7D73

Cryo-EM structure of GMPPA/GMPPB complex bound to GTP (State I)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.00 Å
  • Aggregation State: CELL 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Cryo-EM structures of human GMPPA-GMPPB complex reveal how cells maintain GDP-mannose homeostasis.

Zheng, L.Liu, Z.Wang, Y.Yang, F.Wang, J.Huang, W.Qin, J.Tian, M.Cai, X.Liu, X.Mo, X.Gao, N.Jia, D.

(2021) Nat Struct Mol Biol 28: 1-12

  • DOI: 10.1038/s41594-021-00591-9
  • Primary Citation of Related Structures:  
    7D72, 7D73, 7D74

  • PubMed Abstract: 
  • GDP-mannose (GDP-Man) is a key metabolite essential for protein glycosylation and glycophosphatidylinositol anchor synthesis, and aberrant cellular GDP-Man levels have been associated with multiple human diseases. How cells maintain homeostasis of GDP-Man is unknown ...

    GDP-mannose (GDP-Man) is a key metabolite essential for protein glycosylation and glycophosphatidylinositol anchor synthesis, and aberrant cellular GDP-Man levels have been associated with multiple human diseases. How cells maintain homeostasis of GDP-Man is unknown. Here, we report the cryo-EM structures of human GMPPA-GMPPB complex, the protein machinery responsible for GDP-Man synthesis, in complex with GDP-Man or GTP. Unexpectedly, we find that the catalytically inactive subunit GMPPA displays a much higher affinity to GDP-Man than the active subunit GMPPB and, subsequently, inhibits the catalytic activity of GMPPB through a unique C-terminal loop of GMPPA. Importantly, disruption of the interactions between GMPPA and GMPPB or the binding of GDP-Man to GMPPA in zebrafish leads to abnormal brain development and muscle abnormality, analogous to phenotypes observed in individuals carrying GMPPA or GMPPB mutations. We conclude that GMPPA acts as a cellular sensor to maintain mannose homeostasis through allosterically regulating GMPPB.


    Organizational Affiliation

    Key Laboratory of Birth Defects and Related Diseases of Women and Children, Department of Paediatrics, West China Second University Hospital, State Key Laboratory of Biotherapy, Sichuan University, Chengdu, China. Jiada@scu.edu.cn.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Mannose-1-phosphate guanyltransferase alphaA,
B,
D [auth C],
E [auth D]
420Homo sapiensMutation(s): 0 
Gene Names: GMPPA
UniProt & NIH Common Fund Data Resources
Find proteins for Q96IJ6 (Homo sapiens)
Explore Q96IJ6 
Go to UniProtKB:  Q96IJ6
PHAROS:  Q96IJ6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ96IJ6
Protein Feature View
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  • Reference Sequence
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
Mannose-1-phosphate guanyltransferase beta360Homo sapiensMutation(s): 0 
Gene Names: GMPPB
EC: 2.7.7.13
UniProt & NIH Common Fund Data Resources
Find proteins for Q9Y5P6 (Homo sapiens)
Explore Q9Y5P6 
Go to UniProtKB:  Q9Y5P6
PHAROS:  Q9Y5P6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9Y5P6
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.00 Å
  • Aggregation State: CELL 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Science Foundation (NSF, China)--

Revision History  (Full details and data files)

  • Version 1.0: 2021-05-05
    Type: Initial release
  • Version 1.1: 2021-11-17
    Changes: Database references, Structure summary
  • Version 1.2: 2021-12-01
    Changes: Database references