5VNY

Crystal structure of DM14-3 domain of Lgd


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.101 Å
  • R-Value Free: 0.178 
  • R-Value Work: 0.170 

wwPDB Validation 3D Report Full Report


This is version 1.0 of the entry. See complete history

Literature

Structural Basis for Regulation of ESCRT-III Complexes by Lgd.

McMillan, B.J.Tibbe, C.Drabek, A.A.Seegar, T.C.M.Blacklow, S.C.Klein, T.

(2017) Cell Rep 19: 1750-1757

  • DOI: 10.1016/j.celrep.2017.05.026
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • The ESCRT-III complex induces outward membrane budding and fission through homotypic polymerization of its core component Shrub/CHMP4B. Shrub activity is regulated by its direct interaction with a protein called Lgd in flies, or CC2D1A or B in humans ...

    The ESCRT-III complex induces outward membrane budding and fission through homotypic polymerization of its core component Shrub/CHMP4B. Shrub activity is regulated by its direct interaction with a protein called Lgd in flies, or CC2D1A or B in humans. Here, we report the structural basis for this interaction and propose a mechanism for regulation of polymer assembly. The isolated third DM14 repeat of Lgd binds Shrub, and an Lgd fragment containing only this DM14 repeat and its C-terminal C2 domain is sufficient for in vivo function. The DM14 domain forms a helical hairpin with a conserved, positively charged tip, that, in the structure of a DM14 domain-Shrub complex, occupies a negatively charged surface of Shrub that is otherwise used for homopolymerization. Lgd mutations at this interface disrupt its function in flies, confirming functional importance. Together, these data argue that Lgd regulates ESCRT activity by controlling access to the Shrub self-assembly surface.


    Organizational Affiliation

    Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Lethal (2) giant discs 1, isoform B
A
66Drosophila melanogasterMutation(s): 0 
Gene Names: l(2)gd1 (lgd)
Find proteins for Q9VKJ9 (Drosophila melanogaster)
Go to UniProtKB:  Q9VKJ9
Small Molecules
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 1.101 Å
  • R-Value Free: 0.178 
  • R-Value Work: 0.170 
  • Space Group: P 41 21 2
Unit Cell:
Length (Å)Angle (°)
a = 29.670α = 90.00
b = 29.670β = 90.00
c = 139.110γ = 90.00
Software Package:
Software NamePurpose
PHENIXphasing
XDSdata reduction
XDSdata scaling
PHENIXrefinement

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-06-14
    Type: Initial release