5H54

Mdm12 from K. lactis 1-239


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.307 
  • R-Value Work: 0.253 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Structure-function insights into direct lipid transfer between membranes by Mmm1-Mdm12 of ERMES

Kawano, S.Tamura, Y.Kojima, R.Bala, S.Asai, E.Michel, A.H.Kornmann, B.Riezman, I.Riezman, H.Sakae, Y.Okamoto, Y.Endo, T.

(2018) J. Cell Biol. 217: 959-974

  • DOI: 10.1083/jcb.201704119
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The endoplasmic reticulum (ER)-mitochondrial encounter structure (ERMES) physically links the membranes of the ER and mitochondria in yeast. Although the ER and mitochondria cooperate to synthesize glycerophospholipids, whether ERMES directly facilit ...

    The endoplasmic reticulum (ER)-mitochondrial encounter structure (ERMES) physically links the membranes of the ER and mitochondria in yeast. Although the ER and mitochondria cooperate to synthesize glycerophospholipids, whether ERMES directly facilitates the lipid exchange between the two organelles remains controversial. Here, we compared the x-ray structures of an ERMES subunit Mdm12 from Kluyveromyces lactis with that of Mdm12 from Saccharomyces cerevisiae and found that both Mdm12 proteins possess a hydrophobic pocket for phospholipid binding. However in vitro lipid transfer assays showed that Mdm12 alone or an Mmm1 (another ERMES subunit) fusion protein exhibited only a weak lipid transfer activity between liposomes. In contrast, Mdm12 in a complex with Mmm1 mediated efficient lipid transfer between liposomes. Mutations in Mmm1 or Mdm12 impaired the lipid transfer activities of the Mdm12-Mmm1 complex and furthermore caused defective phosphatidylserine transport from the ER to mitochondrial membranes via ERMES in vitro. Therefore, the Mmm1-Mdm12 complex functions as a minimal unit that mediates lipid transfer between membranes.


    Organizational Affiliation

    Department of Food Science, National (Taiwan) Ocean University, Keelung, 202, Taiwan.,Biotechnology Center, National Chung Hsing University, Taichung City, 402, Taiwan.,Faculty of Life Sciences, Kyoto Sangyo University, Kyoto, Japan tendo@cc.kyoto-su.ac.jp.,Japan Science and Technology Agency/Core Research for Evolutional Science and Technology, Nagoya University, Nagoya, Japan.,Research Center for Materials Science, Nagoya University, Nagoya, Japan.,Department of Material and Biological Chemistry, Faculty of Science, Yamagata University, Yamagata, Japan.,Institute of Biochemistry and Molecular Biology, National Yang-Ming University, Taipei, 112, Taiwan.,Faculty of Life Sciences, Kyoto Sangyo University, Kyoto, Japan.,Genomics Research Center, Academia Sinica, Taipei, 115, Taiwan.,Department of Chemistry, Graduate School of Science, Nagoya University, Nagoya, Japan.,Institute of Biochemistry, ETH Zürich, Zürich, Switzerland.,Japan Science and Technology Agency/Core Research for Evolutional Science and Technology, Kyoto Sangyo University, Kyoto, Japan.,Institute for Protein Dynamics, Kyoto Sangyo University, Kyoto, Japan.,Department of Biochemistry, National Centre of Competence in Research Chemical Biology, University of Geneva, Geneva, Switzerland.,Department of Physics, Graduate School of Science, Nagoya University, Nagoya, Japan.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Mitochondrial distribution and morphology protein 12
A
259Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37)Mutation(s): 0 
Gene Names: MDM12
Find proteins for Q6CUC3 (Kluyveromyces lactis (strain ATCC 8585 / CBS 2359 / DSM 70799 / NBRC 1267 / NRRL Y-1140 / WM37))
Go to UniProtKB:  Q6CUC3
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.1 Å
  • R-Value Free: 0.307 
  • R-Value Work: 0.253 
  • Space Group: P 61 2 2
Unit Cell:
Length (Å)Angle (°)
a = 136.899α = 90.00
b = 136.899β = 90.00
c = 76.561γ = 120.00
Software Package:
Software NamePurpose
REFMACrefinement
HKL-2000data scaling
PHENIXphasing
HKL-2000data reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Japan Society for the Promotion of ScienceJapan25840020

Revision History 

  • Version 1.0: 2017-11-08
    Type: Initial release
  • Version 1.1: 2018-02-28
    Type: Database references
  • Version 1.2: 2018-03-21
    Type: Database references