30DR | pdb_000030dr

Dynein-Dynactin-RAB11FIP3 complex - composite

PDB DOI: https://doi.org/10.2210/pdb30DR/pdb
EM Map EMD-57643: EMDB EMDataResource

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

Deposited: 2026-04-21 Released: 2026-08-19
Deposition Author(s): d'Amico, E.A., Carter, A.P.
Funding Organization(s): Wellcome Trust, Medical Research Council (MRC, United Kingdom), UK Research and Innovation (UKRI)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 10.0 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

Starting Model: experimental
View more details

wwPDB Validation 3D Report Full Report

This is version 1.0 of the entry. See complete history.

Literature

Molecular basis of dynein adaptor recognition

d'Amico, E.A., Chaaban, S., Abid Ali, F., Michalski, L., Carter, A.P.

To be published.

Macromolecule Content

Total Structure Weight: 3,922.42 kDa
Atom Count: 68,795
Modeled Residue Count: 13,900
Deposited Residue Count: 34,634
Unique protein chains: 16

Macromolecules

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| 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Rab11 family-interacting protein 3	A [auth 1], B [auth 2]	793	Homo sapiens	Mutation(s): 0 Gene Names: RAB11FIP3, ARFO1, KIAA0665
UniProt & NIH Common Fund Data Resources
Find proteins for O75154 (Homo sapiens) Explore O75154 Go to UniProtKB: O75154
GTEx: ENSG00000090565
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O75154
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
ARP1 actin related protein 1 homolog A	C [auth A] D [auth B] E [auth C] F [auth D] G [auth E] C [auth A], D [auth B], E [auth C], F [auth D], G [auth E], H [auth F], I [auth G], K [auth I]	376	Sus scrofa	Mutation(s): 0
UniProt
Find proteins for F2Z5G5 (Sus scrofa) Explore F2Z5G5 Go to UniProtKB: F2Z5G5
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	F2Z5G5
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 3
Molecule	Chains	Sequence Length	Organism	Details	Image
Actin, cytoplasmic 1	J [auth H]	375	Sus scrofa	Mutation(s): 0 EC: 3.6.4
UniProt
Find proteins for Q6QAQ1 (Sus scrofa) Explore Q6QAQ1 Go to UniProtKB: Q6QAQ1
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q6QAQ1
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 4
Molecule	Chains	Sequence Length	Organism	Details	Image
Arp11	L [auth J]	417	Sus scrofa	Mutation(s): 0
UniProt
Find proteins for I3LHK5 (Sus scrofa) Explore I3LHK5 Go to UniProtKB: I3LHK5
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	I3LHK5
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 5
Molecule	Chains	Sequence Length	Organism	Details	Image
Capping protein (Actin filament) muscle Z-line, alpha 1	M [auth K]	286	Sus scrofa	Mutation(s): 0
UniProt
Find proteins for A0PFK5 (Sus scrofa) Explore A0PFK5 Go to UniProtKB: A0PFK5
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0PFK5
Sequence Annotations Expand
Reference Sequence

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| 3D Structure

Entity ID: 6
Molecule	Chains	Sequence Length	Organism	Details	Image
F-actin-capping protein subunit beta	N [auth L]	272	Sus scrofa	Mutation(s): 0
UniProt
Find proteins for A0PFK7 (Sus scrofa) Explore A0PFK7 Go to UniProtKB: A0PFK7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0PFK7
Sequence Annotations Expand
Reference Sequence

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Entity ID: 7
Molecule	Chains	Sequence Length	Organism	Details	Image
Dynactin subunit 2	O [auth M], P [auth N], R [auth P], S [auth Q], X [auth V]	405	Sus scrofa	Mutation(s): 0
UniProt
Find proteins for A0A5G2QD80 (Sus scrofa) Explore A0A5G2QD80 Go to UniProtKB: A0A5G2QD80
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A5G2QD80
Sequence Annotations Expand
Reference Sequence

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Entity ID: 8
Molecule	Chains	Sequence Length	Organism	Details	Image
Dynactin subunit 3	Q [auth O], T [auth R]	186	Sus scrofa	Mutation(s): 0
UniProt
Find proteins for F1SEC0 (Sus scrofa) Explore F1SEC0 Go to UniProtKB: F1SEC0
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	F1SEC0
Sequence Annotations Expand
Reference Sequence

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Entity ID: 9
Molecule	Chains	Sequence Length	Organism	Details	Image
Dynactin subunit 1	U [auth S], V [auth T]	1,281	Sus scrofa	Mutation(s): 0
UniProt
Find proteins for A0A287B8J2 (Sus scrofa) Explore A0A287B8J2 Go to UniProtKB: A0A287B8J2
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A287B8J2
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Reference Sequence

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Entity ID: 10
Molecule	Chains	Sequence Length	Organism	Details	Image
Dynactin 6	W [auth U]	190	Sus scrofa	Mutation(s): 0
UniProt
Find proteins for D0G6S1 (Sus scrofa) Explore D0G6S1 Go to UniProtKB: D0G6S1
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	D0G6S1
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Reference Sequence

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Entity ID: 11
Molecule	Chains	Sequence Length	Organism	Details	Image
Dynactin subunit 5	Y [auth W]	182	Sus scrofa	Mutation(s): 0
UniProt
Find proteins for A0A286ZK88 (Sus scrofa) Explore A0A286ZK88 Go to UniProtKB: A0A286ZK88
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A286ZK88
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Reference Sequence

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Entity ID: 12
Molecule	Chains	Sequence Length	Organism	Details	Image
Dynactin subunit 4	Z [auth Y]	467	Sus scrofa	Mutation(s): 0
UniProt
Find proteins for A0A4X1TB62 (Sus scrofa) Explore A0A4X1TB62 Go to UniProtKB: A0A4X1TB62
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	A0A4X1TB62
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Reference Sequence

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| 3D Structure

Entity ID: 13
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytoplasmic dynein 1 heavy chain 1	AA [auth e], BA [auth f], FA [auth m], GA [auth n]	4,646	Homo sapiens	Mutation(s): 2 Gene Names: DYNC1H1, DHC1, DNCH1, DNCL, DNECL, DYHC, KIAA0325
UniProt & NIH Common Fund Data Resources
Find proteins for Q14204 (Homo sapiens) Explore Q14204 Go to UniProtKB: Q14204
GTEx: ENSG00000197102
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q14204
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Reference Sequence

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Entity ID: 14
Molecule	Chains	Sequence Length	Organism	Details	Image
Isoform 2C of Cytoplasmic dynein 1 intermediate chain 2	CA [auth g], DA [auth h], HA [auth o], IA [auth p]	612	Homo sapiens	Mutation(s): 0 Gene Names: DYNC1I2, DNCI2, DNCIC2
UniProt & NIH Common Fund Data Resources
Find proteins for Q13409 (Homo sapiens) Go to UniProtKB: Q13409
GTEx: ENSG00000077380
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q13409-3
Sequence Annotations Expand
Reference Sequence

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Entity ID: 15
Molecule	Chains	Sequence Length	Organism	Details	Image
Cytoplasmic dynein 1 light intermediate chain 2	EA [auth j], JA [auth q], KA [auth r]	492	Homo sapiens	Mutation(s): 0 Gene Names: DYNC1LI2, DNCLI2, LIC2
UniProt & NIH Common Fund Data Resources
Find proteins for O43237 (Homo sapiens) Explore O43237 Go to UniProtKB: O43237
GTEx: ENSG00000135720
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	O43237
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Reference Sequence

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Entity ID: 16
Molecule	Chains	Sequence Length	Organism	Details	Image
Dynein light chain roadblock-type 1	LA [auth s], MA [auth t], NA [auth w], OA [auth z]	96	Homo sapiens	Mutation(s): 0 Gene Names: DYNLRB1, BITH, DNCL2A, DNLC2A, ROBLD1, HSPC162
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NP97 (Homo sapiens) Explore Q9NP97 Go to UniProtKB: Q9NP97
GTEx: ENSG00000125971
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q9NP97
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: ELECTRON MICROSCOPY
Resolution: 10.0 Å
Aggregation State: PARTICLE
Reconstruction Method: SINGLE PARTICLE

EM Software:

Task	Software Package	Version
MODEL REFINEMENT	PHENIX	2.0_5936
RECONSTRUCTION	RELION	5.0

Structure Validation

View Full Validation Report

View more in-depth experimental data

Entry History

& Funding Information

Deposition Data

Released Date: 2026-08-19

Deposition Author(s):

d'Amico, E.A.

Carter, A.P.

Funding Organization	Location	Grant Number
Wellcome Trust	United Kingdom	227434/Z/23/Z
Medical Research Council (MRC, United Kingdom)	United Kingdom	MC_UP_A025_1011
UK Research and Innovation (UKRI)	United Kingdom	101105484

Revision History (Full details and data files)

Version 1.0: 2026-08-19
Type: Initial release

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.

30DR | pdb_000030dr

Dynein-Dynactin-RAB11FIP3 complex - composite

Literature

Molecular basis of dynein adaptor recognition

Biological Assembly 1

Macromolecules

Entity ID: 1

UniProt & NIH Common Fund Data Resources

Entity Groups

Sequence Annotations

Entity ID: 2

UniProt

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Sequence Annotations

Entity ID: 3

UniProt

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Entity ID: 4

UniProt

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Entity ID: 5

UniProt

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Entity ID: 6

UniProt

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Entity ID: 7

UniProt

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Sequence Annotations

Entity ID: 8

UniProt

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Entity ID: 9

UniProt

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Entity ID: 10

UniProt

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Entity ID: 11

UniProt

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Entity ID: 12

UniProt

Entity Groups

Sequence Annotations

Entity ID: 13

UniProt & NIH Common Fund Data Resources

Entity Groups

Sequence Annotations

Entity ID: 14

UniProt & NIH Common Fund Data Resources

Entity Groups

Sequence Annotations

Entity ID: 15

UniProt & NIH Common Fund Data Resources

Entity Groups

Sequence Annotations

Entity ID: 16

UniProt & NIH Common Fund Data Resources

Entity Groups

Sequence Annotations

Experimental Data & Validation

Experimental Data

Structure Validation

Entry History

Deposition Data

Revision History (Full details and data files)