1FEW | pdb_00001few

CRYSTAL STRUCTURE OF SMAC/DIABLO


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free: 
    0.259 (Depositor) 
  • R-Value Work: 
    0.245 (Depositor) 
  • R-Value Observed: 
    0.247 (Depositor) 

wwPDB Validation 3D Report Full Report

Validation slider image for 1FEW

This is version 1.3 of the entry. See complete history

Literature

Structural and biochemical basis of apoptotic activation by Smac/DIABLO.

Chai, J.Du, C.Wu, J.W.Kyin, S.Wang, X.Shi, Y.

(2000) Nature 406: 855-862

  • DOI: https://doi.org/10.1038/35022514
  • Primary Citation Related Structures: 
    1FEW

  • PubMed Abstract: 

    Apoptosis (programmed cell death), an essential process in the development and homeostasis of metazoans, is carried out by caspases. The mitochondrial protein Smac/DIABLO performs a critical function in apoptosis by eliminating the inhibitory effect of IAPs (inhibitor of apoptosis proteins) on caspases. Here we show that Smac/DIABLO promotes not only the proteolytic activation of procaspase-3 but also the enzymatic activity of mature caspase-3, both of which depend upon its ability to interact physically with IAPs. The crystal structure of Smac/DIABLO at 2.2 A resolution reveals that it homodimerizes through an extensive hydrophobic interface. Missense mutations inactivating this dimeric interface significantly compromise the function of Smac/DIABLO. As in the Drosophila proteins Reaper, Grim and Hid, the amino-terminal amino acids of Smac/DIABLO are indispensable for its function, and a seven-residue peptide derived from the amino terminus promotes procaspase-3 activation in vitro. These results establish an evolutionarily conserved structural and biochemical basis for the activation of apoptosis by Smac/DIABLO.


  • Organizational Affiliation
    • Department of Molecular Biology, Princeton University, New Jersey 08544, USA.

Macromolecule Content 

  • Total Structure Weight: 20.76 kDa 
  • Atom Count: 1,373 
  • Modeled Residue Count: 173 
  • Deposited Residue Count: 184 
  • Unique protein chains: 1

Macromolecules

Find similar proteins by:|  3D Structure
Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
SECOND MITOCHONDRIA-DERIVED ACTIVATOR OF CASPASES184Homo sapiensMutation(s): 0 
UniProt & NIH Common Fund Data Resources
Find proteins for Q9NR28 (Homo sapiens)
Explore Q9NR28 
Go to UniProtKB:  Q9NR28
PHAROS:  Q9NR28
GTEx:  ENSG00000184047 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ9NR28
Sequence Annotations
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Reference Sequence

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • R-Value Free:  0.259 (Depositor) 
  • R-Value Work:  0.245 (Depositor) 
  • R-Value Observed: 0.247 (Depositor) 
Space Group: P 61 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 108.5α = 90
b = 108.5β = 90
c = 70.4γ = 120
Software Package:
Software NamePurpose
DMmodel building
CNSrefinement
DENZOdata reduction
SCALEPACKdata scaling
DMphasing

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History  (Full details and data files)

  • Version 1.0: 2000-09-13
    Type: Initial release
  • Version 1.1: 2008-04-27
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Derived calculations, Version format compliance
  • Version 1.3: 2024-02-07
    Changes: Data collection, Database references