Download MendeleyMultiple steps of dynein activation by Lis1 visualized by cryo-EM
Kendrick, A.A., Leschziner, A.E.(2025) Nat Struct Mol Biol
9DKE | pdb_00009dke
CryoEM structures of yeast cytoplasmic dynein in the presence of ATP and Lis1.
- PDB DOI: https://doi.org/10.2210/pdb9DKE/pdb
- EM Map EMD-46954: EMDB EMDataResource
- Classification: MOTOR PROTEIN
- Organism(s): Saccharomyces cerevisiae
- Expression System: Saccharomyces cerevisiae
- Mutation(s): No
- Deposited: 2024-09-08 Released: 2025-05-28
- Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)
Experimental Data Snapshot
- Method: ELECTRON MICROSCOPY
- Resolution: 3.60 Å
- Aggregation State: PARTICLE
- Reconstruction Method: SINGLE PARTICLE
wwPDB Validation 3D Report Full Report
This is version 1.0 of the entry. See complete history.
Literature
Macromolecules
Find similar proteins by:
(by identity cutoff) | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| Dynein heavy chain, cytoplasmic | 2,875 | Saccharomyces cerevisiae | Mutation(s): 0 Gene Names: DYN1, DHC1, YKR054C |  | |
UniProt | |||||
Find proteins for P36022 (Saccharomyces cerevisiae (strain ATCC 204508 / S288c)) Explore P36022 Go to UniProtKB: P36022 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P36022 | ||||
Sequence AnnotationsExpand | |||||
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Small Molecules
| Ligands 3 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| ATP (Subject of Investigation/LOI) Query on ATP | B [auth A] | ADENOSINE-5'-TRIPHOSPHATE C10 H16 N5 O13 P3 ZKHQWZAMYRWXGA-KQYNXXCUSA-N |  | ||
| ADP (Subject of Investigation/LOI) Query on ADP | C [auth A], D [auth A], E [auth A] | ADENOSINE-5'-DIPHOSPHATE C10 H15 N5 O10 P2 XTWYTFMLZFPYCI-KQYNXXCUSA-N |  | ||
| MG (Subject of Investigation/LOI) Query on MG | F [auth A] | MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: ELECTRON MICROSCOPY
- Resolution: 3.60 Å
- Aggregation State: PARTICLE
- Reconstruction Method: SINGLE PARTICLE
| Task | Software Package | Version |
|---|---|---|
| MODEL REFINEMENT | PHENIX | |
Entry History & Funding Information
Deposition Data
- Released Date: 2025-05-28 Deposition Author(s): Kendrick, A.A., Leschziner, A.E.
| Funding Organization | Location | Grant Number |
|---|---|---|
| National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS) | United States | -- |
Revision History (Full details and data files)
- Version 1.0: 2025-05-28
Type: Initial release
