Biological Assembly 1  

 3D View: Structure | Ligand Interaction

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Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 45-mer - A8B4C4D4E4F4G3H2I2JKLMNOPQRS Pseudo Symmetry: Asymmetric - C1 
Pseudo Stoichiometry: Hetero 45-mer -A10B4C4D4E4F4G3H2I2J2K2LMNO 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 1967090.38 
• Atom Count: 68864 
• Residue Count: 17882 
• Unique protein chains: 23

6F38

Cryo-EM structure of two dynein tail domains bound to dynactin and HOOK3

• DOI: 10.2210/pdb6F38/pdb
• EMDataBank: EMD-4177

• Classification: MOTOR PROTEIN
• Organism(s): Sus scrofa, Homo sapiens
• Expression System: Spodoptera frugiperda


• Deposited: 2017-11-28 Released: 2018-01-17 
• Deposition Author(s): Lau, C.K., Urnavicius, L., Elshenawy, M.M., Morales-Rios, E., Motz, C., Yildiz, A., Carter, A.P.
• Funding Organization(s): Medical Research Council (United Kingdom); Wellcome Trust 

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Experimental Data Snapshot

• Method: ELECTRON MICROSCOPY
• Resolution: 6.7 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Literature

Cryo-EM shows how dynactin recruits two dyneins for faster movement.

Urnavicius, L., Lau, C.K., Elshenawy, M.M., Morales-Rios, E., Motz, C., Yildiz, A., Carter, A.P.

(2018) Nature 554: 202-206

• PubMed: 29420470 
• DOI: 10.1038/nature25462
• Primary Citation of Related Structures:  
  5OWO, 6F3A, 6F1Z, 6F1Y, 6F1V, 6F1U, 6F1T


• PubMed Abstract: 
  

Dynein and its cofactor dynactin form a highly processive microtubule motor in the presence of an activating adaptor, such as BICD2. Different adaptors link dynein and dynactin to distinct cargoes. Here we use electron microscopy and single-molecule studies to show that adaptors can recruit a second dynein to dynactin. Whereas BICD2 is biased towards recruiting a single dynein, the adaptors BICDR1 and HOOK3 predominantly recruit two dyneins. We find that the shift towards a double dynein complex increases both the force and speed of the microtubule motor. Our 3.5 Å resolution cryo-electron microscopy reconstruction of a dynein tail-dynactin-BICDR1 complex reveals how dynactin can act as a scaffold to coordinate two dyneins side-by-side. Our work provides a structural basis for understanding how diverse adaptors recruit different numbers of dyneins and regulate the motile properties of the dynein-dynactin transport machine.

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Organizational Affiliation: 

Medical Research Council Laboratory of Molecular Biology, Division of Structural Studies, Francis Crick Avenue, Cambridge CB2 0QH, UK.

Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
ARP1 actin related protein 1 homolog A	A, B, C, D, E, F, G, I	376	Sus scrofa	Mutation(s): 0  Gene Names: ACTR1A
Find proteins for F2Z5G5 (Sus scrofa) Go to Gene View: ACTR1A Go to UniProtKB:  F2Z5G5

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details
Actin, cytoplasmic 1	H	375	Sus scrofa	Mutation(s): 0  Gene Names: ACTB
Find proteins for Q6QAQ1 (Sus scrofa) Go to Gene View: ACTB Go to UniProtKB:  Q6QAQ1

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details
Actin related protein 10 homolog	J	390	Sus scrofa	Mutation(s): 0  Gene Names: ACTR10
Find proteins for I3LHK5 (Sus scrofa) Go to Gene View: ACTR10 Go to UniProtKB:  I3LHK5

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details
Capping protein (Actin filament) muscle Z-line, alpha 1	K	286	Sus scrofa	Mutation(s): 0  Gene Names: CP alpha1 (Capza, CAPZA1)
Find proteins for A0PFK5 (Sus scrofa) Go to UniProtKB:  A0PFK5

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details
F-actin capping protein beta subunit	L	272	Sus scrofa	Mutation(s): 0  Gene Names: Capzb (CAPZB)
Find proteins for A9XFX6 (Sus scrofa) Go to UniProtKB:  A9XFX6

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details
Dynactin Subunit 2	M	587	N/A	Mutation(s): 0
Protein Feature View is not available: No corresponding UniProt sequence found.

Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details
Dynactin Subunit 2	N	616	N/A	Mutation(s): 0
Protein Feature View is not available: No corresponding UniProt sequence found.

Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details
Dynactin Subunit 3	O, P	65	N/A	Mutation(s): 0
Protein Feature View is not available: No corresponding UniProt sequence found.

Entity ID: 9
Molecule	Chains	Sequence Length	Organism	Details
Dynactin Subunit 2	Q, R	87	N/A	Mutation(s): 0
Protein Feature View is not available: No corresponding UniProt sequence found.

Entity ID: 10
Molecule	Chains	Sequence Length	Organism	Details
Dynactin 6	U	190	Sus scrofa	Mutation(s): 0  Gene Names: DCTN6
Find proteins for D0G6S1 (Sus scrofa) Go to Gene View: DCTN6 Go to UniProtKB:  D0G6S1

Entity ID: 11
Molecule	Chains	Sequence Length	Organism	Details
Dynactin subunit 5	V	182	Sus scrofa	Mutation(s): 0  Gene Names: DCTN5
Find proteins for A0A286ZK88 (Sus scrofa) Go to Gene View: DCTN5 Go to UniProtKB:  A0A286ZK88

Entity ID: 12
Molecule	Chains	Sequence Length	Organism	Details
HOOK3	X, x	223	N/A	Mutation(s): 0
Protein Feature View is not available: No corresponding UniProt sequence found.

Entity ID: 13
Molecule	Chains	Sequence Length	Organism	Details
Dynactin Subunit 4	Y	264	N/A	Mutation(s): 0
Protein Feature View is not available: No corresponding UniProt sequence found.

Entity ID: 14
Molecule	Chains	Sequence Length	Organism	Details
Dynactin Subunit 1	Z	52	N/A	Mutation(s): 0
Protein Feature View is not available: No corresponding UniProt sequence found.

Entity ID: 15
Molecule	Chains	Sequence Length	Organism	Details
Dynactin subunit 2	a	68	Sus scrofa	Mutation(s): 0  Gene Names: DCTN2
Find proteins for F1SKF9 (Sus scrofa) Go to Gene View: DCTN2 Go to UniProtKB:  F1SKF9

Entity ID: 16
Molecule	Chains	Sequence Length	Organism	Details
Dynactin subunit 2	b	90	Sus scrofa	Mutation(s): 0  Gene Names: DCTN2
Find proteins for F1SKF9 (Sus scrofa) Go to Gene View: DCTN2 Go to UniProtKB:  F1SKF9

Entity ID: 17
Molecule	Chains	Sequence Length	Organism	Details
Dynactin subunit 2	c	50	Sus scrofa	Mutation(s): 0  Gene Names: DCTN2
Find proteins for F1SL58 (Sus scrofa) Go to Gene View: DCTN2 Go to UniProtKB:  F1SL58

Entity ID: 18
Molecule	Chains	Sequence Length	Organism	Details
Dynactin subunit 2	d	29	Sus scrofa	Mutation(s): 0  Gene Names: DCTN2
Find proteins for F1SKF9 (Sus scrofa) Go to Gene View: DCTN2 Go to UniProtKB:  F1SKF9

Entity ID: 19
Molecule	Chains	Sequence Length	Organism	Details
Cytoplasmic dynein 1 heavy chain 1	e, f, m, n	1455	Homo sapiens	Mutation(s): 0  Gene Names: DYNC1H1 (DHC1, DNCH1, DNCL, DNECL, DYHC, KIAA0325)
Find proteins for Q14204 (Homo sapiens) Go to Gene View: DYNC1H1 Go to UniProtKB:  Q14204

Entity ID: 20
Molecule	Chains	Sequence Length	Organism	Details
Cytoplasmic dynein 1 intermediate chain 2	g, h, o, p	612	Homo sapiens	Mutation(s): 0  Gene Names: DYNC1I2 (DNCI2, DNCIC2)
Find proteins for Q13409 (Homo sapiens) Go to Gene View: DYNC1I2 Go to UniProtKB:  Q13409

Entity ID: 21
Molecule	Chains	Sequence Length	Organism	Details
Cytoplasmic dynein 1 light intermediate chain 2	i, j, q, r	492	Homo sapiens	Mutation(s): 0  Gene Names: DYNC1LI2 (DNCLI2, LIC2)
Find proteins for O43237 (Homo sapiens) Go to Gene View: DYNC1LI2 Go to UniProtKB:  O43237

Entity ID: 22
Molecule	Chains	Sequence Length	Organism	Details
Dynein light chain roadblock-type 1	k, l, s, t	96	Homo sapiens	Mutation(s): 0  Gene Names: DYNLRB1 (BITH, DNCL2A, DNLC2A, ROBLD1)
Find proteins for Q9NP97 (Homo sapiens) Go to Gene View: DYNLRB1 Go to UniProtKB:  Q9NP97

Entity ID: 23
Molecule	Chains	Sequence Length	Organism	Details
Dynactin Subunit 1	z	53	N/A	Mutation(s): 0
Protein Feature View is not available: No corresponding UniProt sequence found.

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram & Interactions
ATP	H	ADENOSINE-5'-TRIPHOSPHATE C10 H16 N5 O13 P3 ZKHQWZAMYRWXGA-KQYNXXCUSA-N
ADP	A, B, C, D, E, F, G, I, J	ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
UNK	M, N, O, P, Q, R, x, X, Y, Z, z	L-PEPTIDE LINKING	C4 H9 N O2		--

Experimental Data & Validation

Experimental Data

• Method: ELECTRON MICROSCOPY
• Resolution: 6.7 Å
• Aggregation State: PARTICLE 
• Reconstruction Method: SINGLE PARTICLE 

Software Package:

Software Name	Purpose
PHENIX	refinement

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2017-11-28 
• Released Date: 2018-01-17 
• Deposition Author(s): Lau, C.K., Urnavicius, L., Elshenawy, M.M., Morales-Rios, E., Motz, C., Yildiz, A., Carter, A.P.

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Funding Organization	Location	Grant Number
Medical Research Council (United Kingdom)	United Kingdom	MC_UP_A025_1011
Wellcome Trust	United Kingdom	WT100387

Revision History 

• Version 1.0: 2018-01-17
  Type: Initial release
• Version 1.1: 2018-01-31
  Type: Database references
• Version 1.2: 2018-02-21
  Type: Database references