6FGZ

Cyanidioschyzon merolae Dnm1 (CmDnm1)


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 7.002 Å
  • R-Value Free: 0.411 
  • R-Value Work: 0.344 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Structure of a mitochondrial fission dynamin in the closed conformation.

Bohuszewicz, O.Low, H.H.

(2018) Nat. Struct. Mol. Biol. 25: 722-731

  • DOI: 10.1038/s41594-018-0097-6

  • PubMed Abstract: 
  • Dynamin 1-like proteins (DNM1-L) are mechanochemical GTPases that induce membrane fission in mitochondria and peroxisomes. Their mechanism depends on conformational changes driven by nucleotide and lipid cycling. Here we show the crystal structure of ...

    Dynamin 1-like proteins (DNM1-L) are mechanochemical GTPases that induce membrane fission in mitochondria and peroxisomes. Their mechanism depends on conformational changes driven by nucleotide and lipid cycling. Here we show the crystal structure of a mitochondrial fission dynamin (CmDnm1) from the algae Cyanidioschyzon merolae. Unlike other eukaryotic dynamin structures, CmDnm1 is in a hinge 1 closed conformation, with the GTPase domain compacted against the stalk. Within the crystal, CmDnm1 packs as a diamond-shaped tetramer that is consistent with an inactive off-membrane state. Crosslinking, photoinduced electron transfer assays, and electron microscopy verify these structures. In vitro, CmDnm1 forms concentration-dependent rings and protein-lipid tubes reminiscent of DNM1-L and classical dynamin with hinge 1 open. Our data provides a mechanism for filament collapse and membrane release that may extend to other dynamin family members. Additionally, hinge 1 closing may represent a key conformational change that contributes to membrane fission.


    Organizational Affiliation

    Department of Life Sciences, Imperial College, London, UK. h.low@imperial.ac.uk.,Department of Life Sciences, Imperial College, London, UK.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Dynamin
A
774Cyanidioschyzon merolaeMutation(s): 0 
Gene Names: Dnm1
Find proteins for Q84Y91 (Cyanidioschyzon merolae)
Go to UniProtKB:  Q84Y91
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 7.002 Å
  • R-Value Free: 0.411 
  • R-Value Work: 0.344 
  • Space Group: P 62 2 2
Unit Cell:
Length (Å)Angle (°)
a = 188.219α = 90.00
b = 188.219β = 90.00
c = 163.627γ = 120.00
Software Package:
Software NamePurpose
PHENIXrefinement
MOSFLMdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Wellcome TrustUnited Kingdom097328/Z/11/Z

Revision History 

  • Version 1.0: 2018-08-15
    Type: Initial release