10FJ | pdb_000010fj

FcgRIIa in complex with IV.3 Fab


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 10FJ

This is version 1.0 of the entry. See complete history

Literature

Mechanistic Basis for the Selective Recognition of the Fc gamma Receptor IIa by Monoclonal Antibody IV.3.

Wang, J.Novack, S.Li, J.Niejadlik, E.G.Bournazos, S.Coller, B.S.Filizola, M.

(2026) bioRxiv 

  • DOI: https://doi.org/10.64898/2026.03.05.709909
  • Primary Citation Related Structures: 
    10FJ

  • PubMed Abstract: 

    The monoclonal antibody IV.3 selectively binds the platelet Fcγ receptor IIa (FcγRIIa), potently blocking immune complex engagement without cross-reacting with the closely-related FcγRIIb. This specificity has made IV.3 invaluable for dissecting FcγRIIa-mediated activation in diverse conditions, including infection, autoimmunity, thromboinflammation, and platelet-mediated thrombosis. We combined cryogenic electron microscopy, surface plasmon resonance, alchemical free energy calculations, and molecular dynamics simulations to elucidate IV.3's binding sites on FcγRIIa and the mechanistic basis of IV.3 specificity. We find that IV.3 engages a broader FcγRIIa epitope than previously recognized, extending beyond residues H/R134 and L135 (R and S in FcγRIIb). Simulations of FcγIIa-R134 variants bearing either L135 or S135 reveal that IV.3 specificity arises from hydrophobic stabilization mediated by L135 and disruption of an R134-specific interaction network in the presence of S135. These findings provide a mechanistic framework for rational design of FcγRIIa-targeted therapeutics.

Macromolecule Content 

  • Total Structure Weight: 71.95 kDa 
  • Atom Count: 4,711 
  • Modeled Residue Count: 612 
  • Deposited Residue Count: 661 
  • Unique protein chains: 3

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Low affinity immunoglobulin gamma Fc region receptor II-a185Homo sapiensMutation(s): 0 
Gene Names: FCGR2ACD32FCG2FCGR2A1IGFR2
UniProt & NIH Common Fund Data Resources
Find proteins for P12318 (Homo sapiens)
Explore P12318 
Go to UniProtKB:  P12318
PHAROS:  P12318
GTEx:  ENSG00000143226 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP12318
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
IV.3 Fab heavy chainB [auth H]238Mus musculusMutation(s): 0 
Find similar proteins by:|  3D Structure
Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
IV.3 Fab light chainC [auth L]238Mus musculusMutation(s): 0 

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.50 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARCV4.4.0

Structure Validation

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Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Heart, Lung, and Blood Institute (NIH/NHLBI)United States5R01HL019278-48

Revision History  (Full details and data files)

  • Version 1.0: 2026-07-01
    Type: Initial release