Crystal structure of XIAP-BIR2 domain with AMRV bound

Experimental Data Snapshot

  • Resolution: 2.10 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.183 
  • R-Value Observed: 0.186 

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The structure of XIAP BIR2: understanding the selectivity of the BIR domains.

Lukacs, C.Belunis, C.Crowther, R.Danho, W.Gao, L.Goggin, B.Janson, C.A.Li, S.Remiszewski, S.Schutt, A.Thakur, M.K.Singh, S.K.Swaminathan, S.Pandey, R.Tyagi, R.Gosu, R.Kamath, A.V.Kuglstatter, A.

(2013) Acta Crystallogr D Biol Crystallogr 69: 1717-1725

  • DOI: https://doi.org/10.1107/S0907444913016284
  • Primary Citation of Related Structures:  
    4J3Y, 4J44, 4J45, 4J46, 4J47, 4J48

  • PubMed Abstract: 

    XIAP, a member of the inhibitor of apoptosis family of proteins, is a critical regulator of apoptosis. Inhibition of the BIR domain-caspase interaction is a promising approach towards treating cancer. Previous work has been directed towards inhibiting the BIR3-caspase-9 interaction, which blocks the intrinsic apoptotic pathway; selectively inhibiting the BIR2-caspase-3 interaction would also block the extrinsic pathway. The BIR2 domain of XIAP has successfully been crystallized; peptides and small-molecule inhibitors can be soaked into these crystals, which diffract to high resolution. Here, the BIR2 apo crystal structure and the structures of five BIR2-tetrapeptide complexes are described. The structural flexibility observed on comparing these structures, along with a comparison with XIAP BIR3, affords an understanding of the structural elements that drive selectivity between BIR2 and BIR3 and which can be used to design BIR2-selective inhibitors.

  • Organizational Affiliation

    Discovery Technologies, Hoffmann-La Roche, 340 Kingsland Street, Nutley, NJ 07110, USA.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
E3 ubiquitin-protein ligase XIAPA,
B [auth C]
86Homo sapiensMutation(s): 2 
Gene Names: API3BIRC4IAP3U32974XIAP
EC: 6.3.2
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
PEPTIDE (ALA-MET-ARG-VAL)C [auth B]4Homo sapiensMutation(s): 0 
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.10 Å
  • R-Value Free: 0.253 
  • R-Value Work: 0.183 
  • R-Value Observed: 0.186 
  • Space Group: I 4 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 74.805α = 90
b = 74.805β = 90
c = 109.123γ = 90
Software Package:
Software NamePurpose
HKL-2000data collection
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

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Entry History 

Deposition Data

  • Released Date: 2013-09-25 
  • Deposition Author(s): Gosu, R.

Revision History  (Full details and data files)

  • Version 1.0: 2013-09-25
    Type: Initial release
  • Version 1.1: 2023-09-20
    Changes: Data collection, Database references, Derived calculations, Refinement description