7Z8I

The barbed end complex of dynactin bound to BICDR1 and the cytoplasmic dynein tails (A2, B1, B2)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 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

Structure of dynein-dynactin on microtubules shows tandem adaptor binding.

Chaaban, S.Carter, A.P.

(2022) Nature 610: 212-216

  • DOI: https://doi.org/10.1038/s41586-022-05186-y
  • Primary Citation of Related Structures:  
    7Z8F, 7Z8G, 7Z8H, 7Z8I, 7Z8J, 7Z8K, 7Z8L, 7Z8M

  • PubMed Abstract: 

    Cytoplasmic dynein is a microtubule motor that is activated by its cofactor dynactin and a coiled-coil cargo adaptor 1-3 . Up to two dynein dimers can be recruited per dynactin, and interactions between them affect their combined motile behaviour 4-6 . Different coiled-coil adaptors are linked to different cargos 7,8 , and some share motifs known to contact sites on dynein and dynactin 4,9-13 . There is limited structural information on how the resulting complex interacts with microtubules and how adaptors are recruited. Here we develop a cryo-electron microscopy processing pipeline to solve the high-resolution structure of dynein-dynactin and the adaptor BICDR1 bound to microtubules. This reveals the asymmetric interactions between neighbouring dynein motor domains and how they relate to motile behaviour. We found that two adaptors occupy the complex. Both adaptors make similar interactions with the dyneins but diverge in their contacts with each other and dynactin. Our structure has implications for the stability and stoichiometry of motor recruitment by cargos.


  • Organizational Affiliation

    Division of Structural Studies, Medical Research Council Laboratory of Molecular Biology, Cambridge, UK.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
ARP1 actin related protein 1 homolog A
A, B, C, D, E
A, B, C, D, E, F
376Sus scrofaMutation(s): 0 
UniProt
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UniProt GroupF2Z5G5
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Capping protein (Actin filament) muscle Z-line, alpha 1G [auth K]286Sus scrofaMutation(s): 0 
UniProt
Find proteins for A0A4X1T8I3 (Sus scrofa)
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UniProt GroupA0A4X1T8I3
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
F-actin capping protein beta subunitH [auth L]272Sus scrofaMutation(s): 0 
UniProt
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UniProt GroupA0PFK7
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
BICD family-like cargo adapter 1I [auth X],
Q [auth x]
577Mus musculusMutation(s): 0 
Gene Names: Bicdl1Bicdr1Ccdc64
UniProt & NIH Common Fund Data Resources
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IMPC:  MGI:1922915
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UniProt GroupA0JNT9
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Entity ID: 5
MoleculeChains Sequence LengthOrganismDetailsImage
Cytoplasmic dynein 1 heavy chain 1J [auth f],
M [auth m],
N [auth n]
4,646Homo sapiensMutation(s): 0 
Gene Names: DYNC1H1DHC1DNCH1DNCLDNECLDYHCKIAA0325
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PHAROS:  Q14204
GTEx:  ENSG00000197102 
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Entity ID: 6
MoleculeChains Sequence LengthOrganismDetailsImage
Cytoplasmic dynein 1 intermediate chain 2K [auth h],
O [auth o]
638Homo sapiensMutation(s): 0 
Gene Names: DYNC1I2DNCI2DNCIC2
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PHAROS:  Q13409
GTEx:  ENSG00000077380 
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Entity ID: 7
MoleculeChains Sequence LengthOrganismDetailsImage
Cytoplasmic dynein 1 light intermediate chain 2L [auth j],
P [auth r]
492Homo sapiensMutation(s): 0 
Gene Names: DYNC1LI2DNCLI2LIC2
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PHAROS:  O43237
GTEx:  ENSG00000135720 
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Small Molecules
Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ADP
Query on ADP

Download Ideal Coordinates CCD File 
BA [auth F]
R [auth A]
T [auth B]
V [auth C]
X [auth D]
BA [auth F],
R [auth A],
T [auth B],
V [auth C],
X [auth D],
Z [auth E]
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
MG
Query on MG

Download Ideal Coordinates CCD File 
AA [auth E]
CA [auth F]
S [auth A]
U [auth B]
W [auth C]
AA [auth E],
CA [auth F],
S [auth A],
U [auth B],
W [auth C],
Y [auth D]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.30 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX
RECONSTRUCTIONRELION

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Wellcome TrustUnited Kingdom210711/Z/18/Z
Medical Research Council (MRC, United Kingdom)United KingdomMC_UP_A025_1011
European Molecular Biology Organization (EMBO)European UnionALTF 334-2020

Revision History  (Full details and data files)

  • Version 1.0: 2022-08-17
    Type: Initial release
  • Version 1.1: 2022-09-21
    Changes: Database references
  • Version 1.2: 2022-10-19
    Changes: Database references