Results 1 to 10 of about 712,349 (416)

Proteomics beyond trypsin [PDF]

The FEBS Journal, 2015
Peptide‐centered shotgun analysis of proteins has been the core technology in mass spectrometry based proteomics and has enabled numerous biological discoveries, such as the large‐scale charting of protein–protein interaction networks, the quantitative analysis of protein post‐translational modifications and even the first drafts of the human proteome.
Tsiatsiani, Liana, Heck, Albert J R
openaire   +6 more sources

Kinetic distance and kinetic maps from molecular dynamics simulation [PDF]

arXiv, 2015
Characterizing macromolecular kinetics from molecular dynamics (MD) simulations requires a distance metric that can distinguish slowly-interconverting states. Here we build upon diffusion map theory and define a kinetic distance for irreducible Markov processes that quantifies how slowly molecular conformations interconvert.
Bittracher A., Bowman G. R., Cecilia Clementi, Frank Noé, Nadler B., Trendelkamp-Schroer B.   +5 more
arxiv   +5 more sources

Ultrasensitive surface-enhanced Raman scattering detection of trypsin based on anti-aggregation of 4-mercaptopyridine-functionalized silver nanoparticles: an optical sensing platform toward proteases [PDF]

Nanoscale, 2013
In this work, a simple and sensitive surface-enhanced Raman scattering (SERS) strategy was developed for recognition and detection of trypsin, by using anti-aggregation of 4-mercaptopyridine (4-MPY)-functionalized silver nanoparticles (AgNPs) based on ...
Chen, Lingxin, Chen, LX (reprint author), Chinese Acad Sci, Yantai Inst Coastal Zone Res, Key Lab Coastal Zone Environm Proc & Ecol Remedia, Yantai 264003, Peoples R China. lxchen@yic.ac.cn, Fu, Xiuli, Li, Jinhua   +3 more
core   +2 more sources

Culex quinquefasciatus Late Trypsin Biosynthesis Is Translationally Regulated by Trypsin Modulating Oostatic Factor

Frontiers in Physiology, 2021
Trypsin is a serine protease that is synthesized by the gut epithelial cells of female mosquitoes; it is the enzyme that digests the blood meal. To study its molecular regulation, Culex quinquefasciatus late trypsin was purified by diethylaminoethyl ...
Dov Borovsky, Peter Verhaert, Pierre Rougé, Charles A. Powell, Arnold De Loof   +4 more
doaj   +1 more source

Identification of trypsin-degrading commensals in the large intestine

Nature, 2022
Increased levels of proteases, such as trypsin, in the distal intestine have been implicated in intestinal pathological conditions 1 – 3 . However, the players and mechanisms that underlie protease regulation in the intestinal lumen have remained unclear.
Youxian Li, E. Watanabe, Yusuke Kawashima, D. Plichta, Zhujun Wang, M. Ujike, Qi Yan Ang, Runrun Wu, Munehiro Furuichi, Kozue Takeshita, Koji Yoshida, Keita Nishiyama, Sean M. Kearney, W. Suda, M. Hattori, Satoshi Sasajima, T. Matsunaga, Xiaoxi Zhang, Kazuto Watanabe, J. Fujishiro, J. Norman, B. Ollé, S. Matsuyama, H. Namkoong, Y. Uwamino, M. Ishii, K. Fukunaga, N. Hasegawa, O. Ohara, R. Xavier, K. Atarashi, K. Honda   +31 more
semanticscholar   +1 more source

Optimization of Enzymatic Hydrolysis and Decolorization Process of Walnut Protein

Liang you shipin ke-ji, 2022
This paper aimed at the high-value utilization of walnut cake, a by-product of oil processing industry. The walnut protein (WP) was extracted by alkali extraction-acid precipitation method from cold-pressed walnut cake, then trypsin hydrolysis process ...
WANG Wei, LI Ya-juan, JIANG Yue, SHEN Ming-juan   +3 more
doaj   +1 more source

Water regulates the residence time of Benzamidine in Trypsin [PDF]

Nat. Commun. 13, 5438 (2022), 2022
The process of ligand-protein unbinding is crucial in biophysics. Water is an essential part of any biological system and yet, many aspects of its role remain elusive. Here, we simulate with state-of-the-art enhanced sampling techniques the binding of Benzamidine to Trypsin which is a much studied and paradigmatic ligand-protein system.
arxiv   +1 more source

The Effect of TiO2-Nanoparticle on the Activity and Stability of Trypsin in Aqueous Medium [PDF]

Journal of Nanostructures, 2018
Trypsin (E.C.3.4.21.4) is a serine protease commonly used in proteomics for digestion of proteins. In the present study, the effect of nano-TiO2 on the conformation and catalytic activity of trypsin were studied.
sakineh sadeghi kaji, behzad shareghi, Ayeh Bolouki, Masoud Salavati-Niasari   +3 more
doaj   +1 more source

Path separation of dissipation-corrected targeted molecular dynamics simulations of protein-ligand unbinding [PDF]

J. Chem. Phys. 158, 124106 (2023), 2022
Protein-ligand (un)binding simulations are a recent focus of biased molecular dynamics simulations. Such binding and unbinding can occur via different pathways in and out of a binding site. We here present a theoretical framework how to compute kinetics along separate paths and to combine the path-specific rates into global binding and unbinding rates ...
arxiv   +1 more source

Proteomics Using Protease Alternatives to Trypsin Benefits from Sequential Digestion with Trypsin

bioRxiv, 2020
Trypsin is the most used enzyme in proteomics. Nevertheless, proteases with complementary cleavage specificity have been applied in special circumstances.
Therese Dau, Giulia Bartolomucci, J. Rappsilber   +2 more
semanticscholar   +1 more source