New binding specificities derived from Min-23, a small cystine-stabilized peptidic scaffold

Biochemistry. 2005 May 17;44(19):7143-55. doi: 10.1021/bi0481592.

Abstract

The randomization of both internal and surface residues in small protein domains followed by selection from a display library is emerging as a powerful strategy to obtain novel binding specificities. Small and stable scaffold motifs observed in disulfide-rich proteins are attractive because they are small, stable, and accessible to chemical synthesis. The elementary structural motif found in the squash trypsin inhibitor EETI-II (Ecballium elaterium trypsin inhibitor) is the cystine stabilized beta-sheet (CSB) motif, found in nearly 50% of all known small disulfide-rich protein families. We have used Min-23, a short 23-residue peptide containing the CSB motif and shown to be a stable autonomous folding unit and one of the smallest scaffolds described to date, as a scaffold for selection of new binding ligands. We demonstrate that the core CSB motif in Min-23 is permissive to loop insertion, using peptide epitopes from hemagglutinin (HA) and Gla-protein (E). A phage library of more than 10(8) different clones has been constructed by insertion of a randomized sequence on a beta-turn of the Min-23 peptide. The selection of this library on a variety of 7 different targets allowed the isolation of 21 new specific binders, confirming the potential of Min-23 as a scaffold for the development of new ligands. The derived library is able to provide a wide range of novel compounds with possible applications in various biological and pharmaceutical areas.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Motifs / genetics
  • Amino Acid Sequence
  • Animals
  • Antigens, Protozoan / genetics
  • Binding Sites / genetics
  • Cloning, Molecular
  • Coliphages / genetics
  • Cucurbitaceae
  • Cystine / chemistry*
  • Disulfides / chemistry
  • Escherichia coli Proteins / genetics
  • Genetic Vectors
  • Hemagglutinin Glycoproteins, Influenza Virus / genetics
  • Humans
  • Membrane Proteins / genetics
  • Models, Molecular
  • Molecular Sequence Data
  • Peptide Fragments / biosynthesis
  • Peptide Fragments / chemistry*
  • Peptide Fragments / genetics
  • Peptide Library
  • Periplasmic Binding Proteins / genetics
  • Plant Proteins / chemistry*
  • Plant Proteins / genetics
  • Plant Proteins / metabolism*
  • Protein Structure, Secondary / genetics
  • Protozoan Proteins / genetics
  • Recombinant Fusion Proteins / biosynthesis
  • Recombinant Fusion Proteins / chemistry
  • Recombinant Fusion Proteins / genetics
  • Surface Plasmon Resonance

Substances

  • Antigens, Protozoan
  • Disulfides
  • Escherichia coli Proteins
  • Hemagglutinin Glycoproteins, Influenza Virus
  • MalE protein, E coli
  • Membrane Proteins
  • Peptide Fragments
  • Peptide Library
  • Periplasmic Binding Proteins
  • Plant Proteins
  • Protozoan Proteins
  • Recombinant Fusion Proteins
  • apical membrane antigen I, Plasmodium
  • trypsin inhibitor EETI II protein, plant
  • Cystine