NMR solution structure of the CARD9 CARD bound to zinc

Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation   3D Report Full Report

This is version 1.3 of the entry. See complete history


Picomolar zinc binding modulates formation of Bcl10-nucleating assemblies of the caspase recruitment domain (CARD) of CARD9.

Holliday, M.J.Ferrao, R.de Leon Boenig, G.Estevez, A.Helgason, E.Rohou, A.Dueber, E.C.Fairbrother, W.J.

(2018) J Biol Chem 293: 16803-16817

  • DOI: https://doi.org/10.1074/jbc.RA118.004821
  • Primary Citation of Related Structures:  
    6E25, 6E26, 6E27, 6E28

  • PubMed Abstract: 

    The caspase recruitment domain-containing protein 9 (CARD9)-B-cell lymphoma/leukemia 10 (Bcl10) signaling axis is activated in myeloid cells during the innate immune response to a variety of diverse pathogens. This signaling pathway requires a critical caspase recruitment domain (CARD)-CARD interaction between CARD9 and Bcl10 that promotes downstream activation of factors, including NF-κB and the mitogen-activated protein kinase (MAPK) p38. Despite these insights, CARD9 remains structurally uncharacterized, and little mechanistic understanding of its regulation exists. We unexpectedly found here that the CARD in CARD9 binds to Zn 2+ with picomolar affinity-a concentration comparable with the levels of readily accessible Zn 2+ in the cytosol. NMR solution structures of the CARD9-CARD in the apo and Zn 2+ -bound states revealed that Zn 2+ has little effect on the ground-state structure of the CARD; yet the stability of the domain increased considerably upon Zn 2+ binding, with a concomitant reduction in conformational flexibility. Moreover, Zn 2+ binding inhibited polymerization of the CARD9-CARD into helical assemblies. Here, we also present a 20-Å resolution negative-stain EM (NS-EM) structure of these filamentous assemblies and show that they adopt a similar helical symmetry as reported previously for filaments of the Bcl10 CARD. Using both bulk assays and direct NS-EM visualization, we further show that the CARD9-CARD assemblies can directly template and thereby nucleate Bcl10 polymerization, a capacity considered critical to propagation of the CARD9-Bcl10 signaling cascade. Our findings indicate that CARD9 is a potential target of Zn 2+ -mediated signaling that affects Bcl10 polymerization in innate immune responses.

  • Organizational Affiliation

    From the Early Discovery Biochemistry Department and.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Caspase recruitment domain-containing protein 997Homo sapiensMutation(s): 0 
Gene Names: CARD9
UniProt & NIH Common Fund Data Resources
Find proteins for Q9H257 (Homo sapiens)
Explore Q9H257 
Go to UniProtKB:  Q9H257
GTEx:  ENSG00000187796 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9H257
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on ZN

Download Ideal Coordinates CCD File 
B [auth A]ZINC ION
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 100 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the lowest energy 

Structure Validation

View Full Validation Report

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2018-09-26
    Type: Initial release
  • Version 1.1: 2018-11-07
    Changes: Data collection, Database references
  • Version 1.2: 2023-06-14
    Changes: Data collection, Database references, Other
  • Version 1.3: 2024-05-15
    Changes: Data collection, Database references