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hot5-4 / wildtype, FAT-switch S-nitrosoproteome

S-nitrosylation in Arabidopsis thaliana

3163 modifications in 3159 peptides, found in 4766 proteins

Experiment Details

Exp 169


Experimental Setup
Tissue10-day-old seedlings
ConditionControl conditions, genotype effect
PTM EnrichmentEnrichment by nanographite fluoride (nGF), thiols labeled TFIA
MS InstrumentOrbitrap Fusion
MS/MS Search Parameters
Protein DatabaseTAIR10
Decoy StrategyTarget-decoy
FDR Threshold0.01
Search Algorithm(s)Proteome Discoverer 2.2
Precursor Mass Tolerance10 ppm
ProteaseTrypsin
Variable ModificationsTFIA (C)
Carbamidomethyl (C)
Oxidation (M)
LabelsTMT6plex (K
N-term peptide)
Other Information
CommentsQuantitative data from Dataset S3 supplemented with other identified sites S3 and S2.


Publication Information

Qin et al., 2023

PubMed ID: 37277371

ProteomeXchange: PXD037504

Abstract

Nat Commun. 2023 Jun 5;14(1):3268. doi: 10.1038/s41467-023-39078-0.

FAT-switch-based quantitative S-nitrosoproteomics reveals a key role of GSNOR1 
in regulating ER functions.

Qin G(1)(2), Qu M(1)(3), Jia B(1), Wang W(4), Luo Z(5), Song CP(4), Tao 
WA(5)(6), Wang P(7).

Author information:
(1)Shanghai Center for Plant Stress Biology, CAS Center for Excellence in 
Molecular Plant Sciences, Chinese Academy of Sciences, 200032, Shanghai, China.
(2)Peking University Institute of Advanced Agricultural Sciences, Shandong 
Laboratory of Advanced Agricultural Sciences at Weifang, 261000, Weifang, 
Shandong, China.
(3)University of Chinese Academy of Sciences, Beijing, China.
(4)State Key Laboratory of Crop Stress Adaptation and Improvement, School of 
Life Sciences, Henan University, 475004, Kaifeng, China.
(5)Department of Biochemistry, Purdue University, West Lafayette, IN, 47907, 
USA.
(6)Department of Chemistry, Purdue University, West Lafayette, IN, 47907, USA.
(7)Institute of Advanced Biotechnology and School of Life Sciences, Southern 
University of Science and Technology, 518055, Shenzhen, China. 
wangpc@sustech.edu.cn.

Reversible protein S-nitrosylation regulates a wide range of biological 
functions and physiological activities in plants. However, it is challenging to 
quantitively determine the S-nitrosylation targets and dynamics in vivo. In this 
study, we develop a highly sensitive and efficient fluorous affinity tag-switch 
(FAT-switch) chemical proteomics approach for S-nitrosylation peptide enrichment 
and detection. We quantitatively compare the global S-nitrosylation profiles in 
wild-type Arabidopsis and gsnor1/hot5/par2 mutant using this approach, and 
identify 2,121 S-nitrosylation peptides in 1,595 protein groups, including many 
previously unrevealed S-nitrosylated proteins. These are 408 S-nitrosylated 
sites in 360 protein groups showing an accumulation in hot5-4 mutant when 
compared to wild type. Biochemical and genetic validation reveal that 
S-nitrosylation at Cys337 in ER OXIDOREDUCTASE 1 (ERO1) causes the rearrangement 
of disulfide, resulting in enhanced ERO1 activity. This study offers a powerful 
and applicable tool for S-nitrosylation research, which provides valuable 
resources for studies on S-nitrosylation-regulated ER functions in plants.

© 2023. The Author(s).

DOI: 10.1038/s41467-023-39078-0
PMCID: PMC10241878
PMID: 37277371 [Indexed for MEDLINE]

Conflict of interest statement: The authors declare no competing interests.