Crystal structure of mouse Bcl-xl mutant (R139A) at pH 5.0

Experimental Data Snapshot

  • Resolution: 2.28 Å
  • R-Value Free: 0.266 
  • R-Value Work: 0.193 
  • R-Value Observed: 0.197 

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This is version 1.4 of the entry. See complete history


Structural insights into mouse anti-apoptotic Bcl-xl reveal affinity for Beclin 1 and gossypol.

Priyadarshi, A.Roy, A.Kim, K.S.Kim, E.E.Hwang, K.Y.

(2010) Biochem Biophys Res Commun 394: 515-521

  • DOI: https://doi.org/10.1016/j.bbrc.2010.03.002
  • Primary Citation of Related Structures:  
    3IHC, 3IHD, 3IHE, 3IHF, 3IIG, 3IIH, 3ILB, 3ILC

  • PubMed Abstract: 

    This study reports the crystal structures of Bcl-xl wild type and three Bcl-xl mutants (Y101A, F105A, and R139A) with amino acid substitutions in the hydrophobic groove of the Bcl-xl BH3 domain. An additional 12 ordered residues were observed in a highly flexible loop between the alpha1 and alpha2 helices, and were recognized as an important deamidation site for the regulation of apoptosis. The autophagy-effector protein, Beclin 1, contains a novel BH3 domain (residues 101-125), which binds to the surface cleft of Bcl-xl, as confirmed by nuclear magnetic resonance (NMR) spectroscopy and analytical gel-filtration results. Gossypol, a potent inhibitor of Bcl-xl, had a K(d) value of 0.9 microM. In addition, the structural and biochemical analysis of five Bcl-xl substitution mutants will provide structural insights into the design and development of anti-cancer drugs.

  • Organizational Affiliation

    Biomedical Research Center, KIST, Republic of Korea.

Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Bcl-2-like protein 1
A, B, C, D
196Mus musculusMutation(s): 1 
Gene Names: Bcl-xlBcl2lBcl2l1Bclx
Find proteins for Q64373 (Mus musculus)
Explore Q64373 
Go to UniProtKB:  Q64373
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ64373
Sequence Annotations
  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Resolution: 2.28 Å
  • R-Value Free: 0.266 
  • R-Value Work: 0.193 
  • R-Value Observed: 0.197 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 35.353α = 89.98
b = 56.525β = 89.93
c = 96.443γ = 89.82
Software Package:
Software NamePurpose
HKL-2000data collection
HKL-2000data reduction
HKL-2000data scaling

Structure Validation

View Full Validation Report

Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2010-04-14
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2013-11-20
    Changes: Database references
  • Version 1.3: 2021-11-10
    Changes: Database references
  • Version 1.4: 2023-11-01
    Changes: Data collection, Refinement description