8OF8 | pdb_00008of8

Cryo-EM structure of actomyosin-5a-S1 with the full-length lever (nucleotide free)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 7.50 Å
  • Aggregation State: HELICAL ARRAY 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Models: in silico, experimental
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This is version 1.1 of the entry. See complete history


Literature

Exploiting cryo-EM structures of actomyosin-5a to reveal the physical properties of its lever.

Gravett, M.S.C.Klebl, D.P.Harlen, O.G.Read, D.J.Muench, S.P.Harris, S.A.Peckham, M.

(2024) Structure 32: 2316-2324.e6

  • DOI: https://doi.org/10.1016/j.str.2024.09.025
  • Primary Citation of Related Structures:  
    8OF8

  • PubMed Abstract: 

    Myosin 5a (Myo5a) is a dimeric processive motor protein that transports cellular cargos along filamentous actin (F-actin). Its long lever is responsible for its large power-stroke, step size, and load-bearing ability. Little is known about the levers' structure and physical properties, and how they contribute to walking mechanics. Using cryoelectron microscopy (cryo-EM) and molecular dynamics (MD) simulations, we resolved the structure of monomeric Myo5a, comprising the motor domain and full-length lever, bound to F-actin. The range of its lever conformations revealed its physical properties, how stiffness varies along its length and predicts a large, 35 nm, working stroke. Thus, the newly released trail head in a dimeric Myo5a would only need to perform a small diffusive search for its new binding site on F-actin, and stress would only be generated across the dimer once phosphate is released from the lead head, revealing new insight into the walking behavior of Myo5a.


  • Organizational Affiliation
    • Astbury Centre for Structural Molecular Biology, University of Leeds, LS2 9JT Leeds, UK; School of Molecular and Cellular Biology, University of Leeds, LS2 9JT Leeds, UK; School of Physics and Astronomy, University of Leeds, LS2 9JT Leeds, UK. Electronic address: m.s.c.gravett@uu.nl.

Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Calmodulin-1
A, B, C, D, E
A, B, C, D, E, F
148Mus musculusMutation(s): 0 
Gene Names: Calm1CalmCamCam1
UniProt
Find proteins for P0DP26 (Mus musculus)
Explore P0DP26 
Go to UniProtKB:  P0DP26
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Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP0DP26
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Actin, alpha skeletal muscleG [auth J],
H [auth K],
I [auth L]
375Oryctolagus cuniculusMutation(s): 0 
EC: 3.6.4
UniProt
Find proteins for P68135 (Oryctolagus cuniculus)
Explore P68135 
Go to UniProtKB:  P68135
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UniProt GroupP68135
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Unconventional myosin-VaJ [auth M]915Mus musculusMutation(s): 0 
Gene Names: Myo5aDilute
UniProt & NIH Common Fund Data Resources
Find proteins for Q99104 (Mus musculus)
Explore Q99104 
Go to UniProtKB:  Q99104
IMPC:  MGI:105976
Entity Groups  
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UniProt GroupQ99104
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  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
HIC
Query on HIC
G [auth J],
H [auth K],
I [auth L]
L-PEPTIDE LINKINGC7 H11 N3 O2HIS
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 7.50 Å
  • Aggregation State: HELICAL ARRAY 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONRELION3.1

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Wellcome TrustUnited Kingdom102174/B/13/Z
Wellcome TrustUnited Kingdom223125/Z/21/Z
Wellcome TrustUnited Kingdom108466/Z/15/Z
Engineering and Physical Sciences Research CouncilUnited KingdomEP/T022167/1
Engineering and Physical Sciences Research CouncilUnited KingdomEP/R013012

Revision History  (Full details and data files)

  • Version 1.0: 2024-09-25
    Type: Initial release
  • Version 1.1: 2025-04-09
    Changes: Data collection, Database references, Structure summary