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De-coding and re-coding RNA recognition by PUF and PPR repeat proteins.

Traci M Tanaka Hall1

  • 1Epigenetics and Stem Cell Biology Laboratory, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, NC 27709, USA.

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|February 15, 2016
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Summary
This summary is machine-generated.

Protein repeat proteins like PUF and PPR bind single-stranded RNA. Researchers are decoding and recoding their RNA recognition for engineered applications, with success in recoding PPR protein specificity.

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Area of Science:

  • Molecular Biology
  • Structural Biology
  • Protein Engineering

Background:

  • Two families of alpha-helical repeat proteins, PUF ( Pumilio factor) and PPR (Pentatricopeptide repeat), recognize single-stranded RNA.
  • These proteins are promising scaffolds for engineering novel RNA-binding domains.

Purpose of the Study:

  • To advance the understanding of natural PUF protein RNA recognition (de-coding).
  • To explore the engineering of specificity (re-coding) in both PUF and PPR protein families.
  • To investigate the challenges and successes in re-coding PPR protein specificity.

Main Methods:

  • Analysis of crystal structures of PUF proteins complexed with RNA.
  • Investigating natural PUF protein recognition mechanisms.
  • Developing and applying consensus recognition codes for PPR proteins.

Main Results:

  • A modular protein-RNA recognition code is evident in PUF proteins.
  • Progress has been made in understanding and engineering PUF protein specificity.
  • Recoding PPR protein specificity using a consensus recognition code has been achieved, despite challenges posed by degenerate recognition motifs.

Conclusions:

  • PUF and PPR proteins represent valuable platforms for designing RNA-binding domains.
  • Understanding and engineering these protein families' RNA recognition capabilities is advancing.
  • Successful recoding of PPR protein specificity demonstrates the potential for tailored RNA-binding applications.