8ZCA image
Deposition Date 2024-04-29
Release Date 2025-05-07
Last Version Date 2025-08-06
Entry Detail
PDB ID:
8ZCA
Keywords:
Title:
Crystal structure of human CD47 ECD bound to Fab of Hu1C8
Biological Source:
Source Organism:
Homo sapiens (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.50 Å
R-Value Free:
0.26
R-Value Work:
0.21
R-Value Observed:
0.21
Space Group:
P 1
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:1C8 Fab light chain
Chain IDs:A, C (auth: B)
Chain Length:218
Number of Molecules:2
Biological Source:Homo sapiens
Polymer Type:polypeptide(L)
Molecule:1C8 Fab heavy chain
Chain IDs:B (auth: D), D (auth: C)
Chain Length:225
Number of Molecules:2
Biological Source:Homo sapiens
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Leukocyte surface antigen CD47
Gene (Uniprot):CD47
Chain IDs:E, F
Chain Length:131
Number of Molecules:2
Biological Source:Homo sapiens
Modified Residue
Compound ID Chain ID Parent Comp ID Details 2D Image
PCA E GLN modified residue
Primary Citation
An anti-CD47 antibody binds to a distinct epitope in a novel metal ion-dependent manner to minimize cross-linking of red blood cells.
J.Biol.Chem. 301 110420 110420 (2025)
PMID: 40578556 DOI: 10.1016/j.jbc.2025.110420

Abstact

Cluster of differentiation 47 (CD47) is a widely expressed transmembrane protein that plays a crucial role in immune self-recognition. Cancer cells upregulate CD47 expression to promote immune escape through activating the "don't eat me" signal via interactions with signal regulatory protein α (SIRPα) on macrophages. The effectiveness of anti-CD47 antibodies has been demonstrated in multiple tumour models. However, since CD47 is also expressed in human red blood cells (RBCs) and platelets, the clinical application of anti-CD47 antibodies requires careful consideration of blood toxicity. One major obstacle to the clinical application of CD47 antibodies is the haemagglutination caused by RBCs cross-linking. In this study, we generated Hu1C8, a humanized anti-CD47 monoclonal antibody that demonstrated increased selectivity for binding to CD47 on cancer cells and lacked haemagglutination activity. Epitope mapping and the crystal structure of the Hu1C8 Fab-CD47 extracellular domain (ECD) complex revealed that Hu1C8 binds to a distinct epitope of CD47 in a Ca2+-dependent manner. The unique recognition and binding mode allowed Hu1C8 to bind CD47 on RBCs with reduced haemagglutination activity while still maintaining effective antitumour activity. These findings demonstrate a feasible strategy for developing CD47 antibodies with high antitumor activity but low RBC haemagglutination activity. Our study elucidates how epitope-specific antibody influences antibody-induced cell cross-linking, offering innovative strategies for antibody design to either leverage or avoid cell cross-linking effects.

Legend

Protein

Chemical

Disease

Primary Citation of related structures