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1. Protein knots provide mechano-resilience to an AAA+ protease-mediated proteolysis with profound ATP energy expenses

Author:
Sriramoju, Manoj Kumar; Chen, Yen; Hsu, Shang-Te Danny
Source:
Biochimica et biophysica acta 2020 v.1868 no.2 pp. 140330
ISSN:
1570-9639
Subject:
proteolysis,   etc   ; adenosine triphosphate; electrophoresis; energy; enzymes; proteins;     Show all 6 Subjects
Abstract:
... Knotted proteins are some of the most fascinating examples of how linear polypeptide chains can achieve intricate topological arrangements efficiently and spontaneously. The entanglements of polypeptide chains could potentially enhance their folding stabilities. We recently reported the unprecedented mechanostability of the Gordian (52) knotted family of human ubiquitin C-terminal hydrolases (UCHs ...
DOI:
10.1016/j.bbapap.2019.140330

2. Docking interactions determine early cleavage events in insulin proteolysis by pepsin: Experiment and simulation

Author:
Koliński, Michał; Kmiecik, Sebastian; Dec, Robert; Piejko, Marcin; Mak, Paweł; Dzwolak, Wojciech
Source:
International journal of biological macromolecules 2020 v.149 pp. 1151-1160
ISSN:
0141-8130
Subject:
proteolysis,   etc   ; active sites; amyloid; insulin; models; pepsin; prediction;     Show all 7 Subjects
Abstract:
... In silico modelling of cascade enzymatic proteolysis is an exceedingly complex and challenging task. Here, we study partial proteolysis of insulin by pepsin: a process leading to the release of a highly amyloidogenic two chain ‘H-fragment’. The H-fragment retains several cleavage sites for pepsin. However, under favorable conditions H-monomers rapidly self-assemble into proteolysis-resistant amylo ...
DOI:
10.1016/j.ijbiomac.2020.01.253

3. Proteolytic Proteoforms: Elusive Components of Hormonal Pathways?

Author:
Liu, Chen; Törnkvist, Anna; Charova, Spyridoula; Stael, Simon; Moschou, Panagiotis N.
Source:
Trends in plant science 2020 v.25 no.4 pp. 325-328
ISSN:
1360-1385
Subject:
proteolysis,   etc   ; auxins; ethylene signaling pathway; proteasome endopeptidase complex; repressor proteins;     Show all 5 Subjects
Abstract:
... Hormonal pathways often converge on transcriptional repressors that can be degraded by the proteasome to initiate a response. We wish to draw attention to developments in a less-explored proteolytic branch called ‘limited proteolysis’ that, in addition to the classical proteolytic pathways, seems to regulate auxin and ethylene signaling. ...
DOI:
10.1016/j.tplants.2020.01.002

4. Modification-free approaches to screen drug targets at proteome level

Author:
Lyu, Jiawen; Wang, Keyun; Ye, Mingliang
Source:
Trends in analytical chemistry 2020 v.124 pp. 115574
ISSN:
0165-9936
Subject:
proteolysis,   etc   ; bioassays; derivatization; drugs; mass spectrometry; proteome; proteomics; screening; therapeutics;     Show all 9 Subjects
Abstract:
... It is of great importance to explore the on- and off-target of existing drugs and discover novel druggable targets for potential therapeutic compounds. Although the hypothesis driven biological assays based approaches have made significant contribution to the drug target discovery, recent development of mass spectrometry and high-throughput proteomics have brought the drug target screening into a ...
DOI:
10.1016/j.trac.2019.06.024

5. Microbial Effector Proteins – A Journey through the Proteolytic Landscape

Author:
Langin, Gautier; Gouguet, Paul; Üstün, Suayib
Source:
Trends in microbiology 2020
ISSN:
0966-842X
Subject:
proteolysis,   etc   ; autophagy; microorganisms; pathogens; proteasome endopeptidase complex; proteins;     Show all 6 Subjects
Abstract:
... In the evolutionary arms race between pathogens and plants, pathogens evolved effector molecules that they secrete into the host to subvert plant cellular responses in a process termed the effector-targeted pathway (ETP). During recent years the repertoire of ETPs has increased and mounting evidence indicates that the proteasome and autophagy pathways are central hubs of microbial effectors. Both ...
DOI:
10.1016/j.tim.2020.02.010

6. Effects of post mortem pH and salting time on Zinc-protoporphyrin content in nitrite-free Serrano dry-cured hams

Author:
Bou, Ricard; Llauger, Mar; Arnau, Jacint; Olmos, Alejandro; Fulladosa, Elena
Source:
Food research international 2020 v.133 pp. 109156
ISSN:
0963-9969
Subject:
proteolysis,   etc   ; additives; color; cured meats; curing agents; free fatty acids; ham; heme; pH; salt content; salting;     Show all 11 Subjects
Abstract:
... There is a growing demand for clean label products and thus the elimination of curing additives in various dry-cured meats is of interest while maintaining colour characteristics. This study was aimed to examine the effect of pH at 24 h post mortem (pHSM₂₄ₕ ≤ 5.4; 5.4 > pHSM₂₄ₕ < 5.9; pHSM₂₄ₕ ≥ 5.9) and salting time (standard vs reduced) on zinc-protoporphyrin content, heme content and other physi ...
DOI:
10.1016/j.foodres.2020.109156

7. A novel method for large-scale confirmation of protein structures and surface accessible modification sites

Author:
Xiong, Yun; Zhang, Ying; Liu, Xiaohui; Yao, Jun; Lu, Haojie
Source:
Talanta 2020 v.211 pp. 120697
ISSN:
0039-9140
Subject:
proteolysis,   etc   ; acetylation; asparagine; monitoring; peptides; phosphorylation; post-translational modification; protein structure; proteins; proteomics; threonine; ultrafiltration;     Show all 12 Subjects
Abstract:
... Protein function is modulated via different levels including their structure and chemical modifications, but method for monitoring of protein structures and their modifications on a large scale is far from mature. In this study, we present a shot-gun proteomic method, which combine ultrafiltration with limited tryptic proteolysis (FLiP) to enrich the surface accessible peptides and modification si ...
DOI:
10.1016/j.talanta.2019.120697

8. Structure elucidation and absolute configuration of metabolites from the soil-derived fungus Dictyosporium digitatum using spectroscopic and computational methods

Author:
Tran, Trong D.; Wilson, Brice A.P.; Henrich, Curtis J.; Wendt, Karen L.; King, Jarrod; Cichewicz, Robert H.; Stchigel, Alberto M.; Miller, Andrew N.; O'Keefe, Barry R.; Gustafson, Kirk R.
Source:
Phytochemistry 2020 v.173 pp. 112278
ISSN:
0031-9422
Subject:
proteolysis,   etc   ; computational methodology; fungi; lymphoma; mass spectrometry; metabolites; nuclear magnetic resonance spectroscopy; proteinases; sesquiterpenoids;     Show all 9 Subjects
Abstract:
... Following the discovery of a new class of compounds that inhibit the mucosa-associated lymphoid tissue lymphoma translocation 1 (MALT1) protease in a prior study, further chemical investigation of the Dictyosporium digitatum fungus resulted in the identification of 16 additional metabolites, including 12 undescribed compounds (1–12). The constitution and relative configuration of these new molecul ...
DOI:
10.1016/j.phytochem.2020.112278
PubMed:
32078832
PubMed Central:
PMC7124996

9. Utilization of i-TRAQ technology to determine protein modifications in pork soup in response to addition of salt

Author:
Zhu, Chaozhi; Zhao, Gaiming; Cui, Wenming; Li, Shanshan; Yu, Xiaoling; Zhang, Qiuhui
Source:
Subtropical plant science 2020 v.88 pp. 103453
ISSN:
0889-1575
Subject:
proteolysis,   etc   ; collagen; cooking; nutrition; peptides; pork; protein composition; protein degradation; soups;     Show all 9 Subjects
Abstract:
... During cooking of traditional Chinese meat-based soups, the presence or absence of salt creates a very different environment for the product during the cooking process, with potential nutritional effects. The protein profiles of soup included 2 % salt (Treated) and soup without salt (Control) were determined and showed significant proteolysis in the treated group. Proteolytic index of treated was ...
DOI:
10.1016/j.jfca.2020.103453

10. Generation and In-planta expression of a recombinant single chain antibody with broad neutralization activity on Bothrops pauloensis snake venom

Author:
Souza, Jessica B.; Cardoso, Rone; Almeida-Souza, Hebréia O.; Carvalho, Camila P.; Correia, Lucas Ian Veloso; Faria, Paula Cristina B.; Araujo, Galber R.; Mendes, Mirian M.; Rodrigues, Renata Santos; Rodrigues, Veridiana M.; Dandekar, Abhaya M.; Goulart, Luiz Ricardo; Nascimento, Rafael
Source:
International journal of biological macromolecules 2020 v.149 pp. 1241-1251
ISSN:
0141-8130
Subject:
proteolysis,   etc   ; Bothrops; accidents; antivenoms; coagulants; hemostasis; metalloproteinases; neutralizing antibodies; snake bites; snake venoms; toxicity; Brazil;     Show all 12 Subjects
Abstract:
... The main systemic alterations present in bothropic envenomation are hemostasis disorders, for which the conventional treatment is based on animal-produced antiophidic sera. We have developed a neutralizing antibody against Bothrops pauloensis (B. pauloensis) venom, which is member of the genus most predominant in snakebite accidents in Brazil. Subsequently, we expressed this antibody in plants to ...
DOI:
10.1016/j.ijbiomac.2020.02.028

11. Inhibition of mitochondrial calcium uniporter enhances postmortem proteolysis and tenderness in beef cattle

Author:
Dang, David S.; Buhler, Jared F.; Davis, Haden T.; Thornton, Kara J.; Scheffler, Tracy L.; Matarneh, Sulaiman K.
Source:
Meat science 2020 v.162 pp. 108039
ISSN:
0309-1740
Subject:
proteolysis,   etc   ; autolysis; beef cattle; calcium; calpastatin; homeostasis; longissimus muscle; meat tenderness; mitochondria; steaks; tenderizing; texture;     Show all 12 Subjects
Abstract:
... The purpose of this study was to examine the role of mitochondria in postmortem calcium homeostasis and its effect on proteolysis and tenderness. We hypothesized that mitochondria buffer cytosolic calcium levels and delay the activation of calpain-1 and subsequently the development of meat tenderness. To test this hypothesis, pre-rigor bovine longissimus thoracis et lumborum muscle samples were in ...
DOI:
10.1016/j.meatsci.2019.108039

12. Microgels and hydrogels as delivery systems for antimicrobial peptides

Author:
Borro, Bruno C.; Nordström, Randi; Malmsten, Martin
Source:
Colloids and surfaces 2020 v.187 pp. 110835
ISSN:
0927-7765
Subject:
proteolysis,   etc   ; antibiotics; antimicrobial peptides; antimicrobial properties; cytotoxicity; electrolytes; hydrogels; microgels; therapeutics;     Show all 9 Subjects
Abstract:
... Due to rapid development of bacterial resistance against antibiotics, an emerging health crisis is underway, where ‘simple’ infections may no longer be treatable. Antimicrobial peptides (AMPs) constitute a class of substances attracting interest in this context. So far, research on AMPs has primarily focused on the identification of potent and selective peptides, as well as on the action mode of s ...
DOI:
10.1016/j.colsurfb.2020.110835

13. Optimizing red blood cell protein extraction for biomarker quantitation with mass spectrometry

Author:
Klatt, Stephan; Roberts, Anne; Lothian, Amber; Masters, Colin L.; Cappai, Roberto; Fowler, Christopher; Roberts, Blaine R.
Source:
Analytical and bioanalytical chemistry 2020 v.412 no.8 pp. 1879-1892
ISSN:
1618-2642
Subject:
proteolysis,   etc   ; Parkinson disease; acetonitrile; biomarkers; deoxycholic acid; erythrocytes; hemoglobin; lipids; mass spectrometry; processing time; proteome; urea;     Show all 12 Subjects
Abstract:
... Red blood cells (RBC) are the most common cell type found in blood. They might serve as reservoir for biomarker research as they are anuclear and lack the ability to synthesize proteins. Not many biomarker assays, however, have been conducted on RBC because of their large dynamic range of proteins, high abundance of lipids, and hemoglobin interferences. Here, we developed a semiquantitative mass s ...
DOI:
10.1007/s00216-020-02439-5

14. The effect of salting time and sex on chemical and textural properties of dry cured ham

Author:
Tomažin, Urška; Škrlep, Martin; Prevolnik Povše, Maja; Batorek Lukač, Nina; Karolyi, Danijel; Červek, Matjaž; Čandek-Potokar, Marjeta
Source:
Meat science 2020 v.161 pp. 107990
ISSN:
0309-1740
Subject:
proteolysis,   etc   ; color; crossbreds; cured meats; gilts; ham; lipid peroxidation; muscles; oxidative stability; salt content; salting; texture;     Show all 12 Subjects
Abstract:
... Effect of reduced salting and pig sex on the quality of Slovenian dry-cured ham Kraški pršut was studied. A total of 48 hams from 24 crossbred pigs (12 gilts, 12 castrates) were submitted to two different salting regimes; standard salting for 18 days (HS hams, n = 24) and shortened salting (LS hams, n = 24) for 10 days. Reduced salting time effectively reduced salt content but resulted also in hig ...
DOI:
10.1016/j.meatsci.2019.107990

15. The role of peptides cleaved from protein precursors in eliciting plant stress reactions

Author:
Chen, Ying‐Lan; Fan, Kai‐Ting; Hung, Sheng‐Chi; Chen, Yet‐Ran
Source:
Thenew phytologist 2020 v.225 no.6 pp. 2267-2282
ISSN:
0028-646X
Subject:
proteolysis,   etc   ; abiotic stress; biotic stress; drought; pathogens; peptides; plant stress; salinity; signal peptide; stress response;     Show all 10 Subjects
Abstract:
... As sessile organisms, plants are exposed to diverse abiotic and biotic stresses, and thus have developed complex signaling mechanisms that orchestrate multiple stress responses. Plant peptides have recently emerged as key signaling molecules of stress responses, not only to mechanical wounding and pathogen infection but also to nutrient imbalance, drought and high salinity. The currently identifie ...
DOI:
10.1111/nph.16241

16. Role of protein S-nitrosylation in regulating beef tenderness

Author:
Hou, Qin; Zhang, Chao-yang; Zhang, Wan-gang; Liu, Rui; Tang, Hanqi; Zhou, Guang-hong
Source:
Food chemistry 2020 v.306 pp. 125616
ISSN:
0308-8146
Subject:
proteolysis,   etc   ; autolysis; beef; cattle; desmin; enzyme inhibitors; muscles; myofibrillar proteins; nitric oxide; nitric oxide synthase; tenderizing;     Show all 11 Subjects
Abstract:
... This research aimed to explore the role of protein S-nitrosylation in regulating the tenderness of postmortem beef, from the perspective of μ-calpain autolysis and protein proteolysis. Five bovine semimembranosus muscles were incubated with three treatments including S-nitrosoglutathione (GSNO, nitric oxide donor), normal saline and Nω-nitro-L-arginine methyl ester hydrochloride (L-NAME, nitric ox ...
DOI:
10.1016/j.foodchem.2019.125616

17. Sensory-directed flavor analysis of off-flavor compounds in infant formula with deeply hydrolyzed milk protein and their possible sources

Author:
Yang, Ping; Liu, Chen; Song, Huanlu; Wang, Lijin; Wang, Xueqing; Hua, Jiacai
Source:
Lebensmittel-Wissenschaft + [i.e. und] Technologie 2020 v.119 pp. 108861
ISSN:
0023-6438
Subject:
proteolysis,   etc   ; Maillard reaction; hydrolysis; infant formulas; lipid peroxidation; milk proteins; odors; off flavors; oxidation;     Show all 9 Subjects
Abstract:
... Off-flavor compounds in IF-DHMP were identified using sensory-directed analysis. In total, 56 types of aroma-active compounds were identified in the off-flavor (OF) samples, positive control (PC) samples, and accelerated oxidation (AO) samples. The Aroma Extraction Dilution Analysis (AEDA) results showed that methional, generated via Maillard reaction, was the most important component with the hig ...
DOI:
10.1016/j.lwt.2019.108861

18. Parallel Sampling of Nanoliter Droplet Arrays for Noninvasive Protein Analysis in Discrete Yeast Cultivations by MALDI-MS

Author:
Haidas, Dominik; Napiorkowska, Marta; Schmitt, Steven; Dittrich, Petra S.
Source:
Analytical chemistry 2020 v.92 no.5 pp. 3810-3818
ISSN:
1520-6882
Subject:
proteolysis,   etc   ; Komagataella; droplets; glass; mass spectrometry; microfluidic technology; protein secretion; qualitative analysis; structural genomics; yeasts;     Show all 10 Subjects
Abstract:
... Miniaturization of cell-based assays enables the analysis of secreted compounds from low cell numbers down to a single cell. Droplet microfluidics is a well-established tool for high-throughput single-cell analysis. Nevertheless, the integration of label-free bioanalytical techniques like mass spectrometry is still ongoing. For example, without additional separation steps, droplet-enclosed cells d ...
DOI:
10.1021/acs.analchem.9b05235

19. In-Line Sample Processing System with an Immobilized Trypsin-Packed Fused-Silica Capillary Tube for the Proteomic Analysis of a Small Number of Mammalian Cells

Author:
Hata, Kosuke; Izumi, Yoshihiro; Hara, Takeshi; Matsumoto, Masaki; Bamba, Takeshi
Source:
Analytical chemistry 2020 v.92 no.4 pp. 2997-3005
ISSN:
1520-6882
Subject:
proteolysis,   etc   ; immobilized enzymes; liquid chromatography; mammals; peptides; proteins; proteome; proteomics; tandem mass spectrometry; trypsin;     Show all 10 Subjects
Abstract:
... Omics analysis at single-cell resolution has helped to demonstrate the shaping of cellular heterogeneity on the basis of the expression of various molecules. However, in-depth proteomic analysis of low-quantity samples has remained challenging because of difficulties associated with the measurement of large numbers of proteins by shotgun proteomics using nanoflow liquid chromatography tandem mass ...
DOI:
10.1021/acs.analchem.9b03993

20. Cleavage, Downregulation, and Aggregation of Serum Amyloid A

Author:
Wang, Wenhua; Khatua, Prabir; Hansmann, Ulrich H. E.
Source:
TheJournal of physical chemistry 2020 v.124 no.6 pp. 1009-1019
ISSN:
1520-5207
Subject:
proteolysis,   etc   ; amyloid; amyloidosis; blood serum; dissociation; environmental factors; pH; physical chemistry; risk;     Show all 9 Subjects
Abstract:
... Various diseases cause overexpression of the serum amyloid A (SAA) protein, which in some cases, but not in all cases, leads to amyloidosis as a secondary disease. Response to the overexpression involves dissociation of the SAA hexamer and subsequent cleavage of the released monomers, most commonly yielding fragments SAA₁–₇₆ of the full-sized SAA₁–₁₀₄. We report results from molecular dynamic simu ...
DOI:
10.1021/acs.jpcb.9b10843