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Related Concept Videos

Mass Spectrometry: Complex Analysis01:21

Mass Spectrometry: Complex Analysis

660
Mass spectrometry is an important technique for the identification of pure compounds. However, it has some limitations for the analysis of complex mixtures, often due to excessive fragmentation making the spectrum too complicated to decipher. Mass spectrometry can be combined with suitable separation methods in sequence, forming hyphenated methods, which are useful in the analysis of complex mixtures.
GC–MS is a powerful hyphenated method commonly used in forensics and environmental...
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Tandem Mass Spectrometry01:21

Tandem Mass Spectrometry

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Tandem mass spectrometry is a technique that uses multiple mass analyzers in series to obtain a higher selectivity and signal-to-noise ratio for the analyte. Instruments with multiple analyzers separated by an interaction cell enable secondary fragmentation and selected study of the fragment ions.
Secondary fragmentations occur in the interaction cell and can be induced by various factors. Fragmentation induced by collision with inert gases, such as N2, Ar, He, etc., is called collision-induced...
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Related Experiment Video

Updated: May 17, 2025

A Hydrogen-Deuterium Exchange Mass Spectrometry HDX-MS Platform for Investigating Peptide Biosynthetic Enzymes
11:32

A Hydrogen-Deuterium Exchange Mass Spectrometry HDX-MS Platform for Investigating Peptide Biosynthetic Enzymes

Published on: May 4, 2020

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A framework for automated multimodal HDX-MS analysis.

Lisa M Tuttle1, Rachel E Klevit1, Miklos Guttman2

  • 1Department of Biochemistry, University of Washington, Seattle, WA 98195, USA.

Biorxiv : the Preprint Server for Biology
|March 31, 2025
PubMed
Summary
This summary is machine-generated.

We developed pyHXExpress for automated analysis of HDX-MS data, enabling detection of protein conformational heterogeneity and dynamics. This tool helps characterize protein systems and disease mutations.

Keywords:
HDX-MSbimodaldeuterium exchangemass spectrometrymultimodalsHSPs

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Time-resolved ElectroSpray Ionization Hydrogen-deuterium Exchange Mass Spectrometry for Studying Protein Structure and Dynamics
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Time-resolved ElectroSpray Ionization Hydrogen-deuterium Exchange Mass Spectrometry for Studying Protein Structure and Dynamics
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Area of Science:

  • Biochemistry
  • Structural Biology
  • Computational Biology

Background:

  • Hydrogen-Deuterium Exchange Mass Spectrometry (HDX-MS) is crucial for studying protein dynamics.
  • Analyzing complex HDX-MS data, especially for multimodality, remains challenging.
  • High-throughput and automated analysis are needed for comprehensive protein system characterization.

Purpose of the Study:

  • To present pyHXExpress, a customizable codebase for automated high-throughput multimodal analysis of HDX-MS spectra.
  • To establish a framework for determining protein multimodality across entire systems.
  • To demonstrate the application of this framework for characterizing protein dynamics and conformational heterogeneity.

Main Methods:

  • Development of pyHXExpress, a Python-based codebase for HDX-MS data analysis.
  • Validation of the workflow using a synthetic test dataset to assess fitting algorithms and statistical outputs.
  • Application of a rigorous framework for evaluating multimodal fits across peptide spectra from entire protein datasets.

Main Results:

  • Successful validation of the pyHXExpress workflow and its fitting algorithms.
  • Establishment of a robust framework for identifying and evaluating multimodality in protein systems.
  • Demonstration of detecting conformational heterogeneity and characterizing dynamics in HSPB5 and its disease mutants.

Conclusions:

  • pyHXExpress provides an automated and customizable solution for high-throughput HDX-MS data analysis.
  • The developed framework enables rigorous determination of multimodality and characterization of protein dynamics.
  • This approach is valuable for studying protein systems, including disease-related conformational changes.