8XLR | pdb_00008xlr

Cryo-EM structure of Ca2+-bound TMEM16A in complex with Tamsulosin


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.93 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 8XLR

This is version 1.1 of the entry. See complete history

Literature

Tamsulosin ameliorates bone loss by inhibiting the release of Cl - through wedging into an allosteric site of TMEM16A.

Li, S.Sun, W.Li, S.Zhu, L.Guo, S.He, J.Li, Y.Tian, C.Zhao, Z.Yu, T.Li, J.Zhang, Y.Hai, Y.Wang, J.Zheng, Y.Wang, R.Hu, X.Ling, S.Li, H.Li, Y.

(2025) Proc Natl Acad Sci U S A 122: e2407493121-e2407493121

  • DOI: https://doi.org/10.1073/pnas.2407493121
  • Primary Citation Related Structures: 
    8XLR

  • PubMed Abstract: 

    TMEM16A, a key calcium-activated chloride channel, is crucial for many physiological and pathological processes such as cancer, hypertension, and osteoporosis, etc. However, the regulatory mechanism of TMEM16A is poorly understood, limiting the discovery of effective modulators. Here, we unveil an allosteric gating mechanism by presenting a high-resolution cryo-EM structure of TMEM16A in complex with a channel inhibitor that we identified, Tamsulosin, which is resolved at 2.93 Å. Tamsulosin wedges itself into a pocket within the extracellular domain of TMEM16A, surrounded by α1-α2, α5-α6, and α9-α10 loops. This binding stabilizes a transient preopen conformation of TMEM16A, which is activated by Ca 2+ ions while still preserving a closed pore to prevent Cl - permeation. Validation of this binding site through computational, electrophysiological, and functional experiments, along with site-directed mutagenesis, confirmed the pivotal roles of the pocket-lining residues R605 and E624 on α5-α6 loop in modulating Tamsulosin binding and pore activity. Tamsulosin induces significant positional shifts in extracellular loops, particularly the α5-α6 loop, which moves toward the extracellular exit of the pore, leading to noticeable structural rearrangements in pore-lining helices. The hinges induced by P595 in α5 and G711 in α7 introduce flexibility to the transmembrane helices, orienting Y593 to collaborate with I641 in effectively gating the preopening pore. Notably, Tamsulosin demonstrates significant antiosteoporotic effects by inhibiting TMEM16A, suggesting potential for its repurposing in new therapeutic indications. Our study not only enhances our understanding of the gating mechanism of TMEM16A inhibition but also facilitates structure-based drug design targeting TMEM16A.


  • Organizational Affiliation
    • Innovation Center for AI and Drug Discovery, School of Pharmacy, East China Normal University, Shanghai 200062, China.

Macromolecule Content 

  • Total Structure Weight: 234.96 kDa 
  • Atom Count: 13,338 
  • Modeled Residue Count: 1,514 
  • Deposited Residue Count: 1,920 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Anoctamin-1
A, B
960Mus musculusMutation(s): 0 
Gene Names: Ano1Tmem16a
Membrane Entity: Yes 
UniProt
Find proteins for Q8BHY3 (Mus musculus)
Explore Q8BHY3 
Go to UniProtKB:  Q8BHY3
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8BHY3
Glycosylation
Glycosylation Sites: 4Go to GlyGen: Q8BHY3-1
Sequence Annotations
Expand
Reference Sequence

Small Molecules

Ligands 5 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
JGX
(Subject of Investigation/LOI)

Query on JGX



Download:Ideal Coordinates CCD File
GA [auth A],
PB [auth B]
Tamsulosin
C20 H28 N2 O5 S
DRHKJLXJIQTDTD-OAHLLOKOSA-N
NAG

Query on NAG



Download:Ideal Coordinates CCD File
C [auth A]
D [auth A]
E [auth A]
F [auth A]
KA [auth B]
C [auth A],
D [auth A],
E [auth A],
F [auth A],
KA [auth B],
LA [auth B],
MA [auth B],
NA [auth B]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
C14

Query on C14



Download:Ideal Coordinates CCD File
AA [auth A]
AB [auth B]
BA [auth A]
BB [auth B]
CA [auth A]
AA [auth A],
AB [auth B],
BA [auth A],
BB [auth B],
CA [auth A],
CB [auth B],
DA [auth A],
DB [auth B],
EB [auth B],
FB [auth B],
G [auth A],
GB [auth B],
H [auth A],
HB [auth B],
I [auth A],
IA [auth B],
IB [auth B],
J [auth A],
JB [auth B],
K [auth A],
KB [auth B],
L [auth A],
LB [auth B],
M [auth A],
MB [auth B],
N [auth A],
O [auth A],
OA [auth B],
P [auth A],
PA [auth B],
Q [auth A],
QA [auth B],
R [auth A],
RA [auth B],
S [auth A],
SA [auth B],
T [auth A],
TA [auth B],
U [auth A],
UA [auth B],
V [auth A],
VA [auth B],
W [auth A],
WA [auth B],
X [auth A],
XA [auth B],
Y [auth A],
YA [auth B],
Z [auth A],
ZA [auth B]
TETRADECANE
C14 H30
BGHCVCJVXZWKCC-UHFFFAOYSA-N
HEX

Query on HEX



Download:Ideal Coordinates CCD File
HA [auth A],
JA [auth B]
HEXANE
C6 H14
VLKZOEOYAKHREP-UHFFFAOYSA-N
CA

Query on CA



Download:Ideal Coordinates CCD File
EA [auth A],
FA [auth A],
NB [auth B],
OB [auth B]
CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.93 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.20.1_4487:

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China--

Revision History  (Full details and data files)

  • Version 1.0: 2024-12-18
    Type: Initial release
  • Version 1.1: 2025-02-05
    Changes: Data collection, Database references