9EZN

Canonical class 1 structure of the human cortactin SH3 domain in complex with WIP-derived peptide

Summary for 9EZN

• Entry DOI: 10.2210/pdb9ezn/pdb
• Related: 9EZO 9EZP
• NMR Information: BMRB: 51799
• Descriptor: cDNA FLJ34459 fis, clone HLUNG2002916, highly similar to SRC SUBSTRATE CORTACTIN, WAS/WASL-interacting protein family member 1 (2 entities in total)
• Functional Keywords: sh3 domain, cortactin, wasp-interacting protein (wip), cytoskeletal regulation, cortactin-wip complex, signaling protein
• Biological source: Homo sapiens (human); More
• Total number of polymer chains: 2
• Total formula weight: 8613.56

Authors

Sokolik, C.G.,Chill, J.H. (deposition date: 2024-04-13, release date: 2025-02-19, Last modification date: 2025-02-26)

Primary citation

Sokolik, C.G.,Chill, J.H.
A Triple-pose Complex Between an Extended WIP Motif and a C-terminal SH3 Domain Modulates Cortactin Activity.
J.Mol.Biol., 437:168984-168984, 2025

PubMed Abstract: The central domain of WASp-interacting protein (WIP) interacts with the cortactin SH3 domain through a previously undefined binding motif. This interaction affects extracellular matrix (ECM) degradation and the invasive phenotype of cells. Here, using NMR-based methods, we identify the major WIP epitope modulating this binding event as residues 168-183, an unexpectedly long segment uncharacteristic of SH3 peptidic ligands. A scanning mutagenesis analysis showed that peptide binding 'hotspots' are distributed throughout the binding sequence. To uncover the structural basis of WIP-cortactin recognition we utilized edited-filtered NOESY experiments to determine the structure of the intermediate-affinity SH3/peptide complex. Analysis of the NOESY pattern suggests that the peptide sequence dictates three interchanging binding modes, two oppositely oriented canonical poses involving N-terminal interactions, corresponding to class I and class II complexes, and a non-canonical pseudo-class II pose involving C-terminal interactions. The latter pose highlights the importance of the hydrophobic surface adjacent to the canonical binding grooves and accounts for the extended binding motif. Design of mutant peptides with increased affinity based on this multi-conformational complex demonstrates how these structural insights may impact design of improved inhibitors of the WIP-cortactin interaction with potential therapeutic applications.

PubMed: 39914658
DOI: 10.1016/j.jmb.2025.168984

Experimental method

SOLUTION NMR