9QFD | pdb_00009qfd

Cryo-EM structure of the fully cofilin-1-decorated actin filament (cofilactin)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.61 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

Validation slider image for 9QFD

This is version 1.2 of the entry. See complete history

Literature

Choreography of rapid actin filament disassembly by coronin, cofilin, and AIP1.

Oosterheert, W.Boiero Sanders, M.Hofnagel, O.Bieling, P.Raunser, S.

(2025) Cell 188: 6845

  • DOI: https://doi.org/10.1016/j.cell.2025.09.016
  • Primary Citation Related Structures: 
    9QEW, 9QEY, 9QF2, 9QFB, 9QFD, 9QFE, 9QFG, 9QFJ, 9QFK, 9QFO, 9QFQ, 9QFW

  • PubMed Abstract: 

    Rapid remodeling of actin filament (F-actin) networks is essential for the movement and morphogenesis of eukaryotic cells. The conserved actin-binding proteins coronin, cofilin, and actin-interacting protein 1 (AIP1) act in synergy to promote rapid F-actin network disassembly, but the underlying mechanisms have remained elusive. Here, using cryo-electron microscopy (cryo-EM), we uncover the concerted molecular actions of coronin, cofilin, and AIP1 that lead to actin filament aging and severing. We find that the cooperative binding of coronin allosterically promotes inorganic phosphate release from F-actin and induces filament undertwisting, thereby priming the filament for cofilin binding. Cofilin then displaces coronin from the filament via a strand-restricted cooperative binding mechanism. The resulting cofilactin serves as a high-affinity platform for AIP1, which induces severing by acting as a clamp that disrupts inter-subunit filament contacts. In this "molecular squeezing" mechanism, AIP1 and not cofilin is responsible for filament severing. Our work redefines the role of key disassembly factors in actin dynamics.


  • Organizational Affiliation
    • Department of Structural Biochemistry, Max Planck Institute of Molecular Physiology, 44227 Dortmund, Germany. Electronic address: w.oosterheert@nki.nl.

Macromolecule Content 

  • Total Structure Weight: 424.32 kDa 
  • Atom Count: 28,854 
  • Modeled Residue Count: 3,668 
  • Deposited Residue Count: 3,780 
  • Unique protein chains: 2

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Actin, cytoplasmic 1, N-terminally processed
A, B, C, D, E
A, B, C, D, E, F, G
374Homo sapiensMutation(s): 1 
Gene Names: ACTB
EC: 3.6.4
UniProt & NIH Common Fund Data Resources
Find proteins for P60709 (Homo sapiens)
Explore P60709 
Go to UniProtKB:  P60709
PHAROS:  P60709
GTEx:  ENSG00000075624 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP60709
Sequence Annotations
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Cofilin-1
H, I, J, K, L
H, I, J, K, L, M, N
166Homo sapiensMutation(s): 0 
Gene Names: CFL1CFL
UniProt & NIH Common Fund Data Resources
Find proteins for P23528 (Homo sapiens)
Explore P23528 
Go to UniProtKB:  P23528
PHAROS:  P23528
GTEx:  ENSG00000172757 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP23528
Sequence Annotations
Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
ADP
(Subject of Investigation/LOI)

Query on ADP



Download:Ideal Coordinates CCD File
AA [auth G]
O [auth A]
Q [auth B]
S [auth C]
U [auth D]
AA [auth G],
O [auth A],
Q [auth B],
S [auth C],
U [auth D],
W [auth E],
Y [auth F]
ADENOSINE-5'-DIPHOSPHATE
C10 H15 N5 O10 P2
XTWYTFMLZFPYCI-KQYNXXCUSA-N
MG
(Subject of Investigation/LOI)

Query on MG



Download:Ideal Coordinates CCD File
BA [auth G]
P [auth A]
R [auth B]
T [auth C]
V [auth D]
BA [auth G],
P [auth A],
R [auth B],
T [auth C],
V [auth D],
X [auth E],
Z [auth F]
MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
HIC
Query on HIC
A, B, C, D, E
A, B, C, D, E, F, G
L-PEPTIDE LINKINGC7 H11 N3 O2HIS

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 2.61 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC4.4
MODEL REFINEMENTPHENIX1.21rc1_5015

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Max Planck SocietyGermany--
Alexander von Humboldt FoundationGermany--
German Research Foundation (DFG)GermanyBI 1998/2-1
European Research Council (ERC)European Union856118

Revision History  (Full details and data files)

  • Version 1.0: 2025-10-08
    Type: Initial release
  • Version 1.1: 2025-10-22
    Changes: Data collection, Database references
  • Version 1.2: 2025-12-10
    Changes: Data collection, Database references