8VLZ | pdb_00008vlz

CryoEM structure of human S-OPA1 assembled on lipid membrane containing brominated cardiolipin in membrane-adjacent state


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 6.40 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 

wwPDB Validation   3D Report Full Report


This is version 1.0 of the entry. See complete history


Literature

Cardiolipin dynamics promote membrane remodeling by mitochondrial OPA1.

Thatavarthy, S.Abriata, L.A.Meireles, F.T.P.Zuccaro, K.E.Gargey Iragavarapu, A.Sullivan, G.M.Moss 3rd, F.R.Frost, A.Dal Peraro, M.Aydin, H.

(2025) Nat Commun 16: 8685-8685

  • DOI: https://doi.org/10.1038/s41467-025-63813-4
  • Primary Citation of Related Structures:  
    8VLZ, 8VM4

  • PubMed Abstract: 

    Cardiolipin is a mitochondria-specific phospholipid that forms heterotypic interactions with membrane-shaping proteins and regulates the dynamic remodeling and function of mitochondria. However, the precise mechanisms through which cardiolipin influences mitochondrial morphology are not well understood. In this study, employing molecular dynamics simulations, we determined that cardiolipin molecules extensively engage with the paddle domain of mitochondrial fusion protein OPA1, which controls membrane-shaping mechanisms. Structure-function analysis confirmed the interactions between cardiolipin and two conserved motifs of OPA1 at the membrane-binding sites. We further developed a bromine-labeled cardiolipin probe to enhance cryoEM contrast and characterized the structure of OPA1 assemblies bound to the cardiolipin brominated lipid bilayers. Our images provide direct evidence of cardiolipin enrichment within the OPA1-binding leaflet. Last, we observed a decrease in membrane remodeling activity for OPA1 in lipid compositions with increasing concentrations of monolyso-cardiolipin. This suggests that the partial replacement of cardiolipin by monolyso-cardiolipin, as observed in Barth syndrome, alters the malleability of the membrane and compromises proper remodeling. Together, these data provide insights into how biological membranes regulate the mechanisms governing mitochondrial homeostasis.


  • Organizational Affiliation
    • Department of Molecular Pathobiology, College of Dentistry, New York University, New York, NY, USA.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Dynamin-like 120 kDa protein, mitochondrial
A, B, C, D
960Homo sapiensMutation(s): 0 
Gene Names: OPA1KIAA0567
EC: 3.6.5.5
UniProt & NIH Common Fund Data Resources
Find proteins for O60313 (Homo sapiens)
Explore O60313 
Go to UniProtKB:  O60313
PHAROS:  O60313
GTEx:  ENSG00000198836 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupO60313
Sequence Annotations
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 6.40 Å
  • Aggregation State: FILAMENT 
  • Reconstruction Method: HELICAL 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX
RECONSTRUCTIONRELION4.0

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)United StatesGM150942
American Heart AssociationUnited States23POST1020756

Revision History  (Full details and data files)

  • Version 1.0: 2025-10-08
    Type: Initial release