Abstract Structural determination of target-bound conformations of peptides is of primary importance for the optimization of peptide ligands and peptideā??mimetic design. In the structural determination of weakly binding ligands, transferred nuclear Overhauser effect (TrNOE) methods have been widely used. However, not many distance constraints can be obtained from small peptide ligands by TrNOE, especially for peptides bound to a target molecule in an extended conformation. Therefore, for precise structural determination of weakly binding peptides, additional structural constraints are required. Here, we present a strategy to systematically introduce dihedral angle constraints obtained from multiple transferred cross-correlated relaxation experiments and demonstrate precise structures of weakly binding peptides. As a result, we could determine the bioactive conformations of phage-derived peptide ligands and define their core binding motifs.
- Content Type Journal Article
- DOI 10.1007/s10858-010-9402-3
- Authors
- Yumiko Mizukoshi, National Institute of Advanced Industrial Science and Technology (AIST) Biomedicinal Information Research Center (BIRC) Aomi 2-41-6, Koto-ku Tokyo 135-0064 Japan
- Michiko Nagasu, National Institute of Advanced Industrial Science and Technology (AIST) Biomedicinal Information Research Center (BIRC) Aomi 2-41-6, Koto-ku Tokyo 135-0064 Japan
- Ichio Shimada, National Institute of Advanced Industrial Science and Technology (AIST) Biomedicinal Information Research Center (BIRC) Aomi 2-41-6, Koto-ku Tokyo 135-0064 Japan
- Hideo Takahashi, National Institute of Advanced Industrial Science and Technology (AIST) Biomedicinal Information Research Center (BIRC) Aomi 2-41-6, Koto-ku Tokyo 135-0064 Japan
Source: Journal of Biomolecular NMR