Biological Assembly 1  

 3D View: Structure | Electron Density

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

 3D View: Structure | Electron Density

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 13.33 kDa 
• Atom Count: 965 
• Residue Count: 110 
• Unique protein chains: 2

1DDV

CRYSTAL STRUCTURE OF THE HOMER EVH1 DOMAIN WITH BOUND MGLUR PEPTIDE

• DOI: 10.2210/pdb1DDV/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Rattus norvegicus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 1999-11-11 Released: 2000-05-10 
• Deposition Author(s): Beneken, J., Tu, J.C., Xiao, B., Worley, P.F., Leahy, D.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.278 
• R-Value Work: 0.242 
• R-Value Observed: 0.242 

Literature

Structure of the Homer EVH1 domain-peptide complex reveals a new twist in polyproline recognition.

Beneken, J., Tu, J.C., Xiao, B., Nuriya, M., Yuan, J.P., Worley, P.F., Leahy, D.J.

(2000) Neuron 26: 143-154

• PubMed: 10798399 
• DOI: 10.1016/s0896-6273(00)81145-9
• Primary Citation of Related Structures:  
  1DDW, 1DDV


• PubMed Abstract: 
  

Homer EVH1 (Ena/VASP Homology 1) domains interact with proline-rich motifs in the cytoplasmic regions of group 1 metabotropic glutamate receptors (mGluRs), inositol-1,4,5-trisphosphate receptors (IP3Rs), and Shank proteins. We have determined the crystal structure of the Homer EVH1 domain complexed with a peptide from mGluR (TPPSPF). In contrast to other EVH1 domains, the bound mGluR ligand assumes an unusual conformation in which the side chains of the Ser-Pro tandem are oriented away from the Homer surface, and the Phe forms a unique contact. This unusual binding mode rationalizes conserved features of both Homer and Homer ligands that are not shared by other EVH1 domains. Site-directed mutagenesis confirms the importance of specific Homer residues for ligand binding. These results establish a molecular basis for understanding the biological properties of Homer-ligand complexes.

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Related Citations: 

• Homer binds a novel proline-rich motif and links group 1 metabotropic glutamate receptors with IP3 receptors
  Tu, J.C., Xiao, B., Yuan, J.P., Lanahan, A.A., Worley, P.F., Leoffert, K., Li, M., Linden, D.J.
  (1998) Neuron 21: 717

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Organizational Affiliation: 

Department of Biophysics and Biophysical Chemistry, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
GLGF-DOMAIN PROTEIN HOMER	A	111	Rattus norvegicus	Mutation(s): 0  Gene Names: Homer1, Homer, Vesl
Find proteins for Q9Z214 (Rattus norvegicus) Explore Q9Z214  Go to UniProtKB:  Q9Z214

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
METABOTROPIC GLUTAMATE RECEPTOR MGLUR5	B	6	N/A	Mutation(s): 0
Find proteins for P31424 (Rattus norvegicus) Explore P31424  Go to UniProtKB:  P31424

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 0.278 
• R-Value Work: 0.242 
• R-Value Observed: 0.242 
• Space Group: P 2₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 55.7	α = 90
b = 48.6	β = 90
c = 35.9	γ = 90

Software Package:

Software Name	Purpose
AMoRE	phasing
CNS	refinement
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 1999-11-11 
• Released Date: 2000-05-10 
Deposition Author(s): Beneken, J., Tu, J.C., Xiao, B., Worley, P.F., Leahy, D.J.

Revision History 

• Version 1.0: 2000-05-10
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2017-10-04
  Changes: Refinement description