6F3A

Cryo-EM structure of a single dynein tail domain bound to dynactin and BICD2N


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.2 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

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 --: --


Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
ARP1 actin related protein 1 homolog A
A, B, C, D, E, F, G, I
376Sus scrofaGene Names: ACTR1A
Find proteins for F2Z5G5 (Sus scrofa)
Go to Gene View: ACTR1A
Go to UniProtKB:  F2Z5G5
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Actin, cytoplasmic 1
H
375Sus scrofaGene Names: ACTB
Find proteins for Q6QAQ1 (Sus scrofa)
Go to Gene View: ACTB
Go to UniProtKB:  Q6QAQ1
Entity ID: 3
MoleculeChainsSequence LengthOrganismDetails
Actin related protein 10 homolog
J
390Sus scrofaGene Names: LOC100620619
Find proteins for I3LHK5 (Sus scrofa)
Go to UniProtKB:  I3LHK5
Entity ID: 4
MoleculeChainsSequence LengthOrganismDetails
Capping protein (Actin filament) muscle Z-line, alpha 1
K
286Sus scrofaGene Names: CP alpha1 (Capza, CAPZA1)
Find proteins for A0PFK5 (Sus scrofa)
Go to UniProtKB:  A0PFK5
Entity ID: 5
MoleculeChainsSequence LengthOrganismDetails
F-actin capping protein beta subunit
L
272N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 6
MoleculeChainsSequence LengthOrganismDetails
Dynactin Subunit 2
M
587N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 7
MoleculeChainsSequence LengthOrganismDetails
Dynactin Subunit 2
N
616N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 8
MoleculeChainsSequence LengthOrganismDetails
Dynactin Subunit 3
O, P
65N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 9
MoleculeChainsSequence LengthOrganismDetails
Dynactin Subunit 2
Q, R
87N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 10
MoleculeChainsSequence LengthOrganismDetails
Dynactin 6
U
190Sus scrofaGene Names: DCTN6
Find proteins for D0G6S1 (Sus scrofa)
Go to Gene View: DCTN6
Go to UniProtKB:  D0G6S1
Entity ID: 11
MoleculeChainsSequence LengthOrganismDetails
Dynactin subunit 5
V
182N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 12
MoleculeChainsSequence LengthOrganismDetails
Dynactin Subunit 4
Y
264N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 13
MoleculeChainsSequence LengthOrganismDetails
Dynactin Subunit 1
Z
52N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 14
MoleculeChainsSequence LengthOrganismDetails
Dynactin subunit 2
a
68N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 15
MoleculeChainsSequence LengthOrganismDetails
Dynactin subunit 2
b, c, d
89N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 16
MoleculeChainsSequence LengthOrganismDetails
Cytoplasmic dynein 1 heavy chain 1
e, f
1455Homo sapiensGene 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: 17
MoleculeChainsSequence LengthOrganismDetails
Cytoplasmic dynein 1 intermediate chain 2
g, h
612Homo sapiensGene Names: DYNC1I2 (DNCI2, DNCIC2)
Find proteins for Q13409 (Homo sapiens)
Go to Gene View: DYNC1I2
Go to UniProtKB:  Q13409
Entity ID: 18
MoleculeChainsSequence LengthOrganismDetails
Cytoplasmic dynein 1 light intermediate chain 2
j
492Homo sapiensGene Names: DYNC1LI2 (DNCLI2, LIC2)
Find proteins for O43237 (Homo sapiens)
Go to Gene View: DYNC1LI2
Go to UniProtKB:  O43237
Entity ID: 19
MoleculeChainsSequence LengthOrganismDetails
Dynein light chain roadblock-type 1
k, l
96Homo sapiensGene Names: DYNLRB1 (BITH, DNCL2A, DNLC2A, ROBLD1)
Find proteins for Q9NP97 (Homo sapiens)
Go to Gene View: DYNLRB1
Go to UniProtKB:  Q9NP97
Entity ID: 20
MoleculeChainsSequence LengthOrganismDetails
Dynactin Subunit 1
z
53N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Entity ID: 21
MoleculeChainsSequence LengthOrganismDetails
BICD2N
5, 6
275N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 2 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
ATP
Query on ATP

Download SDF File 
Download CCD File 
H
ADENOSINE-5'-TRIPHOSPHATE
C10 H16 N5 O13 P3
ZKHQWZAMYRWXGA-KQYNXXCUSA-N
 Ligand Interaction
ADP
Query on ADP

Download SDF File 
Download CCD File 
A, B, C, D, E, F, G, I, J
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
UNK
Query on UNK
5, 6, M, N, O, P, Q, R, Y, Z, z
L-PEPTIDE LINKINGC4 H9 N O2

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Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 8.2 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
Software Package:
Software NamePurpose
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationCountryGrant Number
Medical Research Council (United Kingdom)United KingdomMC_UP_A025_1011
Wellcome TrustUnited KingdomWT100387

Revision History 

  • Version 1.0: 2018-01-17
    Type: Initial release
  • Version 1.1: 2018-01-31
    Type: Database references, Refinement description