BioID Analysis of Actin-Binding Proteins

  • Protocol
  • First Online:
Cerebral Cortex Development

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2794))

  • 327 Accesses

Abstract

Proteins often exist and function as part of higher-order complexes or networks. A challenge is to identify the universe of proximal and interacting partners for a given protein. We describe how the high-activity promiscuous biotin ligase called TurboID is fused to the actin-binding peptide LifeAct to label by biotinylation proteins that bind, or are in close proximity, to actin. The rapid enzyme kinetics of TurboID allows the profiles of actin-binding proteins to be compared under different conditions, such as acute disruption of filamentous actin structures with cytochalasin D.

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

Access this chapter

Subscribe and save

Springer+ Basic
EUR 32.99 /Month
  • Get 10 units per month
  • Download Article/Chapter or Ebook
  • 1 Unit = 1 Article or 1 Chapter
  • Cancel anytime
Subscribe now

Buy Now

Protocol
USD 49.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 189.00
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Hardcover Book
USD 249.99
Price excludes VAT (USA)
  • Durable hardcover edition
  • Dispatched in 3 to 5 business days
  • Free ship** worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

References

  1. Pollard TD, Cooper JA (2009) Actin, a central player in cell shape and movement. Science 326:1208–1212

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  2. Lappalainen P, Kotila T, Jégou A, Romet-Lemonne G (2022) Biochemical and mechanical regulation of actin dynamics. Nat Rev Mol Cell Biol 23:836–852

    Article  CAS  PubMed  Google Scholar 

  3. El-Sibai M, Pertz O, Pang H et al (2008) RhoA/ROCK-mediated switching between Cdc42- and Rac1-dependent protrusion in MTLn3 carcinoma cells. Exp Cell Res 314:1540–1552

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  4. Weitzman M, Hahn KM (2014) Optogenetic approaches to cell migration and beyond. Curr Opin Cell Biol 30:112–120

    Article  CAS  PubMed  Google Scholar 

  5. Marston DJ, Anderson KL, Swift MF et al (2019) High Rac1 activity is functionally translated into cytosolic structures with unique nanoscale cytoskeletal architecture. Proc Natl Acad Sci USA 116:1267–1272

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  6. Zawistowski JS, Sabouri-Ghomi M, Danuser G et al (2013) A RhoC biosensor reveals differences in the activation kinetics of RhoA and RhoC in migrating cells. PLoS One 8:e79877

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  7. Berggård T, Linse S, James P (2007) Methods for the detection and analysis of protein–protein interactions. Proteomics 7:2833–2842

    Article  PubMed  Google Scholar 

  8. Phizicky EM, Fields S (1995) Protein-protein interactions: methods for detection and analysis. Microbiol Rev 59:94–123

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  9. Lin J-S, Lai E-M (2017) Protein-protein interactions: co-immunoprecipitation. Methods Mol Biol 1615:211–219

    Article  PubMed  Google Scholar 

  10. Shoemaker BA, Panchenko AR (2007) Deciphering protein-protein interactions. Part I. Experimental techniques and databases. PLoS Comput Biol 3:e42

    Article  PubMed  PubMed Central  Google Scholar 

  11. Matzinger M, Mechtler K (2021) Cleavable cross-linkers and mass spectrometry for the ultimate task of profiling protein-protein interaction networks in vivo. J Proteome Res 20:78–93

    Article  CAS  PubMed  Google Scholar 

  12. Sinz A (2017) Divide and conquer: cleavable cross-linkers to study protein conformation and protein-protein interactions. Anal Bioanal Chem 409:33–44

    Article  CAS  PubMed  Google Scholar 

  13. Agou F, Véron M (2015) In vivo protein cross-linking. Methods Mol Biol 1278:391–405

    Article  CAS  PubMed  Google Scholar 

  14. Riedl J, Crevenna AH, Kessenbrock K et al (2008) Lifeact: a versatile marker to visualize F-actin. Nat Methods 5:605–607

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  15. Belyy A, Merino F, Sitsel O, Raunser S (2020) Structure of the Lifeact-F-actin complex. PLoS Biol 18:e3000925

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  16. Roux KJ, Kim DI, Raida M, Burke B (2012) A promiscuous biotin ligase fusion protein identifies proximal and interacting proteins in mammalian cells. J Cell Biol 196:801–810

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  17. Feldman JL, Sanchez AD, Svinkina T et al (2018) Efficient proximity labeling in living cells and organisms with TurboID. Nat Biotechnol 36:880–887

    Article  PubMed  PubMed Central  Google Scholar 

Download references

Acknowledgments

This work was supported by funding to M.F.O. from the Canadian Institutes of Health Research (PJT-169125), Natural Sciences and Engineering Research Council of Canada (RGPIN-2020-05388), and Canada Research Chairs Program (950-231665).

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Michael F. Olson .

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2024 The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature

About this protocol

Check for updates. Verify currency and authenticity via CrossMark

Cite this protocol

Joo, E.E., Olson, M.F. (2024). BioID Analysis of Actin-Binding Proteins. In: Nagata, Ki. (eds) Cerebral Cortex Development. Methods in Molecular Biology, vol 2794. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-3810-1_9

Download citation

  • DOI: https://doi.org/10.1007/978-1-0716-3810-1_9

  • Published:

  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-0716-3809-5

  • Online ISBN: 978-1-0716-3810-1

  • eBook Packages: Springer Protocols

Publish with us

Policies and ethics

Navigation