8X1B | pdb_00008x1b

Cryo-EM structure of FpGalactosaminidase from Flavonifractor plautii in apo state


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.59 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.4 of the entry. See complete history


Literature

Structural basis of FpGalNase and its combination with FpGalNAcDeAc for efficient A-to-O blood group conversion.

Zhou, M.Luo, K.Su, C.Sun, Y.Huang, Z.Ma, S.Gao, X.Wang, J.Zhang, C.Han, P.Wu, G.

(2025) Exp Hematol Oncol 14: 7-7

  • DOI: https://doi.org/10.1186/s40164-025-00599-7
  • Primary Citation of Related Structures:  
    8X1B

  • PubMed Abstract: 

    Transfusion safety and blood typing continue to present significant challenges in clinical practice, including risks of incorrect blood transfusions and blood shortages. One promising solution is the enzymatic conversion of all red blood cell (RBC) types into universal O-type RBCs. However, the major obstacle to this strategy is the relatively low catalytic efficiency of the enzymes involved. In this study, we investigated two enzymes from Flavonifractor plautii, N-acetylgalactosamine deacetylase (FpGalNAcDeAc) and galactosaminidase (FpGalNase), which demonstrate synergistic activity in efficiently converting A-type RBCs to O-type. We optimized treatment conditions, achieving over 99% conversion in just five minutes using phosphate buffer saline and a 16 nM enzyme concentration. Additionally, we engineered two fusion proteins, FpGalNAcDeAc-FpGalNase and FpGalNase-FpGalNAcDeAc, which showed a 28-fold increase in catalytic efficiency compared to the enzyme mixture. Using cryo-electron microscopy, we resolved the full-length structure of FpGalNase, identifying critical active site residues involved in its catalytic mechanism. This study provides essential structural and biochemical insights for clinical applications in blood group conversion, offering a promising approach for producing universal O-type RBCs.


  • Organizational Affiliation
    • Jiangsu Provincial Key Laboratory of Critical Care Medicine, Advanced Institute for Life and Health, Center of Clinical Laboratory Medicine, Department of Pharmacy, School of Medicine, Zhongda Hospital, Southeast University, Nanjing, 210009, China.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Alpha-galactosidase658Flavonifractor plautiiMutation(s): 1 
Gene Names: ERS852411_00574
EC: 3.2.1
UniProt
Find proteins for P0DTR5 (Flavonifractor plautii)
Explore P0DTR5 
Go to UniProtKB:  P0DTR5
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0DTR5
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.59 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
Not funded--

Revision History  (Full details and data files)

  • Version 1.0: 2024-11-13
    Type: Initial release
  • Version 1.1: 2024-11-27
    Changes: Data collection
  • Version 1.2: 2025-05-28
    Changes: Data collection, Database references, Structure summary
  • Version 1.3: 2025-06-04
    Changes: Data collection, Database references, Structure summary
  • Version 1.4: 2025-07-02
    Changes: Data collection, Database references