1RPQ

High Affinity IgE Receptor (alpha chain) Complexed with Tight-Binding E131 'zeta' Peptide from Phage Display


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Free: 0.349 
  • R-Value Work: 0.294 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Convergent Recognition of the IgE Binding Site on the High-Affinity IgE Receptor.

Stamos, J.Eigenbrot, C.Nakamura, G.R.Reynolds, M.E.Yin, J.P.Lowman, H.B.Fairbrother, W.J.Starovasnik, M.A.

(2004) Structure 12: 1289-1301

  • DOI: 10.1016/j.str.2004.04.015

  • PubMed Abstract: 
  • Two structurally distinct classes of peptides were recently identified by phage display that bind the high-affinity IgE receptor, FcepsilonRI, and block IgE binding and subsequent receptor activation. Both classes adopt highly stable structures in so ...

    Two structurally distinct classes of peptides were recently identified by phage display that bind the high-affinity IgE receptor, FcepsilonRI, and block IgE binding and subsequent receptor activation. Both classes adopt highly stable structures in solution, one forming a beta hairpin, with the other forming a helical "zeta" structure. Despite these differences, the two classes bind competitively to the same site on the receptor. Structural analyses of both peptide-receptor complexes by NMR spectroscopy and/or X-ray crystallography reveal that the unrelated peptide scaffolds have nevertheless converged to present a similar three-dimensional surface to interact with FcepsilonRI and that their modes of interaction share a key feature of the IgE-FcepsilonRI complex, the proline/tryptophan sandwich.


    Related Citations: 
    • Stable "Zeta" Peptides that Act as Potent Antagonists of the High-Affinity Ige Receptor
      Nakamura, G.R.,Reynolds, M.E.,Chen, Y.M.,Starovasnik, M.A.,Lowman, H.B.
      (2002) Proc.Natl.Acad.Sci.USA 99: 1303


    Organizational Affiliation

    Department of Protein Engineering, Genentech, Inc., One DNA Way, South San Francisco, CA 94080 USA. star@gene.com




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
High affinity immunoglobulin epsilon receptor alpha-subunit precursor
A, B, C, D
176Homo sapiensMutation(s): 0 
Gene Names: FCER1A (FCE1A)
Find proteins for P12319 (Homo sapiens)
Go to Gene View: FCER1A
Go to UniProtKB:  P12319
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Peptide E131
W, X, Y, Z
21N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Small Molecules
Ligands 5 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CIT
Query on CIT

Download SDF File 
Download CCD File 
C, D
CITRIC ACID
C6 H8 O7
KRKNYBCHXYNGOX-UHFFFAOYSA-N
 Ligand Interaction
SO4
Query on SO4

Download SDF File 
Download CCD File 
A, Z
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
BMA
Query on BMA

Download SDF File 
Download CCD File 
A, B, C, D
BETA-D-MANNOSE
C6 H12 O6
WQZGKKKJIJFFOK-RWOPYEJCSA-N
 Ligand Interaction
NDG
Query on NDG

Download SDF File 
Download CCD File 
A, B, C, D
2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
C8 H15 N O6
OVRNDRQMDRJTHS-PVFLNQBWSA-N
 Ligand Interaction
NAG
Query on NAG

Download SDF File 
Download CCD File 
A, B, C, D
N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3 Å
  • R-Value Free: 0.349 
  • R-Value Work: 0.294 
  • Space Group: C 2 2 21
Unit Cell:
Length (Å)Angle (°)
a = 199.700α = 90.00
b = 149.700β = 90.00
c = 104.100γ = 90.00
Software Package:
Software NamePurpose
X-PLORrefinement
SCALEPACKdata scaling
AMoREphasing
DENZOdata reduction

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2004-07-20
    Type: Initial release
  • Version 1.1: 2008-04-29
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Non-polymer description, Version format compliance