PDBsum entry 4mnw

Hydrolase/hydrolase inhibitor

PDB id: 4mnw

Contents

Protein chains

245 a.a.

14 a.a.

Ligands

SO4 ×2

GOL ×5

ACT

ZBR

Waters ×169

References listed in PDB file

Key reference

• Title: Peptide ligands stabilized by small molecules.
• Authors: S.Chen, D.Bertoldo, A.Angelini, F.Pojer, C.Heinis.
• Ref.: Angew Chem Int Ed Engl, 2014, 53, 1602-1606. [DOI no: 10.1002/anie.201309459]
• PubMed id: 24453110

Abstract

Bicyclic peptides generated through directed evolution by using phage display offer an attractive ligand format for the development of therapeutics. Being nearly 100-fold smaller than antibodies, they promise advantages such as access to chemical synthesis, efficient diffusion into tissues, and needle-free application. However, unlike antibodies, they do not have a folded structure in solution and thus bind less well. We developed bicyclic peptides with hydrophilic chemical structures at their center to promote noncovalent intramolecular interactions, thereby stabilizing the peptide conformation. The sequences of the peptides isolated by phage display from large combinatorial libraries were strongly influenced by the type of small molecule used in the screen, thus suggesting that the peptides fold around the small molecules. X-ray structure analysis revealed that the small molecules indeed formed hydrogen bonds with the peptides. These noncovalent interactions stabilize the peptide-protein complexes and contribute to the high binding affinity.