7XZH | pdb_00007xzh

Cryo-EM structure of human LRRC8A


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.78 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 insights into anion selectivity and activation mechanism of LRRC8 volume-regulated anion channels.

Liu, H.Polovitskaya, M.M.Yang, L.Li, M.Li, H.Han, Z.Wu, J.Zhang, Q.Jentsch, T.J.Liao, J.

(2023) Cell Rep 42: 112926-112926

  • DOI: https://doi.org/10.1016/j.celrep.2023.112926
  • Primary Citation of Related Structures:  
    7XZH

  • PubMed Abstract: 

    Volume-regulated anion channels (VRACs) are hexamers of LRRC8 proteins that are crucial for cell volume regulation. N termini (NTs) of the obligatory LRRC8A subunit modulate VRACs activation and ion selectivity, but the underlying mechanisms remain poorly understood. Here, we report a 2.8-Å cryo-electron microscopy structure of human LRRC8A that displays well-resolved NTs. Amino-terminal halves of NTs fold back into the pore and constrict the permeation path, thereby determining ion selectivity together with an extracellular selectivity filter with which it works in series. They also interact with pore-surrounding helices and support their compact arrangement. The C-terminal halves of NTs interact with intracellular loops that are crucial for channel activation. Molecular dynamics simulations indicate that low ionic strength increases NT mobility and expands the radial distance between pore-surrounding helices. Our work suggests an unusual pore architecture with two selectivity filters in series and a mechanism for VRAC activation by cell swelling.


  • Organizational Affiliation
    • School of Life Science and Technology, ShanghaiTech University, Shanghai 201210, China; Shanghai Institute of Biochemistry and Cell Biology, Center for Excellence in Molecular Cell Science, Chinese Academy of Sciences, Shanghai 200031, China; University of Chinese Academy of Sciences, Beijing 100049, China.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Volume-regulated anion channel subunit LRRC8A
A, B, C, D, E
A, B, C, D, E, F
808Homo sapiensMutation(s): 0 
Gene Names: LRRC8AKIAA1437LRRC8SWELL1UNQ221/PRO247
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for Q8IWT6 (Homo sapiens)
Explore Q8IWT6 
Go to UniProtKB:  Q8IWT6
PHAROS:  Q8IWT6
GTEx:  ENSG00000136802 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8IWT6
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
P5S (Subject of Investigation/LOI)
Query on P5S

Download Ideal Coordinates CCD File 
AA [auth F]
G [auth A]
M [auth B]
Q [auth C]
S [auth D]
AA [auth F],
G [auth A],
M [auth B],
Q [auth C],
S [auth D],
W [auth E]
O-[(R)-{[(2R)-2,3-bis(octadecanoyloxy)propyl]oxy}(hydroxy)phosphoryl]-L-serine
C42 H82 N O10 P
TZCPCKNHXULUIY-RGULYWFUSA-N
POV
Query on POV

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

Download Ideal Coordinates CCD File 
CA [auth F]
DA [auth F]
I [auth A]
J [auth A]
K [auth B]
CA [auth F],
DA [auth F],
I [auth A],
J [auth A],
K [auth B],
L [auth B],
O [auth C],
P [auth C],
U [auth D],
V [auth D],
Y [auth E],
Z [auth E]
CHOLESTEROL
C27 H46 O
HVYWMOMLDIMFJA-DPAQBDIFSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.78 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Other governmentChina2017YFA0504800
Other governmentChina2018ZX09711003-003-003

Revision History  (Full details and data files)

  • Version 1.0: 2023-06-07
    Type: Initial release
  • Version 1.1: 2024-11-13
    Changes: Data collection, Structure summary
  • Version 1.2: 2024-12-18
    Changes: Data collection, Database references