6WJL image
Deposition Date 2020-04-14
Release Date 2021-04-21
Last Version Date 2024-10-30
Entry Detail
PDB ID:
6WJL
Title:
Crystal structure of Glypican-2 core protein in complex with D3 Fab
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Lama glama (Taxon ID: 9844)
Host Organism:
Method Details:
Experimental Method:
Resolution:
3.30 Å
R-Value Free:
0.31
R-Value Work:
0.27
R-Value Observed:
0.27
Space Group:
P 1 21 1
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Glypican-2
Gene (Uniprot):GPC2
Mutagens:S55T, S92T, S155T
Chain IDs:A (auth: G), E
Chain Length:482
Number of Molecules:2
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:D3 Fab Heavy chain
Chain IDs:B (auth: H), F
Chain Length:220
Number of Molecules:2
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:VHH domain
Chain IDs:C (auth: K), G (auth: I)
Chain Length:121
Number of Molecules:2
Biological Source:Lama glama
Polymer Type:polypeptide(L)
Molecule:D3 Fab Light Chain
Chain IDs:D (auth: L), H (auth: J)
Chain Length:214
Number of Molecules:2
Biological Source:Homo sapiens
Ligand Molecules
Primary Citation
A GPC2 antibody-drug conjugate is efficacious against neuroblastoma and small-cell lung cancer via binding a conformational epitope.
Cell Rep Med 2 100344 100344 (2021)
PMID: 34337560 DOI: 10.1016/j.xcrm.2021.100344

Abstact

Glypican 2 (GPC2) is a MYCN-regulated, differentially expressed cell-surface oncoprotein and target for immune-based therapies in neuroblastoma. Here, we build on GPC2's immunotherapeutic attributes by finding that it is also a highly expressed, MYCN-driven oncoprotein on small-cell lung cancers (SCLCs), with significantly enriched expression in both the SCLC and neuroblastoma stem cell compartment.By solving the crystal structure of the D3-GPC2-Fab/GPC2 complex at 3.3 Å resolution, we further illustrate that the GPC2-directed antibody-drug conjugate (ADC; D3-GPC2-PBD), that links a human GPC2 antibody (D3) to DNA-damaging pyrrolobenzodiazepine (PBD) dimers, binds a tumor-specific, conformation-dependent epitope of the core GPC2 extracellular domain. We then show that this ADC induces durable neuroblastoma and SCLC tumor regression via induction of DNA damage, apoptosis, and bystander cell killing, notably with no signs of ADC-induced in vivo toxicity. These studies provide preclinical data to support the clinical translation of ADCs targeting GPC2.

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Chemical

Disease

Primary Citation of related structures