ELIC3 with cysteamine in 2:1:1 POPC:POPE:POPG nanodisc

Experimental Data Snapshot

  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report

This is version 1.2 of the entry. See complete history


Open-channel structure of a pentameric ligand-gated ion channel reveals a mechanism of leaflet-specific phospholipid modulation.

Petroff II, J.T.Dietzen, N.M.Santiago-McRae, E.Deng, B.Washington, M.S.Chen, L.J.Trent Moreland, K.Deng, Z.Rau, M.Fitzpatrick, J.A.J.Yuan, P.Joseph, T.T.Henin, J.Brannigan, G.Cheng, W.W.L.

(2022) Nat Commun 13: 7017-7017

  • DOI: https://doi.org/10.1038/s41467-022-34813-5
  • Primary Citation of Related Structures:  
    8D63, 8D64, 8D65, 8D66, 8D67, 8VUW

  • PubMed Abstract: 

    Pentameric ligand-gated ion channels (pLGICs) mediate synaptic transmission and are sensitive to their lipid environment. The mechanism of phospholipid modulation of any pLGIC is not well understood. We demonstrate that the model pLGIC, ELIC (Erwinia ligand-gated ion channel), is positively modulated by the anionic phospholipid, phosphatidylglycerol, from the outer leaflet of the membrane. To explore the mechanism of phosphatidylglycerol modulation, we determine a structure of ELIC in an open-channel conformation. The structure shows a bound phospholipid in an outer leaflet site, and structural changes in the phospholipid binding site unique to the open-channel. In combination with streamlined alchemical free energy perturbation calculations and functional measurements in asymmetric liposomes, the data support a mechanism by which an anionic phospholipid stabilizes the activated, open-channel state of a pLGIC by specific, state-dependent binding to this site.

  • 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 ligand-gated ion channel
A, B, C, D, E
322Dickeya dadantiiMutation(s): 3 
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: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesR35GM137957

Revision History  (Full details and data files)

  • Version 1.0: 2022-11-23
    Type: Initial release
  • Version 1.1: 2022-11-30
    Changes: Database references
  • Version 1.2: 2024-06-12
    Changes: Data collection