ELIC with Propylamine in spNW15 nanodiscs with 2:1:1 POPC:POPE:POPG

Experimental Data Snapshot

  • Resolution: 3.17 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report

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Lipid nanodisc scaffold and size alter the structure of a pentameric ligand-gated ion channel.

Dalal, V.Arcario, M.J.Petroff 2nd, J.T.Tan, B.K.Dietzen, N.M.Rau, M.J.Fitzpatrick, J.A.J.Brannigan, G.Cheng, W.W.L.

(2024) Nat Commun 15: 25-25

  • DOI: https://doi.org/10.1038/s41467-023-44366-w
  • Primary Citation of Related Structures:  
    8F32, 8F33, 8F34, 8F35, 8TWV, 8TWZ

  • PubMed Abstract: 

    Lipid nanodiscs have become a standard tool for studying membrane proteins, including using single particle cryo-electron microscopy (cryo-EM). We find that reconstituting the pentameric ligand-gated ion channel (pLGIC), Erwinia ligand-gated ion channel (ELIC), in different nanodiscs produces distinct structures by cryo-EM. The effect of the nanodisc on ELIC structure extends to the extracellular domain and agonist binding site. Additionally, molecular dynamic simulations indicate that nanodiscs of different size impact ELIC structure and that the nanodisc scaffold directly interacts with ELIC. These findings suggest that the nanodisc plays a crucial role in determining the structure of pLGICs, and that reconstitution of ion channels in larger nanodiscs may better approximate a lipid membrane environment.

  • Organizational Affiliation

    Department of Anesthesiology, Washington University School of Medicine, Saint Louis, MO, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Erwinia chrysanthemi ligand-gated ion channel
A, B, C, D, E
322Dickeya dadantiiMutation(s): 0 
Gene Names: Dda3937_00520
Membrane Entity: Yes 
Find proteins for E0SJQ4 (Dickeya dadantii (strain 3937))
Explore E0SJQ4 
Go to UniProtKB:  E0SJQ4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupE0SJQ4
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 3.17 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM137957

Revision History  (Full details and data files)

  • Version 1.0: 2024-03-27
    Type: Initial release