8JD9

Cyro-EM structure of the Na+/H+ antipoter SOS1 from Arabidopsis thaliana,class1


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.87 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 basis for the activity regulation of Salt Overly Sensitive 1 in Arabidopsis salt tolerance.

Zhang, Y.Zhou, J.Ni, X.Wang, Q.Jia, Y.Xu, X.Wu, H.Fu, P.Wen, H.Guo, Y.Yang, G.

(2023) Nat Plants 9: 1915-1923

  • DOI: https://doi.org/10.1038/s41477-023-01550-6
  • Primary Citation of Related Structures:  
    8JD9, 8JDA

  • PubMed Abstract: 

    The plasma membrane Na + /H + exchanger Salt Overly Sensitive 1 (SOS1) is crucial for plant salt tolerance. Unlike typical sodium/proton exchangers, SOS1 contains a large cytoplasmic domain (CPD) that regulates Na + /H + exchange activity. However, the underlying modulation mechanism remains unclear. Here we report the structures of SOS1 from Arabidopsis thaliana in two conformations, primarily differing in CPD flexibility. The CPD comprises an interfacial domain, a cyclic nucleotide-binding domain-like domain (CNBD-like domain) and an autoinhibition domain. Through yeast cell-based Na + tolerance test, we reveal the regulatory role of the interfacial domain and the activation role of the CNBD-like domain. The CPD forms a negatively charged cavity that is connected to the ion binding site. The transport of Na + may be coupled with the conformational change of CPD. These findings provide structural and functional insight into SOS1 activity regulation.


  • Organizational Affiliation

    State Key Laboratory of Plant Environmental Resilience, Frontiers Science Center for Molecular Design Breeding, College of Biological Sciences, China Agricultural University, Beijing, China.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Sodium/hydrogen exchanger 7
A, B
1,162Arabidopsis thalianaMutation(s): 0 
Gene Names: NHX7
Membrane Entity: Yes 
UniProt
Find proteins for Q9LKW9 (Arabidopsis thaliana)
Explore Q9LKW9 
Go to UniProtKB:  Q9LKW9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9LKW9
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PC1
Query on PC1

Download Ideal Coordinates CCD File 
C [auth A],
D [auth A]
1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE
C44 H88 N O8 P
NRJAVPSFFCBXDT-HUESYALOSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.87 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: 2023-11-08
    Type: Initial release
  • Version 1.1: 2023-11-15
    Changes: Database references
  • Version 1.2: 2023-11-29
    Changes: Database references