8R8D image
Deposition Date 2023-11-29
Release Date 2023-12-13
Last Version Date 2024-11-13
Entry Detail
PDB ID:
8R8D
Keywords:
Title:
Cryo-EM structure of coagulation factor beta-XIIa in complex with the garadacimab Fab fragment (symmetric dimer)
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.60 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:Coagulation factor XII
Gene (Uniprot):F12
Chain IDs:A (auth: B), F (auth: A)
Chain Length:247
Number of Molecules:2
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Garadacimab heavy chain variable region
Chain IDs:B (auth: E), D (auth: H)
Chain Length:234
Number of Molecules:2
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:Garadacimab light chain variable region
Chain IDs:C (auth: I), E (auth: L)
Chain Length:215
Number of Molecules:2
Biological Source:Homo sapiens
Primary Citation
Structural basis for the inhibition of beta FXIIa by garadacimab.
Structure 32 1705 ? (2024)
PMID: 39059382 DOI: 10.1016/j.str.2024.07.001

Abstact

Activated FXII (FXIIa) is the principal initiator of the plasma contact system and can activate both procoagulant and proinflammatory pathways. Its activity is important in the pathophysiology of hereditary angioedema (HAE). Here, we describe a high-resolution cryoelectron microscopy (cryo-EM) structure of the beta-chain from FXIIa (βFXIIa) complexed with the Fab fragment of garadacimab. Garadacimab binds to βFXIIa through an unusually long CDR-H3 that inserts into the S1 pocket in a non-canonical way. This structural mechanism is likely the primary contributor to the inhibition of activated FXIIa proteolytic activity in HAE. Garadacimab Fab-βFXIIa structure also reveals critical determinants of high-affinity binding of garadacimab to activated FXIIa. Structural analysis with other bona fide FXIIa inhibitors, such as benzamidine and C1-INH, reveals a surprisingly similar mechanism of βFXIIa inhibition by garadacimab. In summary, the garadacimab Fab-βFXIIa structure provides crucial insights into its mechanism of action and delineates primary and auxiliary paratopes/epitopes.

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Primary Citation of related structures