6LY9

The membrane-embedded Vo domain of V/A-ATPase from Thermus thermophilus


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.93 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

Mechanical inhibition of isolated V o from V/A-ATPase for proton conductance.

Kishikawa, J.I.Nakanishi, A.Furuta, A.Kato, T.Namba, K.Tamakoshi, M.Mitsuoka, K.Yokoyama, K.

(2020) Elife 9

  • DOI: 10.7554/eLife.56862
  • Primary Citation of Related Structures:  
    6LY8, 6LY9

  • PubMed Abstract: 
  • V-ATPase is an energy converting enzyme, coupling ATP hydrolysis/synthesis in the hydrophilic V 1 domain, with proton flow through the V o membrane domain, via rotation of the central rotor complex relative to the surrounding stator apparatus ...

    V-ATPase is an energy converting enzyme, coupling ATP hydrolysis/synthesis in the hydrophilic V 1 domain, with proton flow through the V o membrane domain, via rotation of the central rotor complex relative to the surrounding stator apparatus. Upon dissociation from the V 1 domain, the V o domain of the eukaryotic V-ATPase can adopt a physiologically relevant auto-inhibited form in which proton conductance through the V o domain is prevented, however the molecular mechanism of this inhibition is not fully understood. Using cryo-electron microscopy, we determined the structure of both the holo V/A-ATPase and isolated V o at near-atomic resolution, respectively. These structures clarify how the isolated V o domain adopts the auto-inhibited form and how the holo complex prevents formation of the inhibited V o form.


    Organizational Affiliation

    Department of Molecular Biosciences, Kyoto Sangyo University, Kamigamo-Motoyama, Kyoto, Japan.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
V-type ATP synthase subunit IA [auth N]652Thermus thermophilus HB8Mutation(s): 0 
Gene Names: TTHA1278
Membrane Entity: Yes 
UniProt
Find proteins for Q5SIT6 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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Go to UniProtKB:  Q5SIT6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ5SIT6
Protein Feature View
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
V-type ATP synthase, subunit K99Thermus thermophilus HB8Mutation(s): 0 
Gene Names: TTHA1277
Membrane Entity: Yes 
UniProt
Find proteins for Q5SIT7 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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Go to UniProtKB:  Q5SIT7
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UniProt GroupQ5SIT7
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
V-type ATP synthase subunit CN [auth M]323Thermus thermophilus HB8Mutation(s): 0 
Gene Names: atpCTTHA1275
UniProt
Find proteins for P74902 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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UniProt GroupP74902
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
V-type ATP synthase, subunit (VAPC-THERM)O [auth K]120Thermus thermophilus HB8Mutation(s): 0 
Gene Names: TTHA1279
UniProt
Find proteins for Q5SIT5 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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UniProt GroupQ5SIT5
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
V-type ATP synthase subunit EP [auth L]188Thermus thermophilus HB8Mutation(s): 0 
Gene Names: atpEvatETTHA1276
UniProt
Find proteins for P74901 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8))
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Go to UniProtKB:  P74901
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UniProt GroupP74901
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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.93 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Japan Society for the Promotion of Science (JSPS)Japan17H03648
Japan Agency for Medical Research and Development (AMED)JapanJP17am0101001
Ministry of Education, Culture, Sports, Science and Technology (Japan)Japan12024046

Revision History  (Full details and data files)

  • Version 1.0: 2020-09-09
    Type: Initial release
  • Version 1.1: 2020-09-30
    Changes: Database references