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Dynamic combinatorial libraries of artificial repeat proteins.

Margarita Eisenberg1, Inbal Shumacher, Rivka Cohen-Luria

  • 1Department of Chemistry, Ben Gurion University of the Negev, Beer Sheva 84105, Israel.

Bioorganic & Medicinal Chemistry
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Researchers developed a new chemical method to create libraries of repeat proteins, which can be rapidly screened for binding to target molecules like Hsp90 and Hsp70. This offers a faster way to discover novel protein binders as alternatives to antibodies.

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Area of Science:

  • Biochemistry
  • Molecular Biology
  • Protein Engineering

Background:

  • Repeat proteins are crucial for molecular recognition in cellular systems.
  • De novo designed repeat proteins show potential as universal binders, offering an alternative to antibodies.
  • Existing methods for producing and screening repeat proteins are often time-consuming and demanding.

Purpose of the Study:

  • To develop a novel, rapid chemical methodology for producing and screening libraries of repeat proteins.
  • To investigate the use of dynamic combinatorial libraries (DCLs) for generating repeat proteins with variable repeat units.
  • To identify new binders for biologically relevant ligands using this novel screening approach.

Main Methods:

  • Total synthesis of a consensus-based three-repeat tetratricopeptide (TPR) protein.
  • Design and preparation of novel dynamic combinatorial libraries (DCLs).
  • Equilibration of DCL building blocks in the presence of ligands (Hsp90, Hsp70) to form TPR proteins.
  • Parallel screening of ligand binding for library members.

Main Results:

  • A novel chemical methodology was established for producing small libraries of repeat proteins.
  • Dynamic combinatorial libraries (DCLs) facilitated the formation of TPR proteins with up to eight repeating units.
  • Ligand-induced oligomerization of building blocks led to the formation of proteins with larger recognition surfaces.
  • The method enables simultaneous screening of protein mixtures with variable binding surfaces.

Conclusions:

  • This work presents a simple, rapid tool for simultaneous screening of protein mixtures and identifying new binders.
  • The DCL approach overcomes limitations of traditional synthesis for producing proteins with variable repeat numbers.
  • The findings support the potential of de novo designed repeat proteins as practical alternatives to antibodies for molecular recognition.