1YCE

Structure of the rotor ring of F-type Na+-ATPase from Ilyobacter tartaricus


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.201 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure of the rotor ring of F-Type Na+-ATPase from Ilyobacter tartaricus.

Meier, T.Polzer, P.Diederichs, K.Welte, W.Dimroth, P.

(2005) Science 308: 659-662

  • DOI: 10.1126/science.1111199
  • Also Cited By: 2WPD

  • PubMed Abstract: 
  • In the crystal structure of the membrane-embedded rotor ring of the sodium ion-translocating adenosine 5'-triphosphate (ATP) synthase of Ilyobacter tartaricus at 2.4 angstrom resolution, 11 c subunits are assembled into an hourglass-shaped cylinder w ...

    In the crystal structure of the membrane-embedded rotor ring of the sodium ion-translocating adenosine 5'-triphosphate (ATP) synthase of Ilyobacter tartaricus at 2.4 angstrom resolution, 11 c subunits are assembled into an hourglass-shaped cylinder with 11-fold symmetry. Sodium ions are bound in a locked conformation close to the outer surface of the cylinder near the middle of the membrane. The structure supports an ion-translocation mechanism in the intact ATP synthase in which the binding site converts from the locked conformation into one that opens toward subunit a as the rotor ring moves through the subunit a/c interface.


    Organizational Affiliation

    Institut für Mikrobiologie, Eidgenössische Technische Hochschule (ETH), Zürich Hönggerberg, Wolfgang-Pauli-Str. 10, CH-8093 Zürich, Switzerland.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
subunit c
A, B, C, D, E, F, G, H, I, J, K, L, M, N, O, P, Q, R, S, T, U, V, a, b, c, d, e, f, g, h, i, j, k, l, m, n, o, p, q, r, s, t, u, v
89Ilyobacter tartaricusGene Names: atpE
Membrane protein
mpstruct
Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL
Sub Group: 
F-type ATPase
Protein: 
Rotor (c11) of Na+-dependent F-ATP Synthase
Find proteins for Q8KRV3 (Ilyobacter tartaricus)
Go to UniProtKB:  Q8KRV3
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
NA
Query on NA

Download SDF File 
Download CCD File 
A, a, b, B, c, C, d, D, e, E, F, f, G, g, h, H, I, i, J, j, K, k, L, l, m, M, n, N, O, o, P, p, q, Q, R, r, S, s, t, T, u, U, V, v
SODIUM ION
Na
FKNQFGJONOIPTF-UHFFFAOYSA-N
 Ligand Interaction
F09
Query on F09

Download SDF File 
Download CCD File 
A, a, B, b, C, c, d, D, e, E, f, F, G, g, h, H, I, i, j, J, K, k, l, L, m, M, N, n, O, o, p, P, q, Q, R, r, S, s, t, T, u, U, v, V
NONAN-1-OL
C9 H20 O
ZWRUINPWMLAQRD-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.4 Å
  • R-Value Free: 0.246 
  • R-Value Work: 0.201 
  • Space Group: P 1 21 1
Unit Cell:
Length (Å)Angle (°)
a = 147.700α = 90.00
b = 140.000β = 118.40
c = 153.000γ = 90.00
Software Package:
Software NamePurpose
PHASERphasing
XDSdata scaling
REFMACrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2005-04-12
    Type: Initial release
  • Version 1.1: 2008-04-30
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Advisory, Version format compliance