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Updated: Jun 19, 2026

Analyzing Large Protein Complexes by Structural Mass Spectrometry

Analyzing Large Protein Complexes by Structural Mass Spectrometry

Published on: June 19, 2010

Resolving the composition of protein complexes using a MALDI LTQ Orbitrap.

Yang Luo¹, Tuo Li, Fang Yu

¹Department of Molecular Biology, Princeton University, Princeton, New Jersey, USA.

Journal of the American Society for Mass Spectrometry

|October 14, 2009

Summary

This summary is machine-generated.

The MALDI LTQ Orbitrap mass spectrometer accurately characterizes protein complexes. This technology offers high resolution, precision, and sub-femtomole sensitivity for biological studies.

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Analyzing Large Protein Complexes by Structural Mass Spectrometry

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Area of Science:

Proteomics
Mass Spectrometry
Biochemistry

Background:

Advancements in mass spectrometry drive biological research.
Orbitrap configurations offer high resolving power and accuracy.
Matrix-assisted laser desorption/ionization (MALDI) sources simplify spectra and aid sample retention.

Purpose of the Study:

Evaluate the performance of the MALDI LTQ Orbitrap for protein complex characterization.
Compare its capabilities with previous mass spectrometry instruments.
Assess resolution, accuracy, and sensitivity in analyzing protein assemblies.

Main Methods:

Utilized two well-characterized Saccharomyces cerevisiae protein complexes (Apl1 and Nup84).
Performed manual and automatic MS and MS/MS analyses.
Analyzed complex mixtures of singly-charged ions and a synthetic phosphorylated peptide.

Main Results:

Successfully resolved protein complex compositions with high confidence.
Demonstrated over four orders of magnitude dynamic range in resolving power.
Achieved sub-femtomole sensitivity for peptide detection.
Internal calibration improved mass accuracy to an average of 0.5 ppm.

Conclusions:

The MALDI LTQ Orbitrap is a powerful tool for characterizing protein complexes.
It provides enhanced confidence in protein identification compared to older technologies.
The instrument's sensitivity and accuracy are suitable for complex biological mixture analysis.