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TitleLipid nanodisc scaffold and size alter the structure of a pentameric ligand-gated ion channel.
Journal, issue, pagesNat Commun, Vol. 15, Issue 1, Page 25, Year 2024
Publish dateJan 2, 2024
AuthorsVikram Dalal / Mark J Arcario / John T Petroff / Brandon K Tan / Noah M Dietzen / Michael J Rau / James A J Fitzpatrick / Grace Brannigan / Wayland W L Cheng /
PubMed AbstractLipid 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 ...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.
External linksNat Commun / PubMed:38167383 / PubMed Central
MethodsEM (single particle)
Resolution3.12 - 3.71 Å
Structure data

28829

8f32

EMDB-28829, PDB-8f32:
ELIC with Propylamine in SMA nanodiscs with 2:1:1 POPC:POPE:POPG
Method: EM (single particle) / Resolution: 3.71 Å

28830

8f33

EMDB-28830, PDB-8f33:
ELIC with Propylamine in saposin nanodiscs with 2:1:1 POPC:POPE:POPG
Method: EM (single particle) / Resolution: 3.28 Å

28831

8f34

EMDB-28831, PDB-8f34:
ELIC with Propylamine in spMSP1D1 nanodiscs with 2:1:1 POPC:POPE:POPG
Method: EM (single particle) / Resolution: 3.12 Å

28832

8f35

EMDB-28832, PDB-8f35:
Apo ELIC in spMSP1D1 nanodiscs with 2:1:1 POPC:POPE:POPG
Method: EM (single particle) / Resolution: 3.17 Å

41672

8twv

EMDB-41672, PDB-8twv:
ELIC5 with Propylamine in spNW15 nanodiscs with 2:1:1 POPC:POPE:POPG
Method: EM (single particle) / Resolution: 3.4 Å

41673

8twz

EMDB-41673, PDB-8twz:
ELIC with Propylamine in spNW15 nanodiscs with 2:1:1 POPC:POPE:POPG
Method: EM (single particle) / Resolution: 3.17 Å

Chemicals

ChemComp-3CN:
3-AMINOPROPANE

Source
  • dickeya dadantii (bacteria)
KeywordsTRANSPORT PROTEIN / ELIC / ion channel / pLGIC / Structural Protein / Membrane Protein

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