Structure of human excitatory amino acid transporter 2 (EAAT2) in complex with WAY-213613

Experimental Data Snapshot

  • Resolution: 3.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report

This is version 1.0 of the entry. See complete history


Structural basis of ligand binding modes of human EAAT2.

Zhang, Z.Chen, H.Geng, Z.Yu, Z.Li, H.Dong, Y.Zhang, H.Huang, Z.Jiang, J.Zhao, Y.

(2022) Nat Commun 13: 3329-3329

  • DOI: https://doi.org/10.1038/s41467-022-31031-x
  • Primary Citation of Related Structures:  
    7XR4, 7XR6

  • PubMed Abstract: 

    In the central nervous system (CNS), excitatory amino acid transporters (EAATs) mediate the uptake of excitatory neurotransmitter glutamate and maintain its low concentrations in the synaptic cleft for avoiding neuronal cytotoxicity. Dysfunction of EAATs can lead to many psychiatric diseases. Here we report cryo-EM structures of human EAAT2 in an inward-facing conformation, in the presence of substrate glutamate or selective inhibitor WAY-213613. The glutamate is coordinated by extensive hydrogen bonds and further stabilized by HP2. The inhibitor WAY-213613 occupies a similar binding pocket to that of the substrate glutamate. Upon association with the WAY-213613, the HP2 undergoes a substantial conformational change, and in turn stabilizes the inhibitor binding by forming hydrophobic interactions. Electrophysiological experiments elucidate that the unique S441 plays pivotal roles in the binding of hEAAT2 with glutamate or WAY-213613, and the I464-L467-V468 cluster acts as a key structural determinant for the selective inhibition of this transporter by WAY-213613.

  • Organizational Affiliation

    Department of Microbiology and Biotechnology, College of Life Sciences, Northeast Agricultural University, No. 600 Changjiang Road, Xiangfang District, Harbin, 150030, China.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Excitatory amino acid transporter 2
A, B, C
574Homo sapiensMutation(s): 0 
Gene Names: SLC1A2EAAT2GLT1
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P43004 (Homo sapiens)
Explore P43004 
Go to UniProtKB:  P43004
PHAROS:  P43004
GTEx:  ENSG00000110436 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP43004
Sequence Annotations
  • Reference Sequence
Small Molecules
Ligands 4 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
Query on PC1

Download Ideal Coordinates CCD File 
AA [auth B]
CA [auth B]
DA [auth C]
F [auth A]
G [auth A]
AA [auth B],
CA [auth B],
DA [auth C],
F [auth A],
G [auth A],
GA [auth C],
H [auth A],
HA [auth C],
I [auth A],
IA [auth C],
J [auth A],
JA [auth C],
K [auth A],
KA [auth C],
L [auth A],
LA [auth C],
M [auth A],
MA [auth C],
N [auth A],
NA [auth C],
OA [auth C],
P [auth A],
S [auth B],
T [auth B],
U [auth B],
V [auth B],
W [auth B],
X [auth B],
Y [auth B],
Z [auth B]
C44 H88 N O8 P
Query on Y01

Download Ideal Coordinates CCD File 
E [auth A],
FA [auth C],
R [auth B]
C31 H50 O4
GJ0 (Subject of Investigation/LOI)
Query on GJ0

Download Ideal Coordinates CCD File 
D [auth A],
EA [auth C],
Q [auth B]
(2S)-2-azanyl-4-[[4-[2-bromanyl-4,5-bis(fluoranyl)phenoxy]phenyl]amino]-4-oxidanylidene-butanoic acid
C16 H13 Br F2 N2 O4
Query on XKJ

Download Ideal Coordinates CCD File 
BA [auth B],
O [auth A],
PA [auth C]
dodecyl beta-D-glucopyranoside
C18 H36 O6
Experimental Data & Validation

Experimental Data

  • Resolution: 3.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

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: 2022-06-22
    Type: Initial release