3K5B

Crystal structure of the peripheral stalk of Thermus thermophilus H+-ATPase/synthase


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.232 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

The structure of the peripheral stalk of Thermus thermophilus H(+)-ATPase/synthase.

Lee, L.K.Stewart, A.G.Donohoe, M.Bernal, R.A.Stock, D.

(2010) Nat.Struct.Mol.Biol. 17: 373-378

  • DOI: 10.1038/nsmb.1761

  • PubMed Abstract: 
  • Proton-translocating ATPases are ubiquitous protein complexes that couple ATP catalysis with proton translocation via a rotary catalytic mechanism. The peripheral stalks are essential components that counteract torque generated from proton translocat ...

    Proton-translocating ATPases are ubiquitous protein complexes that couple ATP catalysis with proton translocation via a rotary catalytic mechanism. The peripheral stalks are essential components that counteract torque generated from proton translocation during ATP synthesis or from ATP hydrolysis during proton pumping. Despite their essential role, the peripheral stalks are the least conserved component of the complexes, differing substantially between subtypes in composition and stoichiometry. We have determined the crystal structure of the peripheral stalk of the A-type ATPase/synthase from Thermus thermophilus consisting of subunits E and G. The structure contains a heterodimeric right-handed coiled coil, a protein fold never observed before. We have fitted this structure into the 23 A resolution EM density of the intact A-ATPase complex, revealing the precise location of the peripheral stalk and new implications for the function and assembly of proton-translocating ATPases.


    Organizational Affiliation

    Structural and Computational Biology Division, The Victor Chang Cardiac Research Institute, Darlinghurst, Australia.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
V-type ATP synthase, subunit (VAPC-THERM)
G, B
104Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)N/A
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
Bacterial V-type ATPase
Protein: 
V1-ATPase atomic model derived from Cryo-EM reconstructions.
Find proteins for Q5SIT5 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
Go to UniProtKB:  Q5SIT5
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
V-type ATP synthase subunit E
E, A
188Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579)Gene Names: atpE (vatE)
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
Bacterial V-type ATPase
Protein: 
V1-ATPase atomic model derived from Cryo-EM reconstructions.
Find proteins for P74901 (Thermus thermophilus (strain HB8 / ATCC 27634 / DSM 579))
Go to UniProtKB:  P74901
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B, E, G
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.288 
  • R-Value Work: 0.232 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 75.781α = 90.00
b = 79.755β = 97.64
c = 75.796γ = 90.00
Software Package:
Software NamePurpose
PDB_EXTRACTdata extraction
BioCARSdata collection
MOSFLMdata reduction
SCALAdata scaling
REFMACrefinement
SHARPphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2010-02-23
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Advisory, Source and taxonomy, Version format compliance