7EOZ | pdb_00007eoz

The structure of rice Defective Pollen Wall (DPW) in the complex with its cofactor NADP


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.40 Å
  • R-Value Free: 
    0.240 (Depositor), 0.230 (DCC) 
  • R-Value Work: 
    0.191 (Depositor), 0.220 (DCC) 
  • R-Value Observed: 
    0.194 (Depositor) 

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This is version 1.2 of the entry. See complete history


Literature

Structural basis for the dual roles of DPW in lipid and UDP-sugar metabolism during rice anther development.

Qu, S.Wang, J.Li, G.Miao, C.Yan, L.Wang, W.

(2025) Plant Physiol Biochem 222: 109762-109762

  • DOI: https://doi.org/10.1016/j.plaphy.2025.109762
  • Primary Citation of Related Structures:  
    7EOZ

  • PubMed Abstract: 

    Fatty acids and uridine diphosphate (UDP)-sugars are essential metabolites involved in the biosynthesis of polysaccharides and lipids, both of which are critical for anther development in plants. Our previous study identified Defective Pollen Wall (DPW), a rice fatty acyl carrier protein reductase (FAR), as a key factor in pollen wall formation. In this study, we demonstrate that the structure of DPW in complex with its cofactor NADP + exhibits structural similarities to that of UDP-glucose epimerase (UGE). In vitro enzymatic assays utilizing recombinant DPW confirmed its ability to interconvert UDP-glucose (UDP-Glc) and UDP-galactose (UDP-Gal) in an NADP(H)-dependent manner. Mutations in conserved NADP(H)-binding residues abolished both DPW's FAR and UGE activities. In vivo assays showed that the dpw mutation causes UDP-Glc accumulation, disrupting the balance between UDP-Glc and UDP-Gal in rice anthers. Taken together, our findings provide insights into the dual roles of DPW in lipid and UDP-sugar metabolism during rice anther development, shedding light on how plants integrate metabolic pathways through multifunctional enzymes to regulate male reproductive development.


  • Organizational Affiliation
    • State Key Laboratory of Crop Stress Adaptation and Improvement, The Zhongzhou Laboratory for Integrative Biology, School of Life Sciences, Henan University, Jinming Avenue 1, Kaifeng, 475004, China.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Fatty acyl-CoA reductase
A, B
532Oryza sativa Japonica GroupMutation(s): 0 
Gene Names: OSJNBa0091P11.14Os03g0167600
EC: 1.2.1.84
UniProt
Find proteins for Q8S7T9 (Oryza sativa subsp. japonica)
Explore Q8S7T9 
Go to UniProtKB:  Q8S7T9
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8S7T9
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.40 Å
  • R-Value Free:  0.240 (Depositor), 0.230 (DCC) 
  • R-Value Work:  0.191 (Depositor), 0.220 (DCC) 
  • R-Value Observed: 0.194 (Depositor) 
Space Group: P 61
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 222.814α = 90
b = 222.814β = 90
c = 114.024γ = 120
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data scaling
PDB_EXTRACTdata extraction
HKL-2000data reduction
PHENIXphasing

Structure Validation

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Ligand Structure Quality Assessment 


Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Other governmentChina2017YFC0840300

Revision History  (Full details and data files)

  • Version 1.0: 2022-08-24
    Type: Initial release
  • Version 1.1: 2024-05-29
    Changes: Data collection
  • Version 1.2: 2025-03-19
    Changes: Database references, Structure summary