7UWB

Citrus V-ATPase State 2, Highest-Resolution Class


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structure of V-ATPase from citrus fruit.

Tan, Y.Z.Keon, K.A.Abdelaziz, R.Imming, P.Schulze, W.Schumacher, K.Rubinstein, J.L.

(2022) Structure 30: 1403

  • DOI: https://doi.org/10.1016/j.str.2022.07.006
  • Primary Citation of Related Structures:  
    7UW9, 7UWA, 7UWB, 7UWC, 7UWD

  • PubMed Abstract: 

    We used the Legionella pneumophila effector SidK to affinity purify the endogenous vacuolar-type ATPases (V-ATPases) from lemon fruit. The preparation was sufficient for cryoelectron microscopy, allowing structure determination of the enzyme in two rotational states. The structure defines the ATP:H + ratio of the enzyme, demonstrating that it can establish a maximum ΔpH of ∼3, which is insufficient to maintain the low pH observed in the vacuoles of juice sac cells in lemons and other citrus fruit. Compared with yeast and mammalian enzymes, the membrane region of the plant V-ATPase lacks subunit f and possesses an unusual configuration of transmembrane α helices. Subunit H, which inhibits ATP hydrolysis in the isolated catalytic region of V-ATPase, adopts two different conformations in the intact complex, hinting at a role in modulating activity in the intact enzyme.


  • Organizational Affiliation

    Molecular Medicine Program, The Hospital for Sick Children Research Institute, Toronto, ON M5G 0A4, Canada.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
V-type proton ATPase catalytic subunit A
A, C, E
623Citrus x limonMutation(s): 0 
EC: 7.1.2.2
UniProt
Find proteins for Q9SM09 (Citrus unshiu)
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
V-type proton ATPase subunit B2
B, D, F
488Citrus x limonMutation(s): 0 
UniProt
Find proteins for A0A067FXK2 (Citrus sinensis)
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
V-type proton ATPase subunit E
G, I, K
230Citrus x limonMutation(s): 0 
UniProt
Find proteins for Q9MB46 (Citrus unshiu)
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
V-type proton ATPase subunit G
H, J, L
110Citrus x limonMutation(s): 0 
UniProt
Find proteins for A0A067DRZ4 (Citrus sinensis)
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UniProt GroupA0A067DRZ4
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
V-type proton ATPase subunit D259Citrus x limonMutation(s): 0 
UniProt
Find proteins for A0A067FFQ8 (Citrus sinensis)
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
V-type proton ATPase subunit F130Citrus x limonMutation(s): 0 
UniProt
Find proteins for A0A067E4V9 (Citrus sinensis)
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
V-type proton ATPase subunit C375Citrus x limonMutation(s): 0 
UniProt
Find proteins for A0A2H5Q4L7 (Citrus unshiu)
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
V-type proton ATPase subunit H452Citrus x limonMutation(s): 0 
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
V-type proton ATPase subunit a3Q [auth a]823Citrus x limonMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for V4UBK8 (Citrus clementina)
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
V-type proton ATPase subunit AP1 fragmentR [auth b]32Citrus x limonMutation(s): 0 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
V-type proton ATPase subunit c"S [auth c]182Citrus x limonMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for Q84V02 (Citrus limon)
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
V-type proton ATPase subunit d2T [auth d]351Citrus x limonMutation(s): 0 
UniProt
Find proteins for A0A067G267 (Citrus sinensis)
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
V-type proton ATPase subunit e1U [auth e]70Citrus x limonMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for A0A067F7P5 (Citrus sinensis)
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
V-type proton ATPase subunit c164Citrus x limonMutation(s): 0 
Membrane Entity: Yes 
UniProt
Find proteins for P0DH92 (Arabidopsis thaliana)
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
V-type proton ATPase subunit AP2 fragmentEA [auth r]24Citrus x limonMutation(s): 0 
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Natural Sciences and Engineering Research Council (NSERC, Canada)Canada--

Revision History  (Full details and data files)

  • Version 1.0: 2022-07-06
    Type: Initial release
  • Version 1.1: 2022-09-14
    Changes: Database references
  • Version 1.2: 2022-10-19
    Changes: Database references
  • Version 1.3: 2024-01-17
    Changes: Data collection