9DGV image
Deposition Date 2024-09-03
Release Date 2025-09-10
Last Version Date 2025-10-29
Entry Detail
PDB ID:
9DGV
Keywords:
Title:
structure of dynactin, dynein tail with TRAK2 from dynein-dynactin-TRAK2 on microtubules
Biological Source:
Source Organism:
Mus musculus (Taxon ID: 10090)
Sus scrofa (Taxon ID: 9823)
Host Organism:
Method Details:
Experimental Method:
Resolution:
8.80 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Alpha-centractin
Chain IDs:A, B, C, D, E, F, G, I
Chain Length:913
Number of Molecules:8
Biological Source:Sus scrofa
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Actin, cytoplasmic 1
Gene (Uniprot):ACTB
Chain IDs:H
Chain Length:612
Number of Molecules:1
Biological Source:Sus scrofa
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Actin-related protein 10
Gene (Uniprot):ACTR10
Chain IDs:J
Chain Length:417
Number of Molecules:1
Biological Source:Sus scrofa
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:F-actin-capping protein subunit alpha-1
Gene (Uniprot):CAPZA1
Chain IDs:K
Chain Length:286
Number of Molecules:1
Biological Source:Sus scrofa
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:F-actin-capping protein subunit beta
Gene (Uniprot):CAPZB
Chain IDs:L
Chain Length:272
Number of Molecules:1
Biological Source:Sus scrofa
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Dynactin subunit 2
Gene (Uniprot):DCTN2
Chain IDs:M, N, P, Q
Chain Length:405
Number of Molecules:4
Biological Source:Sus scrofa
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Dynactin subunit 3
Gene (Uniprot):DCTN3
Chain IDs:O, R
Chain Length:612
Number of Molecules:2
Biological Source:Sus scrofa
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Dynactin subunit 6
Gene (Uniprot):DCTN6
Chain IDs:S (auth: U)
Chain Length:190
Number of Molecules:1
Biological Source:Sus scrofa
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Dynactin subunit 5
Gene (Uniprot):DCTN5
Chain IDs:T (auth: V)
Chain Length:182
Number of Molecules:1
Biological Source:Sus scrofa
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Dynactin subunit 1
Gene (Uniprot):DCTN1
Chain IDs:U (auth: W), W (auth: Z)
Chain Length:1281
Number of Molecules:2
Biological Source:Sus scrofa
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Dynactin subunit 4
Gene (Uniprot):DCTN4
Chain IDs:V (auth: Y)
Chain Length:467
Number of Molecules:1
Biological Source:Sus scrofa
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Trafficking protein, kinesin binding 2
Gene (Uniprot):Trak2
Chain IDs:X (auth: a), Y (auth: b)
Chain Length:913
Number of Molecules:2
Biological Source:Mus musculus
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytoplasmic dynein 1 heavy chain 1
Chain IDs:Z (auth: e), AA (auth: f), DA (auth: m), EA (auth: n)
Chain Length:376
Number of Molecules:4
Biological Source:Sus scrofa
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Cytoplasmic dynein 1 intermediate chain 2
Gene (Uniprot):DYNC1I2
Chain IDs:BA (auth: g), CA (auth: h), FA (auth: o), GA (auth: p)
Chain Length:376
Number of Molecules:4
Biological Source:Sus scrofa
Primary Citation
Molecular basis for the assembly of the dynein transport machinery on microtubules.
Biorxiv ? ? ? (2024)
PMID: 39803430 DOI: 10.1101/2024.12.30.630772

Abstact

Cytoplasmic dynein-1, a microtubule-based motor protein, requires dynactin and an adaptor to form the processive dynein-dynactin-adaptor (DDA) complex. The role of microtubules in DDA assembly has been elusive. Here, we reveal detailed structural insights into microtubule-mediated DDA assembly using cryo-electron microscopy. We find that an adaptor-independent dynein-dynactin complex (DD) predominantly forms on microtubules in an intrinsic 2:1 stoichiometry, induced by spontaneous parallelization of dynein upon microtubule binding. Adaptors can squeeze in and exchange within the assembled microtubule-bound DD complex, which is enabled by relative rotations between dynein and dynactin, and further facilitated by dynein light intermediate chains that assist in an adaptor 'search' mechanism. Our findings elucidate the dynamic adaptability of the dynein transport machinery, and reveal a new mode for assembly of the motile complex.

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