AVPF bound to BIR3-XIAP

Experimental Data Snapshot

  • Resolution: 3.00 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.231 
  • R-Value Observed: 0.231 

wwPDB Validation   3D Report Full Report

This is version 1.4 of the entry. See complete history


Structure-activity based study of the Smac-binding pocket within the BIR3 domain of XIAP.

Wist, A.D.Gu, L.Riedl, S.J.Shi, Y.McLendon, G.L.

(2007) Bioorg Med Chem 15: 2935-2943

  • DOI: https://doi.org/10.1016/j.bmc.2007.02.010
  • Primary Citation of Related Structures:  
    2OPY, 2OPZ

  • PubMed Abstract: 

    A small series of peptide mimics was designed and synthesized to contain a heterocyclic ring in place of the potentially labile N-terminal peptide bond of the tetrapeptide containing the Smac-XIAP-binding motif. Two Smac mimics were shown to bind to the BIR3 domain of XIAP with moderate affinity and one displayed increased activity in cells relative to the Smac peptides. The structures of BIR3-XIAP in complex with a Smac peptide and a peptide mimic were solved and analyzed to elucidate the structure-activity relationship surrounding the Smac-binding domain within BIR3-XIAP.

  • Organizational Affiliation

    Department of Chemistry, Princeton University, Princeton, NJ 08544, USA. aislyn.wist@mssm.edu

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Baculoviral IAP repeat-containing protein 4
A, B, C, D
109Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for P98170 (Homo sapiens)
Explore P98170 
Go to UniProtKB:  P98170
PHAROS:  P98170
GTEx:  ENSG00000101966 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP98170
Sequence Annotations
  • Reference Sequence

Find similar proteins by:  Sequence   |   3D Structure  

Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
AVPF (Smac homologue, N-terminal tetrapeptide)
E, F, G, H
4N/AMutation(s): 0 
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 3.00 Å
  • R-Value Free: 0.277 
  • R-Value Work: 0.231 
  • R-Value Observed: 0.231 
  • Space Group: I 21 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 170.367α = 90
b = 170.367β = 90
c = 170.367γ = 90
Software Package:
Software NamePurpose
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

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Entry History 

Deposition Data

  • Released Date: 2007-02-20 
  • Deposition Author(s): Wist, A.D.

Revision History  (Full details and data files)

  • Version 1.0: 2007-02-20
    Type: Initial release
  • Version 1.1: 2008-05-01
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2019-09-04
    Changes: Data collection
  • Version 1.4: 2023-12-27
    Changes: Data collection, Database references, Derived calculations