Journal Article10.1016/J.IJMS.2010.07.030
MSTools—Web based application for visualization and presentation of HXMS data
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TL;DR: A set of PHP scripts facilitating H/D data visualization and presentation is described, which comprises tools helping in preparation of H/ D experiments as well as tools for turning simple tables with data on H/d exchange into different ways of representation used by the HXMS community.
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About: This article is published in International Journal of Mass Spectrometry. The article was published on 30 Apr 2011. The article focuses on the topics: Visualization & Data visualization.
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Citations
Mass Spectrometry-Based Protein Footprinting for Higher-Order Structure Analysis: Fundamentals and Applications
TL;DR: A summary of the history, descriptions, principles, mechanisms, and applications of covalent labeling approaches in protein footprinting is presented, which combine to constitute a problem-solving toolbox that enables mass spectrometry as a valuable tool for HOS elucidation.
210
Advances in Hydrogen/Deuterium Exchange Mass Spectrometry and the Pursuit of Challenging Biological Systems.
TL;DR: A comprehensive overview of solutions phase hydrogen/deuterium exchange (HDX) coupled with mass spectrometry (MS) can be found in this article, which summarizes the fundamental principles, basic methodology, strengths and weaknesses, and established applications of HDX-MS while highlighting new developments and applications.
182
Accessing the reproducibility and specificity of pepsin and other aspartic proteases
TL;DR: It was found that the number of reproducible peptides produced during pepsin digestion becomes constant above 5-6 replicate digestions, and a new aspartic protease from the stomach of the rice field eel was investigated and compared digestion efficiency and specificity to porcine pepin and aspergillopepsin.
139
Electron Transfer Dissociation Facilitates the Measurement of Deuterium-Incorporation into Selectively Labeled Peptides with Single Residue Resolution
Martin Zehl,Kasper D. Rand,Ole N. Jensen,Thomas J. D. Jørgensen +3 more
- 01 Jan 2008
TL;DR: In this paper, a 3D-quadrupole ion trap was used to measure the incorporation of deuterium into proteins and peptides, and it was shown that electron transfer dissociation in the trap retains the site-specific solution-phase incorporation pattern.
127
Establishment of Proximity-Dependent Biotinylation Approaches in Different Plant Model Systems.
Deepanksha Arora,Nikolaj B. Abel,Chen Liu,Petra Van Damme,Klaas Yperman,Dominique Eeckhout,Lam Dai Vu,Jie Wang,Anna Tornkvist,Francis Impens,Barbara Korbei,Jelle Van Leene,Alain Goossens,Geert De Jaeger,Thomas Ott,Panagiotis N. Moschou,Panagiotis N. Moschou,Panagiotis N. Moschou,Daniël Van Damme +18 more
TL;DR: It is shown that TurboID is the most promiscuous variant in several plant model systems and protocols that combine mass spectrometry-based analysis with harsh extraction and washing conditions are established, providing initial evidence that the approach has the potential to suggest structural information of protein complexes.
107
References
Determination of amide hydrogen exchange by mass spectrometry: A new tool for protein structure elucidation
Zhongqi Zhang,David L. Smith +1 more
TL;DR: Results of this investigation indicate that the combination of protein fragmentation and HPLC‐FABMS is relatively free of constraints associated with other analytical methods used for this purpose and may be a general method for determining hydrogen exchange rates in specific segments of proteins.
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Hydrogen exchange mass spectrometry for the analysis of protein dynamics.
Thomas E. Wales,John R. Engen +1 more
TL;DR: The general principles of the hydrogen exchange coupled to mass spectrometry method are summarized, the latest variations on the experimental protocol that probe different types of protein movements are discussed, and other recent work and improvements in the field are reviewed.
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Semi-automated data processing of hydrogen exchange mass spectra using HX-Express
TL;DR: A Microsoft Excel utility, HX-Express, that significantly accelerates the analysis of hydrogen exchange mass spectrometry data is described and provides and preserves visual and numeric displays of the analysis process for quality control.
274
H/D Exchange and Mass Spectrometry in the Studies of Protein Conformation and Dynamics: Is There a Need for a Top-Down Approach?
TL;DR: Hydrogen/deuterium exchange (HDX) combined with mass spectrometry (MS) detection has matured in recent years to become a powerful tool in structural biology and biophysics.
High resolution, high-throughput amide deuterium exchange-mass spectrometry (DXMS) determination of protein binding site structure and dynamics: utility in pharmaceutical design.
Virgil L. Woods,Yoshitomo Hamuro +1 more
TL;DR: An overview of DXMS technology is presented and some of the benefits it will provide in drug discovery and basic proteomics research are highlighted, allowing effective in situ study of integral membrane protein receptors.
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