8GVW

Cryo-EM structure of the human TRPC5 ion channel in lipid nanodiscs, class2


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.59 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Molecular architecture of the G alpha i -bound TRPC5 ion channel.

Won, J.Kim, J.Jeong, H.Kim, J.Feng, S.Jeong, B.Kwak, M.Ko, J.Im, W.So, I.Lee, H.H.

(2023) Nat Commun 14: 2550-2550

  • DOI: https://doi.org/10.1038/s41467-023-38281-3
  • Primary Citation of Related Structures:  
    7X6C, 7X6I, 8GVW, 8GVX

  • PubMed Abstract: 

    G-protein coupled receptors (GPCRs) and ion channels serve as key molecular switches through which extracellular stimuli are transformed into intracellular effects, and it has long been postulated that ion channels are direct effector molecules of the alpha subunit of G-proteins (Gα). However, no complete structural evidence supporting the direct interaction between Gα and ion channels is available. Here, we present the cryo-electron microscopy structures of the human transient receptor potential canonical 5 (TRPC5)-Gα i3 complexes with a 4:4 stoichiometry in lipid nanodiscs. Remarkably, Gα i3 binds to the ankyrin repeat edge of TRPC5 ~ 50 Å away from the cell membrane. Electrophysiological analysis shows that Gα i3 increases the sensitivity of TRPC5 to phosphatidylinositol 4,5-bisphosphate (PIP 2 ), thereby rendering TRPC5 more easily opened in the cell membrane, where the concentration of PIP 2 is physiologically regulated. Our results demonstrate that ion channels are one of the direct effector molecules of Gα proteins triggered by GPCR activation-providing a structural framework for unraveling the crosstalk between two major classes of transmembrane proteins: GPCRs and ion channels.


  • Organizational Affiliation

    Department of Chemistry, College of Natural Sciences, Seoul National University, Seoul, 08826, Republic of Korea.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Short transient receptor potential channel 5
A, B, C, D
773Homo sapiensMutation(s): 0 
Gene Names: TRPC5TRP5
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UL62 (Homo sapiens)
Explore Q9UL62 
Go to UniProtKB:  Q9UL62
PHAROS:  Q9UL62
GTEx:  ENSG00000072315 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9UL62
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 6 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
POV (Subject of Investigation/LOI)
Query on POV

Download Ideal Coordinates CCD File 
F [auth A],
M [auth B],
S [auth C],
Y [auth D]
(2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate
C42 H82 N O8 P
WTJKGGKOPKCXLL-PFDVCBLKSA-N
PTY (Subject of Investigation/LOI)
Query on PTY

Download Ideal Coordinates CCD File 
E [auth A],
L [auth B],
R [auth C],
X [auth D]
PHOSPHATIDYLETHANOLAMINE
C40 H80 N O8 P
NJGIRBISCGPRPF-KXQOOQHDSA-N
YZY (Subject of Investigation/LOI)
Query on YZY

Download Ideal Coordinates CCD File 
J [auth A],
K [auth A],
Q [auth B],
W [auth C]
(2S)-2-(hexadecanoyloxy)-3-hydroxypropyl (9Z)-octadec-9-enoate
C37 H70 O5
DOZKMFVMCATMEH-OZKTZCCCSA-N
Y01 (Subject of Investigation/LOI)
Query on Y01

Download Ideal Coordinates CCD File 
G [auth A],
N [auth B],
T [auth C],
Z [auth D]
CHOLESTEROL HEMISUCCINATE
C31 H50 O4
WLNARFZDISHUGS-MIXBDBMTSA-N
ZN (Subject of Investigation/LOI)
Query on ZN

Download Ideal Coordinates CCD File 
AA [auth D],
H [auth A],
O [auth B],
U [auth C]
ZINC ION
Zn
PTFCDOFLOPIGGS-UHFFFAOYSA-N
CA (Subject of Investigation/LOI)
Query on CA

Download Ideal Coordinates CCD File 
BA [auth D],
I [auth A],
P [auth B],
V [auth C]
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.59 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Other privateKorea, Republic OfSSTF-BA2101-13

Revision History  (Full details and data files)

  • Version 1.0: 2023-05-24
    Type: Initial release
  • Version 1.1: 2024-10-16
    Changes: Data collection, Structure summary