9KMQ | pdb_00009kmq

CryoEM structure of osPHT1-11 at pH 8.0


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


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Literature

Cryo-EM structure and dynamic basis of phosphate uptake by PHT1 in rice.

Du, Z.Guan, Z.Liu, H.Zhang, J.He, H.Zheng, Z.Zhang, W.Jiang, L.Zuo, J.Liu, Y.Wan, B.Tu, H.Dong, F.Lai, X.Xiong, L.Yin, P.Xue, S.Chen, Y.Liu, Z.

(2025) Dev Cell 

  • DOI: https://doi.org/10.1016/j.devcel.2025.09.003
  • Primary Citation of Related Structures:  
    9KMQ, 9KOU

  • PubMed Abstract: 

    Phosphorus is an essential macronutrient for plants, primarily absorbed from the soil as inorganic phosphate (Pi) through root-located Pi transporters. Despite decades of research into these transporters as targets for developing Pi-efficient crops, their mechanisms for Pi import remain poorly understood. Here, we present the cryo-electron microscopy (cryo-EM) structures of the rice Pi importer OsPHT1;11 in both Pi-bound and unbound forms, characterize its conformational dynamics, and demonstrate how these dynamics contribute to its transport function. Pi is recognized through conserved residues found in plants, with its translocation facilitated by a typical alternating-access mechanism. Single-molecule fluorescence resonance energy transfer (smFRET) analyses show that this transporter undergoes dynamic conformational fluctuations, which are differentially linked to its Pi transport capability, with a predominance of extracellular open conformations favoring Pi transport, while more populated intracellular open conformations hinder it. These findings highlight key conformational determinants of transport activity and provide mechanistic insights into Pi uptake in plants.


  • Organizational Affiliation
    • National Key Laboratory of Crop Genetic Improvement, Hubei Hongshan Laboratory, Huazhong Agricultural University, Wuhan 430070, China.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Inorganic phosphate transporter 1-11A [auth B],
B [auth A]
584Oryza sativa Japonica GroupMutation(s): 0 
Gene Names: PHT1-11PT11Os01g0657100LOC_Os01g46860OsJ_002785P0694A04.21
Membrane Entity: Yes 
UniProt
Find proteins for Q94DB8 (Oryza sativa subsp. japonica)
Explore Q94DB8 
Go to UniProtKB:  Q94DB8
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ94DB8
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX

Structure Validation

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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: 2025-10-08
    Type: Initial release