5ZZ9

Crystal structure of Homer2 EVH1/Drebrin PPXXF complex


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.192 

wwPDB Validation 3D Report Full Report


This is version 1.1 of the entry. See complete history

Literature

Homer Tetramer Promotes Actin Bundling Activity of Drebrin.

Li, Z.Liu, H.Li, J.Yang, Q.Feng, Z.Li, Y.Yang, H.Yu, C.Wan, J.Liu, W.Zhang, M.

(2019) Structure 27: 27-38.e4

  • DOI: 10.1016/j.str.2018.10.011

  • PubMed Abstract: 
  • Drebrin is an actin bundling protein that plays critical roles in synaptic spine development and plasticity. Homer, one of the most abundant scaffolding proteins in postsynaptic density, interacts with Drebrin's C-terminal PPXXF motifs using its Ena/ ...

    Drebrin is an actin bundling protein that plays critical roles in synaptic spine development and plasticity. Homer, one of the most abundant scaffolding proteins in postsynaptic density, interacts with Drebrin's C-terminal PPXXF motifs using its Ena/VASP homology 1 (EVH1) domain. However, the molecular mechanism and biological function of this interaction remain unclear. Here we show that Homer specifically binds to the first but not the second PPXXF motif in Drebrin. The crystal structure of Drebrin-Homer binding motif 1 in complex with Homer EVH1 reveals a consensus Homer EVH1 binding motif. Homer tetramer promotes actin bundling activity of Drebrin in vitro and stimulates Drebrin-induced filopodia formation and elongation in cells. We further show that monomeric Homer1a antagonizes Homer1b in promoting Drebrin-stimulated actin bundling. Our study suggests a potential regulatory role of Homer1 in modulating excitatory synaptic spine homeostatic scaling via binding to Drebrin.


    Organizational Affiliation

    Shenzhen Key Laboratory for Neuronal Structural Biology, Biomedical Research Institute, Shenzhen Peking University-The Hong Kong University of Science and Technology Medical Center, Shenzhen 518036, China.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Homer protein homolog 2
A, B, C
123Mus musculusMutation(s): 0 
Gene Names: Homer2 (Vesl2)
Find proteins for Q9QWW1 (Mus musculus)
Go to UniProtKB:  Q9QWW1
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Peptide from Drebrin
D, E, F
28Homo sapiensMutation(s): 0 
Gene Names: DBN1 (D0S117E)
Find proteins for Q16643 (Homo sapiens)
Go to Gene View: DBN1
Go to UniProtKB:  Q16643
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.3 Å
  • R-Value Free: 0.228 
  • R-Value Work: 0.192 
  • Space Group: P 1
Unit Cell:
Length (Å)Angle (°)
a = 45.337α = 70.44
b = 47.808β = 83.56
c = 50.415γ = 90.39
Software Package:
Software NamePurpose
PHENIXrefinement
PHASERphasing
SCALEPACKdata scaling
DENZOdata reduction
PDB_EXTRACTdata extraction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Minister of Science and Technology of ChinaChina2014CB910204

Revision History 

  • Version 1.0: 2018-12-19
    Type: Initial release
  • Version 1.1: 2019-01-23
    Type: Data collection, Database references