9KAX | pdb_00009kax

The outward-open structure of BjSemiSWEET in native cellular membranes determined by in situ solid-state NMR


Experimental Data Snapshot

  • Method: SOLID-STATE NMR
  • Conformers Calculated: 1000 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Dynamic structures of a membrane transporter in native cellular membranes.

Xie, H.Gan, Y.Zhao, W.Duan, M.Shen, Y.Tan, H.Zhang, Y.Tong, Q.Zhao, Y.Yang, J.

(2025) Sci Adv 11: eadv4583-eadv4583

  • DOI: https://doi.org/10.1126/sciadv.adv4583
  • Primary Citation Related Structures: 
    9KAX, 9KBA

  • PubMed Abstract: 

    Substrate transport through membrane transporters is a dynamic process that involves transitions between different functional conformations, which can be disrupted by non-native membrane mimetics. Capturing these conformations and their transitions within native cellular membranes presents a notable challenge. Herein, we used in situ solid-state nuclear magnetic resonance (NMR) to resolve the 1.5-Å outward-open and 2.5-Å occluded structures of Bj SemiSWEET within its native cellular membranes. Our findings reveal that these two conformations exchange within transmembrane helix TM1 and Loop L2-3 on a millisecond to second timescale, with the exchange rate corresponding to the sucrose transport rate. Molecular dynamics simulations further confirmed that these conformations represent functional states during sucrose transport. In contrast, we observed different conformational dynamics of Bj SemiSWEET in DMPC/DMPG synthetic bilayers compared to cellular membranes. This study highlights the potential of in situ solid-state NMR to provide previously unknown dynamic structural insights into cellular molecular processes, representing a substantial advancement in dynamic cellular structural biology.


  • Organizational Affiliation
    • National Center for Magnetic Resonance in Wuhan, Key Laboratory of Magnetic Resonance in Biological Systems, State Key Laboratory of Magnetic Resonance and Atomic and Molecular Physics, Wuhan Institute of Physics and Mathematics, Innovation Academy for Precision Measurement Science and Technology, Chinese Academy of Sciences, Wuhan 430071, P. R. China.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Sugar transporter SemiSWEET
A, B
86Bradyrhizobium diazoefficiens USDA 110Mutation(s): 0 
Gene Names: bsr6460
Membrane Entity: Yes 
UniProt
Find proteins for Q89G85 (Bradyrhizobium diazoefficiens (strain JCM 10833 / BCRC 13528 / IAM 13628 / NBRC 14792 / USDA 110))
Explore Q89G85 
Go to UniProtKB:  Q89G85
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ89G85
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: SOLID-STATE NMR
  • Conformers Calculated: 1000 
  • Conformers Submitted: 10 
  • Selection Criteria: structures with the lowest energy 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China22434003
National Natural Science Foundation of China (NSFC)China22004124
Chinese Academy of SciencesChinaYJKYYQ20190032
Chinese Academy of SciencesChinaXDB0540000

Revision History  (Full details and data files)

  • Version 1.0: 2025-09-10
    Type: Initial release
  • Version 1.1: 2025-12-10
    Changes: Database references