5T4O

Autoinhibited E. coli ATP synthase state 1

Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 6.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history. 


Literature

Cryo-EM structures of the autoinhibitedE. coliATP synthase in three rotational states.

Sobti, M., Smits, C., Wong, A.S., Ishmukhametov, R., Stock, D., Sandin, S., Stewart, A.G.

(2016) Elife 5

  • DOI: 10.7554/eLife.21598
  • Primary Citation of Related Structures:  
    5T4P, 5T4O, 5T4Q

  • PubMed Abstract: 

    • A molecular model that provides a framework for interpreting the wealth of functional information obtained on the E. coli F-ATP synthase has been generated using cryo-electron microscopy. Three different states that relate to rotation of the enzyme were observed, with the central stalk's ε subunit in an extended autoinhibitory conformation in all three states ...

    A molecular model that provides a framework for interpreting the wealth of functional information obtained on the E. coli F-ATP synthase has been generated using cryo-electron microscopy. Three different states that relate to rotation of the enzyme were observed, with the central stalk's ε subunit in an extended autoinhibitory conformation in all three states. The F o motor comprises of seven transmembrane helices and a decameric c-ring and invaginations on either side of the membrane indicate the entry and exit channels for protons. The proton translocating subunit contains near parallel helices inclined by ~30° to the membrane, a feature now synonymous with rotary ATPases. For the first time in this rotary ATPase subtype, the peripheral stalk is resolved over its entire length of the complex, revealing the F 1 attachment points and a coiled-coil that bifurcates toward the membrane with its helices separating to embrace subunit a from two sides.

    Organizational Affiliation: 

    Faculty of Medicine, The University of New South Wales, Sydney, Australia.



Macromolecules
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Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
ATP synthase subunit alphaA, B, C513Escherichia coliMutation(s): 0 
Gene Names: atpA, ECS88_4156
EC: 3.6.3.14 (PDB Primary Data), 7.1.2.2 (UniProt)
Membrane protein
Mpstruc		Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group: 
F-type ATPase		Protein: 
F1Fo ATP synthase, cryo-EM structure, state 1
Find proteins for P0ABB0 (Escherichia coli (strain K12))
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Entity ID: 2
MoleculeChainsSequence LengthOrganismDetailsImage
ATP synthase subunit betaD, E, F471Escherichia coliMutation(s): 0 
Gene Names: atpD, ECS88_4154
EC: 3.6.3.14 (PDB Primary Data), 7.1.2.2 (UniProt)
Membrane protein
Mpstruc		Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group: 
F-type ATPase		Protein: 
F1Fo ATP synthase, cryo-EM structure, state 1
Find proteins for P0ABB4 (Escherichia coli (strain K12))
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Entity ID: 3
MoleculeChainsSequence LengthOrganismDetailsImage
ATP synthase gamma chainG287Escherichia coliMutation(s): 0 
Gene Names: atpG, ECS88_4155
Membrane protein
Mpstruc		Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group: 
F-type ATPase		Protein: 
F1Fo ATP synthase, cryo-EM structure, state 1
Find proteins for P0ABA6 (Escherichia coli (strain K12))
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Entity ID: 4
MoleculeChainsSequence LengthOrganismDetailsImage
ATP synthase epsilon chainH139Escherichia coliMutation(s): 0 
Gene Names: atpC, ECS88_4153
Membrane protein
Mpstruc		Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group: 
F-type ATPase		Protein: 
F1Fo ATP synthase, cryo-EM structure, state 1
Find proteins for P0A6E6 (Escherichia coli (strain K12))
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Entity ID: 5
MoleculeChainsSequence LengthOrganismDetailsImage
ATP synthase subunit bI, J155Escherichia coliMutation(s): 0 
Gene Names: atpF, Z5234, ECs4678
Membrane protein
Mpstruc		Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group: 
F-type ATPase		Protein: 
F1Fo ATP synthase, cryo-EM structure, state 1
Find proteins for P0ABA0 (Escherichia coli (strain K12))
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Entity ID: 6
MoleculeChainsSequence LengthOrganismDetailsImage
ATP synthase subunit aK271Escherichia coliMutation(s): 0 
Gene Names: atpB, EC55989_4213
Membrane protein
Mpstruc		Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group: 
F-type ATPase		Protein: 
F1Fo ATP synthase, cryo-EM structure, state 1
Find proteins for P0AB98 (Escherichia coli (strain K12))
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Entity ID: 7
MoleculeChainsSequence LengthOrganismDetailsImage
ATP synthase subunit deltaL177Escherichia coliMutation(s): 0 
Gene Names: atpH, ECS88_4157
Membrane protein
Mpstruc		Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group: 
F-type ATPase		Protein: 
F1Fo ATP synthase, cryo-EM structure, state 1
Find proteins for P0ABA4 (Escherichia coli (strain K12))
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Entity ID: 8
MoleculeChainsSequence LengthOrganismDetailsImage
ATP synthase subunit c
M, N, O, P, Q, R, S, T
M, N, O, P, Q, R, S, T, U, V
79Escherichia coliMutation(s): 0 
Gene Names: atpE, ECIAI39_4341
Membrane protein
Mpstruc		Group: 
TRANSMEMBRANE PROTEINS: ALPHA-HELICAL		Sub Group: 
F-type ATPase		Protein: 
F1Fo ATP synthase, cryo-EM structure, state 1
Find proteins for P68699 (Escherichia coli (strain K12))
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Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ATP
Query on ATP
Download Ideal Coordinates CCD File 
 W [auth A], X [auth B], Y [auth C]ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N		 Ligand Interaction
ADP
Query on ADP
Download Ideal Coordinates CCD File 
 Z [auth F]ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N		 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 6.90 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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View more in-depth experimental data

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2016-12-28
    Type: Initial release
  • Version 1.1: 2017-01-04
    Changes: Database references
  • Version 1.2: 2018-03-28
    Changes: Data collection, Database references