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Structure paper

TitleOpen-channel structure of a pentameric ligand-gated ion channel reveals a mechanism of leaflet-specific phospholipid modulation.
Journal, issue, pagesNat Commun, Vol. 13, Issue 1, Page 7017, Year 2022
Publish dateNov 17, 2022
AuthorsJohn T Petroff / Noah M Dietzen / Ezry Santiago-McRae / Brett Deng / Maya S Washington / Lawrence J Chen / K Trent Moreland / Zengqin Deng / Michael Rau / James A J Fitzpatrick / Peng Yuan / Thomas T Joseph / Jérôme Hénin / Grace Brannigan / Wayland W L Cheng /
PubMed AbstractPentameric 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. ...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.
External linksNat Commun / PubMed:36385237 / PubMed Central
MethodsEM (single particle)
Resolution3.14 - 3.47 Å
Structure data

27215

8d63

EMDB-27215, PDB-8d63:
ELIC apo in POPC nanodisc
Method: EM (single particle) / Resolution: 3.14 Å

27216

8d64

EMDB-27216, PDB-8d64:
ELIC with cysteamine in POPC nanodisc
Method: EM (single particle) / Resolution: 3.14 Å

27217

8d65

EMDB-27217, PDB-8d65:
ELIC apo in 2:1:1 POPC:POPE:POPG nanodisc
Method: EM (single particle) / Resolution: 3.47 Å

27218

8d66

EMDB-27218, PDB-8d66:
ELIC with cysteamine in 2:1:1 POPC:POPE:POPG nanodisc
Method: EM (single particle) / Resolution: 3.14 Å

27219

8d67

EMDB-27219, PDB-8d67:
ELIC3 with cysteamine in 2:1:1 POPC:POPE:POPG nanodisc
Method: EM (single particle) / Resolution: 3.3 Å

43542

8vuw

EMDB-43542, PDB-8vuw:
ELIC5 with cysteamine in 2:1:1 POPC:POPE:POPG nanodisc in open conformation
Method: EM (single particle) / Resolution: 3.19 Å

Chemicals

ChemComp-LBN:
1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine / phospholipid*YM

ChemComp-DHL:
2-AMINO-ETHANETHIOL

ChemComp-PGW:
(1R)-2-{[(S)-{[(2S)-2,3-dihydroxypropyl]oxy}(hydroxy)phosphoryl]oxy}-1-[(hexadecanoyloxy)methyl]ethyl / phospholipid*YM

Source
  • dickeya dadantii (bacteria)
  • dickeya chrysanthemi (bacteria)
KeywordsSTRUCTURAL PROTEIN / ELIC / ion channel / pLGIC / TRANSPORT PROTEIN

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