9JDS | pdb_00009jds

Structure of the auxin importer AUX1 in Arabidopsis thaliana in the IAA-bound state


Experimental Data Snapshot

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

wwPDB Validation 3D Report Full Report

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This is version 1.1 of the entry. See complete history

Literature

Structural insights into auxin influx mediated by the Arabidopsis AUX1.

Yang, Z.Wei, H.Gan, Y.Liu, H.Cao, Y.An, H.Que, X.Gao, Y.Zhu, L.Tan, S.Liu, X.Sun, L.

(2025) Cell 188: 3960-3973.e15

  • DOI: https://doi.org/10.1016/j.cell.2025.04.028
  • Primary Citation Related Structures: 
    9JDR, 9JDS, 9M2H

  • PubMed Abstract: 

    Auxin is crucial in orchestrating diverse aspects of plant growth and development and modulating responses to environmental signals. The asymmetric spatiotemporal distribution of auxin generates local gradient patterns, which are regulated by both cellular auxin influx and efflux. The AUXIN1/LIKE-AUX1 (AUX1/LAX) family transporters have been identified as major auxin influx carriers. Here, we characterize the auxin uptake mediated by AUX1 from Arabidopsis thaliana. Using cryoelectron microscopy (cryo-EM), we determine its structure in three states: the auxin-unbound, the auxin-bound, and the competitive inhibitor, 3-chloro-4-hydroxyphenylacetic acid (CHPAA)-bound state. All structures adopt an inward-facing conformation. In the auxin-bound structure, indole-3-acetic acid (IAA) is coordinated to AUX1 primarily through hydrogen bonds with its carboxyl group. The functional roles of key residues in IAA binding are validated by in vitro and in planta analyses. CHPAA binds to the same site as IAA. These findings advance our understanding of auxin transport in plants.


  • Organizational Affiliation
    • Department of Neurology of The First Affiliated Hospital of USTC, MOE Key Laboratory for Membraneless Organelles and Cellular Dynamics, Hefei National Research Center for Physical Sciences at the Microscale, Center for Advanced Interdisciplinary Science and Biomedicine of IHM, Division of Life Sciences and Medicine, University of Science and Technology of China, Hefei 230027, China.

Macromolecule Content 

  • Total Structure Weight: 54.28 kDa 
  • Atom Count: 3,456 
  • Modeled Residue Count: 431 
  • Deposited Residue Count: 485 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Auxin transporter protein 1485Arabidopsis thalianaMutation(s): 0 
Gene Names: AUX1AUXPIR1WAV5At2g38120F16M14.5
Membrane Entity: Yes 
UniProt
Find proteins for Q96247 (Arabidopsis thaliana)
Explore Q96247 
Go to UniProtKB:  Q96247
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ96247
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
IAC
(Subject of Investigation/LOI)

Query on IAC



Download:Ideal Coordinates CCD File
B [auth A]1H-INDOL-3-YLACETIC ACID
C10 H9 N O2
SEOVTRFCIGRIMH-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.40 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.13_2998:

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Science Foundation (NSF, China)China32322041
National Science Foundation (NSF, China)China32321001
National Science Foundation (NSF, China)China31900885

Revision History  (Full details and data files)

  • Version 1.0: 2025-06-11
    Type: Initial release
  • Version 1.1: 2026-06-24
    Changes: Data collection, Database references