Protein-protein interacting surfaces are usually large and intricate, making the rational design of small mimetics of these interfaces a daunting problem. On the basis of a structural similarity between the CDR2-like loop of CD4 and the -hairpin region of a short scorpion toxin, scyllatoxin, we transferred the side chains of nine residues of CD4, central in the binding to HIV-1 envelope glycoprotein (gp120), to a structurally homologous region of the scorpion toxin scaffold. In competition experiments, the resulting 27-amino acid miniprotein inhibited binding of CD4 to gp120 with a 40 M IC50. Structural analysis by NMR showed that both the backbone of the chimeric -hairpin and the introduced side chains adopted conformations similar to those of the parent CD4. Systematic single mutations suggested that most CD4 residues from the CDR2-like loop were reproduced in the miniprotein, including the critical Phe-43. The structural and functional analysis performed suggested five additional mutations that, once incorporated in the miniprotein, increased its affinity for gp120 by 100-fold to an IC50 of 0.1-1.0 M, depending on viral strains. The resulting mini-CD4 inhibited infection of CD4 ؉ cells by different virus isolates. Thus, core regions of large protein-protein interfaces can be reproduced in miniprotein scaffolds, offering possibilities for the development of inhibitors of protein-protein interactions that may represent useful tools in biology and in drug discovery. T he interaction of the gp120 envelope glycoprotein of HIV-1 with CD4 represents the initial step of virus entry into its target cells (1, 2) and triggers gp120 conformational changes that increase binding affinity for CCR5 (3, 4), the chemokine receptor used as coreceptor by most HIV-1 primary isolates (5, 6). X-ray structure analysis (7) of gp120 in complex with CD4 and the Fab of a neutralizing monoclonal antibody has revealed that CD4 binds to a large (800-Å 2 ) depression on gp120 by using a 742-Å 2 surface involving 22 residues in the span of amino acids 25-64 of the CD4 D1 domain and centered on the CDR2-like 36-47 loop (Fig. 1A). Phe-43, the side chain of which protrudes from the 36-47 loop and plugs the entrance of a deep cavity in gp120, Arg-59 (at the end of strand D), which makes multiple contacts with gp120, and strand C'', which interacts with strand 15 of gp120 in a -sheet alignment, are critical elements in the CD4 interface (7). The involvement of these CD4 structural elements in gp120 binding is in agreement with previous mutational analyses that identified most residues of CDR2-like loop as important recognition elements (8-12).The large size and complexity of the CD4 surface interacting with gp120 (7) explains the difficulties encountered in deriving gp120 ligands based on CD4 structure that could effectively block virus entry. Peptides derived from the envelope glycoprotein gp41 (13) have been shown to trap gp41 in a fusionnoncompetent conformation after gp120 has interacted with cellular receptors (14), thereby preventing in...
Helical coiled-coils and bundles are some of the most common structural motifs found in proteins. Design and synthesis of a-helical motifs may provide interesting scaffolds that can be useful as host structures to display functional sites, thus allowing the engineering of novel functional miniproteins. We have synthesized a 38-amino acid peptide, a 2 p8, encompassing the a-helical hairpin present in the structure of p8MTCP1 , as an a-helical scaffold particularly promising for its stability and permissiveness of sequence mutations. The three-dimensional structure of this peptide has been solved using homonuclear two-dimensional NMR techniques at 600 MHz. After sequence specific assignment, a total of 285 distance and 29 dihedral restraints were collected. The solution structure of a 2 p8 is presented as a set of 30 DIANA structures, further refined by restrained molecular dynamics, using simulated annealing protocol with the AMBER force field. The RMSD values for the backbone and all heavy atoms are 0.65 6 0.25 and 1.51 6 0.21 Å, respectively. Excised from its protein context, the a-hairpin keeps its native structure: an a-helical coiled-coil, similar to that found in superhelical structures, with two helices spanning residues 4-16 and 25-36, and linked by a short loop. This motif is stabilized by two interhelical disulfide bridges and several hydrophobic interactions at the helix interface, leaving most of its solvent-exposed surface available for mutation. This a-helical hairpin, easily amenable to synthetic chemistry and biological expression system, may represent a stable and versatile scaffold to display new functional sites and peptide libraries.
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