7K5B

Structure of outer-arm dynein bound to microtubule doublet in microtubule binding state 2 (MTBS-2)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 4.50 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history

Re-refinement Note

A newer entry is available that reflects an alternative modeling of the original data: 8BX8


Literature

Structures of outer-arm dynein array on microtubule doublet reveal a motor coordination mechanism.

Rao, Q.Han, L.Wang, Y.Chai, P.Kuo, Y.W.Yang, R.Hu, F.Yang, Y.Howard, J.Zhang, K.

(2021) Nat Struct Mol Biol 28: 799-810

  • DOI: https://doi.org/10.1038/s41594-021-00656-9
  • Primary Citation of Related Structures:  
    7K58, 7K5B, 7KEK, 7MWG, 7N32

  • PubMed Abstract: 

    Thousands of outer-arm dyneins (OADs) are arrayed in the axoneme to drive a rhythmic ciliary beat. Coordination among multiple OADs is essential for generating mechanical forces to bend microtubule doublets (MTDs). Using electron microscopy, we determined high-resolution structures of Tetrahymena thermophila OAD arrays bound to MTDs in two different states. OAD preferentially binds to MTD protofilaments with a pattern resembling the native tracks for its distinct microtubule-binding domains. Upon MTD binding, free OADs are induced to adopt a stable parallel conformation, primed for array formation. Extensive tail-to-head (TTH) interactions between OADs are observed, which need to be broken for ATP turnover by the dynein motor. We propose that OADs in an array sequentially hydrolyze ATP to slide the MTDs. ATP hydrolysis in turn relaxes the TTH interfaces to effect free nucleotide cycles of downstream OADs. These findings lead to a model explaining how conformational changes in the axoneme produce coordinated action of dyneins.


  • Organizational Affiliation

    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT, USA.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein heavy chain, outer arm protein4,615Tetrahymena thermophilaMutation(s): 0 
UniProt
Find proteins for Q22A67 (Tetrahymena thermophila (strain SB210))
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Outer arm dynein beta heavy chain4,588Tetrahymena thermophilaMutation(s): 0 
UniProt
Find proteins for I7M9J2 (Tetrahymena thermophila (strain SB210))
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
gamma heavy chain3,947Tetrahymena thermophilaMutation(s): 0 
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein intermediate chain 2595Tetrahymena thermophilaMutation(s): 0 
UniProt
Find proteins for I7M008 (Tetrahymena thermophila (strain SB210))
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Flagellar outer dynein arm intermediate protein, putative557Tetrahymena thermophilaMutation(s): 0 
UniProt
Find proteins for Q23FU1 (Tetrahymena thermophila (strain SB210))
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain roadblock-type 2 protein128Tetrahymena thermophilaMutation(s): 0 
UniProt
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain roadblock-type 2 protein151Tetrahymena thermophilaMutation(s): 0 
UniProt
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Entity ID: 8
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain91Tetrahymena thermophilaMutation(s): 0 
UniProt
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Entity ID: 9
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain106Tetrahymena thermophilaMutation(s): 0 
UniProt
Find proteins for Q1HFX0 (Tetrahymena thermophila)
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Entity ID: 10
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain95Tetrahymena thermophilaMutation(s): 0 
UniProt
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Entity ID: 11
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain90Tetrahymena thermophilaMutation(s): 0 
UniProt
Find proteins for Q1HFV9 (Tetrahymena thermophila)
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Entity ID: 12
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain111Tetrahymena thermophilaMutation(s): 0 
UniProt
Find proteins for W7XJB1 (Tetrahymena thermophila (strain SB210))
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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 protein114Tetrahymena thermophilaMutation(s): 0 
UniProt
Find proteins for A4VEB3 (Tetrahymena thermophila (strain SB210))
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Entity ID: 15
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain 2A120Tetrahymena thermophilaMutation(s): 0 
UniProt
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Entity ID: 16
MoleculeChains Sequence LengthOrganismDetailsImage
Thioredoxin112Tetrahymena thermophilaMutation(s): 0 
UniProt
Find proteins for A4VD75 (Tetrahymena thermophila (strain SB210))
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Entity ID: 17
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain 1192Tetrahymena thermophilaMutation(s): 0 
UniProt
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Entity ID: 18
MoleculeChains Sequence LengthOrganismDetailsImage
Dynein light chain 4A150Tetrahymena thermophilaMutation(s): 0 
UniProt
Find proteins for Q1HFX4 (Tetrahymena thermophila)
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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 
CA [auth B],
EA [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 
BA [auth B]
DA [auth B]
IA [auth C]
JA [auth C]
S [auth A]
BA [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 
AA [auth B]
FA [auth C]
GA [auth C]
HA [auth C]
V [auth A]
AA [auth B],
FA [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: 4.50 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: SINGLE PARTICLE 

Structure Validation

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Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2021-09-29
    Type: Initial release
  • Version 1.1: 2021-10-06
    Changes: Database references
  • Version 1.2: 2021-10-20
    Changes: Database references