http://dx.doi.org/10.1074/mcp.ra119.001858.

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Chronic hyperglycemia is known to disrupt the proteolytic milieu, initiating compensatory and maladaptive pathways in the diabetic kidney. Such changes in intrarenal proteolysis are captured by the urinary peptidome. To elucidate the early kidney response to chronic hyperglycemia, we conducted a peptidomic investigation into urines from otherwise healthy youths with type 1 diabetes and their non-diabetic peers using unbiased and targeted mass spectrometry-based techniques. This cross-sectional study included two separate cohorts for the discovery (n = 30) and internal validation (n = 30) of di

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Kuhn-Nentwig, Lucia, Nicolas Langenegger, Manfred Heller, Dominique Koua, and Wolfgang Nentwig. "The Dual Prey-Inactivation Strategy of Spiders—In-Depth Venomic Analysis of Cupiennius salei." Toxins 11, no. 3 (2019): 167. http://dx.doi.org/10.3390/toxins11030167.

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Most knowledge of spider venom concerns neurotoxins acting on ion channels, whereas proteins and their significance for the envenomation process are neglected. The here presented comprehensive analysis of the venom gland transcriptome and proteome of Cupiennius salei focusses on proteins and cysteine-containing peptides and offers new insight into the structure and function of spider venom, here described as the dual prey-inactivation strategy. After venom injection, many enzymes and proteins, dominated by α-amylase, angiotensin-converting enzyme, and cysteine-rich secretory proteins, interact

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Soltaninejad, Hossein, Hadi Zare-Zardini, Mahtab Ordooei, et al. "Antimicrobial Peptides from Amphibian Innate Immune System as Potent Antidiabetic Agents: A Literature Review and Bioinformatics Analysis." Journal of Diabetes Research 2021 (June 29, 2021): 1–10. http://dx.doi.org/10.1155/2021/2894722.

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Antimicrobial peptides, as an important member of the innate immune system, have various biological activities in addition to antimicrobial activity. There are some AMPs with antidiabetic activity, especially those isolated from amphibians. These peptides can induce insulin release via different mechanisms based on peptide type. In this review study, we collected all reported AMPs with antidiabetic activity. We also analyze the sequence and structure of these peptides for evaluation of sequence and structure effect on their antidiabetic activity. Based on this review, the biggest peptide famil

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Geetha, R., and R. Padmavathy. "Thermoacoustic, Electrochemical, Solvation and Antimicrobial Analysis of Ternary Potassium Salts Solutions at 308.15K." International Journal of Current Research and Review 15, no. 02 (2023): 16–22. http://dx.doi.org/10.31782/ijcrr.2023.15203.

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Introduction: Amino acids join with each other by peptide bonds and build polymers referred to peptides and proteins. Peptides are recognized for being very therapeutic, selective and comparably safe. As a result, peptides are receiving more attention in pharmaceutical research and development. The scientific progress of ultrasonics has been employed extensively in past decades for both industrial and medical applications. Aim/Objectives: Ultrasonic investigation in non- aqueous solutions of electrolytes with peptides provide information that is helpful in understanding the behaviour of liquid

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Tsybin, Youri O., Per Håkansson, Magnus Wetterhall, Karin E. Markides, and Jonas Bergquist. "Capillary Electrophoresis and Electron Capture Dissociation Fourier Transform Ion Cyclotron Resonance Mass Spectrometry for Peptide Mixture and Protein Digest Analysis." European Journal of Mass Spectrometry 8, no. 5 (2002): 389–95. http://dx.doi.org/10.1255/ejms.514.

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Recent advances in peptide fragmentation techniques and mass spectrometry have opened up the possibility of combining peptide separation techniques, such as capillary electrophoresis (CE) and capillary liquid chromatography, with Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR MS) and electron capture dissociation (ECD) in order to characterize peptide mixtures and protein digests. The results presented in this study show that CE/ECD-FT-ICR MS can be employed for peptide characterization in mixtures of standard peptides and in peptides resulting from the enzymatic digestion

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Ma, Chaoyue, Dan Liu, Huifang Hao, and Xiaotong Wu. "Identification of the DPP-IV Inhibitory Peptides from Donkey Blood and Regulatory Effect on the Gut Microbiota of Type 2 Diabetic Mice." Foods 11, no. 14 (2022): 2148. http://dx.doi.org/10.3390/foods11142148.

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After being treated with protease K, peptides extracted from donkey blood were separated, identified, and characterized. The results showed that Sephadex G-25 medium purified with MW < 3 kDa had the highest dipeptidyl peptidase IV (DPP-IV) inhibition capacity. Three-hundred-and-thirty-four peptides were identified with UPLC–MS/MS. Peptide Ranker and molecular docking analysis were used to screen active peptides, and 16 peptides were finalized out of the 334. The results showed that the lowest binding energy between P7(YPWTQ) and DPP-IV was −9.1, and the second-lowest binding energy between

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Lee, Joon Ha, Hoyong Chung, Yong Pyo Shin, et al. "Transcriptome Analysis of Psacothea hilaris: De Novo Assembly and Antimicrobial Peptide Prediction." Insects 11, no. 10 (2020): 676. http://dx.doi.org/10.3390/insects11100676.

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Antimicrobial peptides (AMPs) are the frontline innate defense system evolutionarily preserved in insects to combat invading pathogens. These AMPs could serve as an alternative to classical antibiotics to overcome the burden of treating multidrug resistant bacteria. Psacotheasin, a knottin type AMP was isolated from Psacothea hilaris and shown to exhibit antimicrobial activity, especially against fungi through apoptosis mediated cell death. In this study, we aimed to identify novel probable AMPs from Psacothea hilaris, the yellow spotted longicorn beetle. The beetle was immunized with the two

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