7DXB

Structure of TRPC3 at 2.7 angstrom in high calcium state

  • Classification: MEMBRANE PROTEIN
  • Organism(s): Homo sapiens
  • Expression System: Homo sapiens
  • Mutation(s): No 
  • Membrane Protein: Yes  OPMPDBTMMemProtMDmpstruc

  • Deposited: 2021-01-18 Released: 2022-02-02 
  • Deposition Author(s): Chen, L., Guo, W.
  • Funding Organization(s): Ministry of Science and Technology (MoST, China), National Natural Science Foundation of China (NSFC), National Science Foundation (NSF, China)

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.70 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


Literature

Structural mechanism of human TRPC3 and TRPC6 channel regulation by their intracellular calcium-binding sites.

Guo, W.Tang, Q.Wei, M.Kang, Y.Wu, J.X.Chen, L.

(2022) Neuron 110: 1023-1035.e5

  • DOI: https://doi.org/10.1016/j.neuron.2021.12.023
  • Primary Citation of Related Structures:  
    7DXB, 7DXC, 7DXD, 7DXE, 7DXF, 7DXG

  • PubMed Abstract: 

    TRPC3 and TRPC6 channels are calcium-permeable non-selective cation channels that are involved in many physiological processes. The gain-of-function (GOF) mutations of TRPC6 lead to familial focal segmental glomerulosclerosis (FSGS) in humans, but their pathogenic mechanism remains elusive. Here, we report the cryo-EM structures of human TRPC3 in both high-calcium and low-calcium conditions. Based on these structures and accompanying electrophysiological studies, we identified both inhibitory and activating calcium-binding sites in TRPC3 that couple intracellular calcium concentrations to the basal channel activity. These calcium sensors are also structurally and functionally conserved in TRPC6. We uncovered that the GOF mutations of TRPC6 activate the channel by allosterically abolishing the inhibitory effects of intracellular calcium. Furthermore, structures of human TRPC6 in complex with two chemically distinct inhibitors bound at different ligand-binding pockets reveal different conformations of the transmembrane domain, providing templates for further structure-based drug design targeting TRPC6-related diseases such as FSGS.


  • Organizational Affiliation

    State Key Laboratory of Membrane Biology, College of Future Technology Institute of Molecular Medicine, Beijing Key Laboratory of Cardiometabolic Molecular Medicine, Peking University, Beijing 100871, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Short transient receptor potential channel 3
A, B, C, D
836Homo sapiensMutation(s): 0 
Gene Names: TRPC3TRP3
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for Q13507 (Homo sapiens)
Explore Q13507 
Go to UniProtKB:  Q13507
PHAROS:  Q13507
GTEx:  ENSG00000138741 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ13507
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 5 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
POV
Query on POV

Download Ideal Coordinates CCD File 
E [auth A],
L [auth A],
O [auth B],
W [auth C]
(2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate
C42 H82 N O8 P
WTJKGGKOPKCXLL-PFDVCBLKSA-N
98R
Query on 98R

Download Ideal Coordinates CCD File 
DA [auth D],
M [auth A],
N [auth B],
V [auth C]
[(2S)-2-[(E)-octadec-10-enoyl]oxy-3-oxidanyl-propyl] octadec-10-enoate
C39 H72 O5
UGRFXJLWUONJDY-NVXOQYPQSA-N
Y01
Query on Y01

Download Ideal Coordinates CCD File 
EA [auth D]
F [auth A]
FA [auth D]
G [auth A]
P [auth B]
EA [auth D],
F [auth A],
FA [auth D],
G [auth A],
P [auth B],
Q [auth B],
X [auth C],
Y [auth C]
CHOLESTEROL HEMISUCCINATE
C31 H50 O4
WLNARFZDISHUGS-MIXBDBMTSA-N
ZN
Query on ZN

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

Download Ideal Coordinates CCD File 
AA [auth C]
BA [auth C]
CA [auth C]
HA [auth D]
I [auth A]
AA [auth C],
BA [auth C],
CA [auth C],
HA [auth D],
I [auth A],
IA [auth D],
J [auth A],
JA [auth D],
K [auth A],
S [auth B],
T [auth B],
U [auth B]
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Ministry of Science and Technology (MoST, China)China2016YFA0502004
National Natural Science Foundation of China (NSFC)China31622021
National Science Foundation (NSF, China)China91857000
National Science Foundation (NSF, China)China31821091

Revision History  (Full details and data files)

  • Version 1.0: 2022-02-02
    Type: Initial release
  • Version 1.1: 2022-08-17
    Changes: Database references
  • Version 1.2: 2024-06-05
    Changes: Data collection