8W41

Cryo-EM structure of Myosin VI in the autoinhibited state

PDB DOI: https://doi.org/10.2210/pdb8W41/pdb
EM Map EMD-37260: EMDB EMDataResource

Classification: MOTOR PROTEIN
Organism(s): Mus musculus, Homo sapiens
Expression System: Homo sapiens
Mutation(s): No

Deposited: 2023-08-23 Released: 2024-02-21
Deposition Author(s): Niu, F., Wei, Z.
Funding Organization(s): National Natural Science Foundation of China (NSFC)

Experimental Data Snapshot

Method: ELECTRON MICROSCOPY
Resolution: 3.54 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

Autoinhibition and activation of myosin VI revealed by its cryo-EM structure

Niu, F., Li, L., Wang, L., Xiao, J., Xu, S., Liu, Y., Lin, L., Yu, C., Wei, Z.

(2024) Nat Commun 15: 1187

DOI: https://doi.org/10.1038/s41467-024-45424-7

Macromolecule Content

Total Structure Weight: 183.36 kDa
Atom Count: 11,859
Modelled Residue Count: 1,455
Deposited Residue Count: 1,583
Unique protein chains: 2

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Calmodulin-1	A [auth B], B [auth I]	149	Mus musculus	Mutation(s): 0 Gene Names: Calm1, Calm, Cam, Cam1
UniProt
Find proteins for P0DP26 (Mus musculus) Explore P0DP26 Go to UniProtKB: P0DP26
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	P0DP26
Sequence Annotations Expand
Reference Sequence

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Unconventional myosin-VI	C [auth A]	1,285	Homo sapiens	Mutation(s): 0 Gene Names: MYO6
UniProt & NIH Common Fund Data Resources
Find proteins for Q9UM54 (Homo sapiens) Explore Q9UM54 Go to UniProtKB: Q9UM54
PHAROS: Q9UM54 GTEx: ENSG00000196586
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9UM54
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
ADP (Subject of Investigation/LOI) Query on ADP Download Ideal Coordinates CCD File SDF format, chain H [auth A] MOL2 format, chain H [auth A]	H [auth A]	ADENOSINE-5'-DIPHOSPHATE C₁₀ H₁₅ N₅ O₁₀ P₂ XTWYTFMLZFPYCI-KQYNXXCUSA-N		Interactions Focus chain H [auth A] Interactions & Density Focus chain H [auth A]
PO4 (Subject of Investigation/LOI) Query on PO4 Download Ideal Coordinates CCD File SDF format, chain J [auth A] MOL2 format, chain J [auth A]	J [auth A]	PHOSPHATE ION O₄ P NBIIXXVUZAFLBC-UHFFFAOYSA-K		Interactions Focus chain J [auth A] Interactions & Density Focus chain J [auth A]
CA (Subject of Investigation/LOI) Query on CA Download Ideal Coordinates CCD File SDF format, chain D [auth B] SDF format, chain E [auth B] SDF format, chain F [auth B] SDF format, chain G [auth B] MOL2 format, chain D [auth B] MOL2 format, chain E [auth B] MOL2 format, chain F [auth B] MOL2 format, chain G [auth B]	D [auth B], E [auth B], F [auth B], G [auth B]	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N		Interactions Focus chain D [auth B] Focus chain E [auth B] Focus chain F [auth B] Focus chain G [auth B] Interactions & Density Focus chain D [auth B] Focus chain E [auth B] Focus chain F [auth B] Focus chain G [auth B]
MG (Subject of Investigation/LOI) Query on MG Download Ideal Coordinates CCD File SDF format, chain I [auth A] MOL2 format, chain I [auth A]	I [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N		Interactions Focus chain I [auth A] Interactions & Density Focus chain I [auth A]