9G11 | pdb_00009g11

sugar/H+ symporter STP6 in inward occluded conformation with glucose bound


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free: 
    0.252 (Depositor), 0.258 (DCC) 
  • R-Value Work: 
    0.227 (Depositor), 0.228 (DCC) 
  • R-Value Observed: 
    0.230 (Depositor) 

Starting Model: experimental
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This is version 1.2 of the entry. See complete history


Literature

Comparative analysis of STP6 and STP10 unravels molecular selectivity in sugar transport proteins.

Andersen, C.G.Bavnhoj, L.Brag, S.Bohush, A.Chrenkova, A.Driller, J.H.Pedersen, B.P.

(2025) Proc Natl Acad Sci U S A 122: e2417370122-e2417370122

  • DOI: https://doi.org/10.1073/pnas.2417370122
  • Primary Citation of Related Structures:  
    9G11

  • PubMed Abstract: 

    The distribution of sugars is crucial for plant energy, signaling, and defense mechanisms. Sugar Transport Proteins (STPs) are Sugar Porters (SPs) that mediate proton-driven cellular uptake of glucose. Some STPs also transport fructose, while others remain highly selective for only glucose. What determines this selectivity, allowing STPs to distinguish between compounds with highly similar chemical composition, remains unknown. Here, we present the structure of Arabidopsis thaliana STP6 in an inward-occluded conformational state with glucose bound and demonstrate its role as both a glucose and fructose transporter. We perform a comparative analysis of STP6 with the glucose-selective STP10 using in vivo and in vitro systems, demonstrating how different experimental setups strongly influence kinetic transport properties. We analyze the properties of the monosaccharide binding site and show that the position of a single methyl group in the binding site is sufficient to shuffle glucose and fructose specificity, providing detailed insights into the fine-tuned dynamics of affinity-induced specificity for sugar uptake. Altogether, these findings enhance our understanding of sugar selectivity in STPs and more broadly SP proteins.


  • Organizational Affiliation

    Department of Molecular Biology and Genetics, Aarhus University, Aarhus C DK-8000, Denmark.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Sugar transport protein 6507Arabidopsis thalianaMutation(s): 0 
Gene Names: STP6At3g05960F2O10.8
Membrane Entity: Yes 
UniProt
Find proteins for Q9SFG0 (Arabidopsis thaliana)
Explore Q9SFG0 
Go to UniProtKB:  Q9SFG0
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9SFG0
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.20 Å
  • R-Value Free:  0.252 (Depositor), 0.258 (DCC) 
  • R-Value Work:  0.227 (Depositor), 0.228 (DCC) 
  • R-Value Observed: 0.230 (Depositor) 
Space Group: P 32 2 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 122.221α = 90
b = 122.221β = 90
c = 139.091γ = 120
Software Package:
Software NamePurpose
PHENIXrefinement
Aimlessdata scaling
XDSdata reduction
PHASERphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
European Research Council (ERC)European Union637372

Revision History  (Full details and data files)

  • Version 1.0: 2024-08-14
    Type: Initial release
  • Version 1.1: 2024-10-30
    Changes: Advisory, Database references, Derived calculations, Structure summary
  • Version 1.2: 2025-08-27
    Changes: Database references