8BX8

In situ outer dynein arm from Chlamydomonas reinhardtii in the post-power stroke state


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 30.3 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SUBTOMOGRAM AVERAGING 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history

Re-refinement Note

This entry reflects an alternative modeling of the original data in: 7K5B


Literature

ATP-induced conformational change of axonemal outer dynein arms revealed by cryo-electron tomography.

Zimmermann, N.Noga, A.Obbineni, J.M.Ishikawa, T.

(2023) EMBO J 42: e112466-e112466

  • DOI: https://doi.org/10.15252/embj.2022112466
  • Primary Citation of Related Structures:  
    8BWY, 8BX8

  • PubMed Abstract: 

    Axonemal outer dynein arm (ODA) motors generate force for ciliary beating. We analyzed three states of the ODA during the power stroke cycle using in situ cryo-electron tomography, subtomogram averaging, and classification. These states of force generation depict the prepower stroke, postpower stroke, and intermediate state conformations. Comparison of these conformations to published in vitro atomic structures of cytoplasmic dynein, ODA, and the Shulin-ODA complex revealed differences in the orientation and position of the dynein head. Our analysis shows that in the absence of ATP, all dynein linkers interact with the AAA3/AAA4 domains, indicating that interactions with the adjacent microtubule doublet B-tubule direct dynein orientation. For the prepower stroke conformation, there were changes in the tail that is anchored on the A-tubule. We built models starting with available high-resolution structures to generate a best-fitting model structure for the in situ pre- and postpower stroke ODA conformations, thereby showing that ODA in a complex with Shulin adopts a similar conformation as the active prepower stroke ODA in the axoneme.


  • Organizational Affiliation

    Paul Scherrer Institut (PSI), Laboratory of Nanoscale Biology, Villigen PSI, Switzerland.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein heavy chain, outer arm protein4,620Tetrahymena thermophilaMutation(s): 0 
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Outer arm dynein beta heavy chain4,595Tetrahymena thermophilaMutation(s): 0 
UniProt
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein-1-alpha heavy chain, flagellar inner arm I1 complex protein, putative4,168Tetrahymena thermophilaMutation(s): 0 
UniProt
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein intermediate chain 2657Tetrahymena thermophilaMutation(s): 0 
UniProt
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Flagellar outer dynein arm intermediate protein, putative670Tetrahymena thermophilaMutation(s): 0 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain roadblock-type 2 protein133Tetrahymena thermophilaMutation(s): 0 
UniProt
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain roadblock-type 2 protein159Tetrahymena thermophilaMutation(s): 0 
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain92Tetrahymena thermophilaMutation(s): 0 
UniProt
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain110Tetrahymena thermophilaMutation(s): 0 
UniProt
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain95Tetrahymena thermophilaMutation(s): 0 
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain93Tetrahymena thermophilaMutation(s): 0 
UniProt
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain111Tetrahymena thermophilaMutation(s): 0 
UniProt
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Entity ID: 13
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain87Tetrahymena thermophilaMutation(s): 0 
UniProt
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Entity ID: 14
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain tctex-type 1 protein117Tetrahymena thermophilaMutation(s): 0 
UniProt
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain 2A132Tetrahymena thermophilaMutation(s): 0 
UniProt
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
Thioredoxin122Tetrahymena thermophilaMutation(s): 0 
UniProt
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain 1202Tetrahymena thermophilaMutation(s): 0 
UniProt
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain 4A160Tetrahymena thermophilaMutation(s): 0 
UniProt
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Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ATP
Query on ATP

Download Ideal Coordinates CCD File 
AA [auth B],
FA [auth C],
T [auth A]
ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
ADP
Query on ADP

Download Ideal Coordinates CCD File 
CA [auth B]
DA [auth B]
IA [auth C]
JA [auth C]
S [auth A]
CA [auth B],
DA [auth B],
IA [auth C],
JA [auth C],
S [auth A],
U [auth A]
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
MG
Query on MG

Download Ideal Coordinates CCD File 
BA [auth B]
EA [auth C]
GA [auth C]
HA [auth C]
V [auth A]
BA [auth B],
EA [auth C],
GA [auth C],
HA [auth C],
V [auth A],
W [auth A],
X [auth A],
Y [auth B],
Z [auth B]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 30.3 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SUBTOMOGRAM AVERAGING 

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Swiss National Science FoundationSwitzerlandNF310030_192644

Revision History  (Full details and data files)

  • Version 1.0: 2023-05-10
    Type: Initial release
  • Version 1.1: 2023-06-28
    Changes: Database references