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Tuning phenylalanine fluorination to assess aromatic contributions to protein function and stability in cells

Author

Listed:
  • Grace D. Galles

    (University of Iowa College of Medicine
    Oregon State University)

  • Daniel T. Infield

    (University of Iowa College of Medicine)

  • Colin J. Clark

    (University of Iowa College of Medicine)

  • Marcus L. Hemshorn

    (Oregon State University)

  • Shivani Manikandan

    (University of Iowa College of Medicine)

  • Frederico Fazan

    (University of Iowa College of Medicine)

  • Ali Rasouli

    (University of Illinois at Urbana-Champaign)

  • Emad Tajkhorshid

    (University of Illinois at Urbana-Champaign)

  • Jason D. Galpin

    (University of Iowa College of Medicine)

  • Richard B. Cooley

    (Oregon State University)

  • Ryan A. Mehl

    (Oregon State University)

  • Christopher A. Ahern

    (University of Iowa College of Medicine)

Abstract

The aromatic side-chains of phenylalanine, tyrosine, and tryptophan interact with their environments via both hydrophobic and electrostatic interactions. Determining the extent to which these contribute to protein function and stability is not possible with conventional mutagenesis. Serial fluorination of a given aromatic is a validated method in vitro and in silico to specifically alter electrostatic characteristics, but this approach is restricted to a select few experimental systems. Here, we report a group of pyrrolysine-based aminoacyl-tRNA synthetase/tRNA pairs (tRNA/RS pairs) that enable the site-specific encoding of a varied spectrum of fluorinated phenylalanine amino acids in E. coli and mammalian (HEK 293T) cells. By allowing the cross-kingdom expression of proteins bearing these unnatural amino acids at biochemical scale, these tools may potentially enable the study of biological mechanisms which utilize aromatic interactions in structural and cellular contexts.

Suggested Citation

  • Grace D. Galles & Daniel T. Infield & Colin J. Clark & Marcus L. Hemshorn & Shivani Manikandan & Frederico Fazan & Ali Rasouli & Emad Tajkhorshid & Jason D. Galpin & Richard B. Cooley & Ryan A. Mehl &, 2023. "Tuning phenylalanine fluorination to assess aromatic contributions to protein function and stability in cells," Nature Communications, Nature, vol. 14(1), pages 1-12, December.
    • Handle: RePEc:nat:natcom:v:14:y:2023:i:1:d:10.1038_s41467-022-35761-w
    DOI: 10.1038/s41467-022-35761-w
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    1. Yoshiaki Kise & Go Kasuya & Hiroyuki H. Okamoto & Daichi Yamanouchi & Kan Kobayashi & Tsukasa Kusakizako & Tomohiro Nishizawa & Koichi Nakajo & Osamu Nureki, 2021. "Structural basis of gating modulation of Kv4 channel complexes," Nature, Nature, vol. 599(7883), pages 158-164, November.
    2. Arvind Kumar & Sandip Basak & Shanlin Rao & Yvonne Gicheru & Megan L. Mayer & Mark S. P. Sansom & Sudha Chakrapani, 2020. "Mechanisms of activation and desensitization of full-length glycine receptor in lipid nanodiscs," Nature Communications, Nature, vol. 11(1), pages 1-14, December.
    3. Stephan A. Pless & Jason D. Galpin & Adam Frankel & Christopher A. Ahern, 2011. "Molecular basis for class Ib anti-arrhythmic inhibition of cardiac sodium channels," Nature Communications, Nature, vol. 2(1), pages 1-9, September.
    4. Jakob M. Silberberg & Robin A. Corey & Lisa Hielkema & Charlott Stock & Phillip J. Stansfeld & Cristina Paulino & Inga Hänelt, 2021. "Deciphering ion transport and ATPase coupling in the intersubunit tunnel of KdpFABC," Nature Communications, Nature, vol. 12(1), pages 1-12, December.
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