Skip to main content

A Method for Analysis of Nitrotyrosine-Containing Proteins by Immunoblotting Coupled with Mass Spectrometry

  • Protocol
  • First Online:
Mitochondrial Medicine

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2276))

Abstract

Nitrotyrosine formation is caused by presence of reactive oxygen and nitrogen species. Nitration is a very selective process leading to specific modification of only a few tyrosines in protein molecule. 2D electrophoresis and western blotting techniques coupled with mass spectrometry are common methods used in analysis of proteome. Here we describe protocol for analysis of peroxynitrite-induced protein nitration in isolated mitochondria. Mitochondrial proteins are separated by 2D electrophoresis and transferred to nitrocellulose membrane. Membranes are then incubated with antibodies against nitrotyrosine. Positive spots are compared with corresponding Coomassie-stained gels, and protein nitration is confirmed with mass spectrometry techniques.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Protocol
USD 49.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 99.00
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 129.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book
USD 199.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

References

  1. Abello N, Kerstjens HAM, Postma DS et al (2009) Protein tyrosine nitration: selectivity, physicochemical and biological consequences, denitration, and proteomics methods for the identification of tyrosine-nitrated proteins. J Proteome Res 8(7):3222–3238. https://doi.org/10.1021/pr900039c

    Article  CAS  PubMed  Google Scholar 

  2. Ischiropoulos J (2003) Biological selectivity and functional aspects of protein tyrosine nitration. Biochem Biophys Res Commun 305:776–783. https://doi.org/10.1016/S0006-291X(03)00814-3

    Article  CAS  PubMed  Google Scholar 

  3. Radi R (2013) Protein tyrosine nitration: biochemical mechanisms and structural basis of functional effects. Acc Chem Res 46(2):550–559. https://doi.org/10.1021/ar300234c

    Article  CAS  PubMed  Google Scholar 

  4. Pfeiffer S, Mayer B, Hemmens B (1999) Nitric oxide:chemical puzzles posed by a biological messenger. Angew Chem Int 38:1714–1731. https://doi.org/10.1002/(SICI)1521-3773(19990614)38:12<1714::AID-ANIE1714>3.0.CO;2-3

    Article  Google Scholar 

  5. Szabó C, Ischiropoulos H, Radi R (2007) Peroxynitrite:biochemistry, pathophysiology and development of therapeutics. Nat Rev Drug Discov 6(8):662–680. https://doi.org/10.1038/nrd2222

    Article  CAS  PubMed  Google Scholar 

  6. Weidinger A, Kozlov AV (2015) Biological activities of reactive oxygen and nitrogen species: oxidative stress versus signal transduction. Biomolecules 5(2):472–484. https://doi.org/10.3390/biom5020472

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  7. Brugiere S, Kowalski S, Ferro M et al (2004) The hydrophobic proteome of mitochondrial membranes from Arabidopsis cell suspensions. Phytochemistry 65(12):1693–1707. https://doi.org/10.1016/j.phytochem.2004.03.028

    Article  CAS  PubMed  Google Scholar 

  8. Bartesaghi S, Ferrer-Sueta G, Peluffo G et al (2007) Protein tyrosine nitration in hydrophilic and hydrophobic environments. Amino Acids 32(4):501–515. https://doi.org/10.1007/s00726-006-0425-8

    Article  CAS  PubMed  Google Scholar 

  9. Kohutiar M, Ivica J, Vytášek R et al (2016) Comparison of the effects of tert-butyl hydroperoxide and peroxynitrite on the oxidative damage to isolated beef heart mitochondria. Physiol Res 65(4):617–626

    Article  CAS  Google Scholar 

  10. Kohutiar M, Eckhardt A, Mikšík A et al (2018) Proteomic analysis of peroxynitrite-induced protein nitration in isolated beef heart mitochondria. Physiol Res 67:239–250. https://doi.org/10.33549/physiolres.933608

    Article  CAS  PubMed  Google Scholar 

  11. Haas DW, Elliott WB (1963) Oxidative phosphorylation and respiratory control in digitonin fragments of beef heart mitochondria. J Biol Chem 238:1132–1136

    Article  CAS  Google Scholar 

  12. Rabilloud T (2008) Mitochondrial proteomics: analysis of a whole mitochondrial extract with two-dimensional electrophoresis. Methods Mol Biol 432:83–100. https://doi.org/10.1007/978-1-59745-028-7_6

    Article  CAS  PubMed  Google Scholar 

  13. Westermeier R, Naven T (2002) Proteomics in practice: a laboratory manual of proteome analysis. Wiley-VCH, Weinheim

    Book  Google Scholar 

  14. Shevchenko A, Tomas H, Havliš J et al (2006) In-gel digestion for mass spectrometric characterization of proteins and proteomes. Nat Protoc 1:2856–2860. https://doi.org/10.1038/nprot.2006.468

    Article  CAS  PubMed  Google Scholar 

  15. The UniProt Consortium (2016) UniProt: the universal protein knowledgebase. Nucleic Acids Res 45:D158–D169. https://doi.org/10.1093/nar/gkw1099

    Article  CAS  Google Scholar 

  16. Fišárková B, Vytášek R, Míková D et al (2004) Hyperoxia attenuated nitrotyrosine concentration in the lung tissue of rats with experimental pneumonia. Physiol Res 53(5):487–492

    PubMed  Google Scholar 

  17. Herget J, Wilhelm J, Novotná J et al (2000) A possible role of the oxidant tissue injury in the development of hypoxic pulmonary hypertension. Physiol Res 49(5):493–501

    CAS  PubMed  Google Scholar 

  18. Wilhelm J, Vytášek R, Uhlík J et al (2016) Oxidative stress in the developing rat brain due to production of reactive oxygen and nitrogen species. Oxid Med Cell Longev 2016:5057610. https://doi.org/10.1155/2016/5057610

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  19. Zámečník J, Vytášek R, Vencovský J et al (2011) Immunolocalization of protein-bound 3-nitrotyrosine in inflammatory myopathies. Cesk Patol 47(2):62–65

    PubMed  Google Scholar 

  20. Blum H, Beier H, Gross HJ (1987) Improved silver staining of plant proteins, RNA and DNA in polyacrylamide gels. Electrophoresis 8(2):93–99. https://doi.org/10.1002/elps.1150080203

    Article  CAS  Google Scholar 

  21. Eckhardt A, Jágr M, Pataridis S et al (2014) Proteomic analysis of human tooth pulp: proteomics of human tooth. J Endod 40(12):1961–1966. https://doi.org/10.1016/j.joen.2014.07.001

    Article  PubMed  Google Scholar 

  22. Mascot search engine: protein identification software for mass spec data. http://www.matrixscience.com/. Accessed 16 Aug 2016.

  23. Rappsilber J, Mann M, Ishihama Y (2007) Protocol for micro-purification, enrichment, pre-fractionation and storage of peptides for proteomics using StageTips. Nat Protoc 2(8):1896–1906

    Article  CAS  Google Scholar 

Download references

Acknowledgments

This work was supported by grant of GACR No. P303/11/0298 and GACR No. 15-01948S.

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Matej Kohutiar .

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2021 Springer Science+Business Media, LLC, part of Springer Nature

About this protocol

Check for updates. Verify currency and authenticity via CrossMark

Cite this protocol

Kohutiar, M., Eckhardt, A. (2021). A Method for Analysis of Nitrotyrosine-Containing Proteins by Immunoblotting Coupled with Mass Spectrometry. In: Weissig, V., Edeas, M. (eds) Mitochondrial Medicine . Methods in Molecular Biology, vol 2276. Springer, New York, NY. https://doi.org/10.1007/978-1-0716-1266-8_28

Download citation

  • DOI: https://doi.org/10.1007/978-1-0716-1266-8_28

  • Published:

  • Publisher Name: Springer, New York, NY

  • Print ISBN: 978-1-0716-1265-1

  • Online ISBN: 978-1-0716-1266-8

  • eBook Packages: Springer Protocols

Publish with us

Policies and ethics