# Structural mass spectrometry techniques for characterisation of plant and algal proteins

**Authors:** Rhiannon Durant, Dušan Živković, Jani R. Bolla

PMC · DOI: 10.1111/tpj.70780 · The Plant Journal · 2026-03-14

## TL;DR

This paper reviews structural mass spectrometry techniques that help study plant and algal proteins, which are challenging to analyze using traditional methods.

## Contribution

The paper provides a comprehensive overview of structural mass spectrometry techniques tailored for plant and algal proteins, highlighting their advantages and recent applications.

## Key findings

- Structural mass spectrometry techniques like crosslinking and hydrogen–deuterium exchange are effective for analyzing plant proteins with intrinsic disorder.
- Recent case studies demonstrate the utility of these methods in understanding plant protein architecture and interactions.
- The review identifies areas where structural mass spectrometry could significantly advance plant and algal research.

## Abstract

Structural biology can offer valuable insights into the mechanisms and functions of key proteins within plant molecular and cellular systems. However, plant proteins present several specific challenges for structural analysis, including difficulties in expression and purification, significant intrinsic disorder, and extensive post‐translational modification. Structural mass spectrometry (MS) offers a complementary set of tools that can help overcome these obstacles and provide detailed structural and mechanistic information. In this review, we outline the principles and practical applications of the main structural mass spectrometry techniques, namely crosslinking, covalent labelling, hydrogen–deuterium exchange, and both intact (denaturing) and native MS. We also discuss recent case studies where structural MS has offered insight into the architecture, dynamics and interactions of proteins central to plant molecular and cell biology.

This review discusses the main structural mass spectrometry techniques and explains why they are especially effective for overcoming the specific challenges encountered in the structural biology of plant and algal proteins. It also showcases recent applications of structural mass spectrometry in plant and algal research and identifies areas where wider adoption of these methods could be particularly beneficial.

## Full-text entities

- **Genes:** RALF1 (rapid alkalinization factor 1) [NCBI Gene 839389] {aka ATRALF1, F22D16.10, F22D16_10, RALF-LIKE 1, RALFL1, RAPID ALKALINIZATION FACTOR 1}, RAP2.12 (uncharacterized protein) [NCBI Gene 841829] {aka T18A20.14, T18A20_14, related to AP2 12}, OEP80 (outer envelope protein of 80 kDa) [NCBI Gene 832082] {aka ARABIDOPSIS THALIANA OUTER ENVELOPE PROTEIN OF 80 KDA, ATOEP80, EMB213, EMBRYO DEFECTIVE 213, T29J13.40, T29J13_40}, SVP (K-box region and MADS-box transcription factor family protein) [NCBI Gene 816787] {aka AGAMOUS-like 22, AGL22, AT2G22550, F14M13.6, F14M13_6, FAQ1}, TIR (toll/interleukin-1 receptor-like protein) [NCBI Gene 843624] {aka AtTN10, F3N23.13, F3N23_13, TIR-nucleotide binding site family 10, TN10, toll/interleukin-1 receptor-like}, FER (Malectin/receptor-like protein kinase family protein) [NCBI Gene 824318] {aka FERONIA}, RSR4 (Aldolase-type TIM barrel family protein) [NCBI Gene 831738] {aka ARABIDOPSIS THALIANA PYRIDOXINE BIOSYNTHESIS 1.3, ATPDX1, ATPDX1.3, PDX1, PDX1.3, PYRIDOXINE BIOSYNTHESIS 1.3}, MAF1 (K-box region and MADS-box transcription factor family protein) [NCBI Gene 844042] {aka AGAMOUS-like 27, AGL27, FLM, FLOWERING LOCUS M, MADS AFFECTING FLOWERING 1}, AT4G31570 (nucleoporin) [NCBI Gene 829284] {aka F28M20.240, F28M20_240}, REP (Rab escort protein) [NCBI Gene 819832] {aka AthREP, F5E6.13, F5E6_13, Rab escort protein}, MOS7 (nuclear pore complex protein-like protein) [NCBI Gene 830452] {aka 7, EMB2789, EMBRYO DEFECTIVE 2789, MJJ3.8, MJJ3_8, MODIFIER OF SNC1}, HA2 (H[+]-ATPase 2) [NCBI Gene 829142] {aka AHA2, F9N11.40, F9N11_40, H(+)-ATPase 2, P-TYPE H(+)-ATPASE ISOFORM 2, PLASMA MEMBRANE PROTON ATPASE 2}, PsbC [NCBI Gene 2715609], PDX1.2 (pyridoxine biosynthesis 1.2) [NCBI Gene 820850] {aka A37, ARABIDOPSIS THALIANA PYRIDOXINE BIOSYNTHESIS 1.2, ATPDX1.2, pyridoxine biosynthesis 1.2}, RBE (C2H2 and C2HC zinc fingers superfamily protein) [NCBI Gene 830494] {aka RAB, RABBIT EARS}, TIR1 (F-box/RNI-like superfamily protein) [NCBI Gene 825473] {aka AtTIR1, TRANSPORT INHIBITOR RESPONSE 1}
- **Diseases:** BASED (MESH:D019292), MS (MESH:C536030), CID (MESH:D004213), hypoxia (MESH:D000860), PROTEIN (MESH:D011488), PEPTIDE (MESH:C565529)
- **Chemicals:** IAA (MESH:D007460), glycineamide (MESH:C018556), histidine (MESH:D006639), amines (MESH:D000588), aspartate (MESH:D001224), nucleotide (MESH:D009711), DEPC (MESH:D004047), ammonium acetate (MESH:C018824), water (MESH:D014867), lysine (MESH:D008239), GEE (MESH:C022010), Hydroxyl radicals (MESH:D017665), formaldehyde (MESH:D005557), cysteine (MESH:D003545), glutamate (MESH:D018698), H2O2 (MESH:D006861), salts (MESH:D012492), TMAO (MESH:C005855), EDC (MESH:C024565), acetic anhydride (MESH:C031800), gold (MESH:D006046), NaBH3CN (MESH:C009282), lipid (MESH:D008055), deuterium (MESH:D003903), UVPD (-), Carbenes (MESH:C030011), D2O (MESH:D017666), H (MESH:D006859), auxin (MESH:D007210)
- **Species:** Saccharomyces cerevisiae (baker's yeast, species) [taxon 4932], Escherichia coli (E. coli, species) [taxon 562], Rhodophyta (red algae, phylum) [taxon 2763], Spinacia oleracea (spinach, species) [taxon 3562], PX clade (clade) [taxon 569578], Oryza sativa (Asian cultivated rice, species) [taxon 4530], Chlamydomonas reinhardtii (species) [taxon 3055], Arabidopsis thaliana (mouse-ear cress, species) [taxon 3702]
- **Mutations:** D321N, aspartate to arginine, aspartate to alanine

## Full text

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## Figures

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## References

106 references — full list in the complete paper: https://tomesphere.com/paper/PMC12988405/full.md

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Source: https://tomesphere.com/paper/PMC12988405