9UGC | pdb_00009ugc

Cryo-EM structure of the Pma1 with ordered N-terminal extension in the autoinhibited state


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.52 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Assembly and cooperative mechanism of the hexameric fungal plasma membrane H + -ATPase.

You, Z.L.Ni, Y.R.Song, Y.Li, H.Liu, K.Z.Wang, L.X.Zhao, C.R.Zhao, P.Chen, D.D.Wang, L.Wang, K.Xia, P.Gu, Y.C.Yun, C.Bai, L.

(2025) Cell Rep 44: 115753-115753

  • DOI: https://doi.org/10.1016/j.celrep.2025.115753
  • Primary Citation of Related Structures:  
    9UGB, 9UGC

  • PubMed Abstract: 

    The fungal plasma membrane H+-ATPase Pma1 hydrolyzes ATP to pump protons out of the cell to maintain the intracellular pH and membrane potential. Pma1 is unique among the P-type ATPases as it functions as a hexamer, although the underlying mechanism has been unclear. Here, we show that the Pma1 hexamer functions cooperatively, and the cooperativity is mediated by the domain-swapped N-terminal extension (NTE). The NTE of one Pma1 subunit binds to the nucleotide-binding domain of a neighboring subunit and, thus, couples the conformational changes of two neighboring subunits, enabling inter-subunit cooperativity of the ATPase activity by the hexamer. We further demonstrate that the NTE is essential for Pma1's cooperative activity and physiological function. Therefore, our work suggests that Pma1 assembles a hexamer to promote a more efficient proton-pumping activity, perhaps to rapidly respond to environmental changes, and may facilitate antifungal drug development targeting Pma1.


  • Organizational Affiliation
    • Department of Biophysics, School of Basic Medical Sciences, Peking University, Beijing 100191, China.

Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Plasma membrane ATPase 1
A, B
918Saccharomyces cerevisiae S288CMutation(s): 0 
EC: 7.1.2.1
UniProt
Find proteins for P05030 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c))
Explore P05030 
Go to UniProtKB:  P05030
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP05030
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.52 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.20.1_4487

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China32171212

Revision History  (Full details and data files)

  • Version 1.0: 2025-06-04
    Type: Initial release
  • Version 1.1: 2025-12-17
    Changes: Data collection, Database references