6L8L image
Deposition Date 2019-11-06
Release Date 2020-11-11
Last Version Date 2023-11-22
Entry Detail
PDB ID:
6L8L
Keywords:
Title:
C-Src in complex with ibrutinib
Biological Source:
Source Organism:
Gallus gallus (Taxon ID: 9031)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.89 Å
R-Value Free:
0.28
R-Value Work:
0.23
R-Value Observed:
0.24
Space Group:
P 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Proto-oncogene tyrosine-protein kinase Src
Gene (Uniprot):SRC
Chain IDs:A, B, C, D
Chain Length:286
Number of Molecules:4
Biological Source:Gallus gallus
Ligand Molecules
Primary Citation
Characterization of ibrutinib as a non-covalent inhibitor of SRC-family kinases.
Bioorg.Med.Chem.Lett. 34 127757 127757 (2020)
PMID: 33359446 DOI: 10.1016/j.bmcl.2020.127757

Abstact

Ibrutinib is a BTK-targeted irreversible inhibitor. In this study, we demonstrate that ibrutinib potently inhibits SRC activity in a non-covalent manner via mass spectrometry and crystallography. The S345C mutation renders SRC to bind covalently with ibrutinib, and restores the potency of ibrutinib against the gatekeeper mutant. The co-crystal structure of ibrutinib/SRC shows Ser345 of SRC did not form covalent bond with ibrutinib, leading to a decrease of potency and loss of the ability to overcome the gatekeeper mutation of SRC. The X-ray crystallographic studies also provide structural insight into why ibrutinib behaves differently against gatekeeper mutants of different kinases.

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Primary Citation of related structures