3YGS

APAF-1 CARD IN COMPLEX WITH PRODOMAIN OF PROCASPASE-9


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.299 
  • R-Value Work: 0.224 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Structural basis of procaspase-9 recruitment by the apoptotic protease-activating factor 1.

Qin, H.Srinivasula, S.M.Wu, G.Fernandes-Alnemri, T.Alnemri, E.S.Shi, Y.

(1999) Nature 399: 549-557

  • DOI: 10.1038/21124
  • Structures With Same Primary Citation

  • PubMed Abstract: 
  • Caspase-9-mediated apoptosis (programmed cell death) plays a central role in the development and homeostasis of all multicellular organisms. Mature caspase-9 is derived from its procaspase precursor as a result of recruitment by the activating factor ...

    Caspase-9-mediated apoptosis (programmed cell death) plays a central role in the development and homeostasis of all multicellular organisms. Mature caspase-9 is derived from its procaspase precursor as a result of recruitment by the activating factor Apaf-1. The crystal structures of the caspase-recruitment domain of Apaf-1 by itself and in complex with the prodomain of procaspase-9 have been determined at 1.6 and 2.5 A resolution, respectively. These structures and other evidence reveal that each molecule of Apaf-1 interacts with a molecule of procaspase-9 through two highly charged and complementary surfaces formed by non-conserved residues; these surfaces determine recognition specificity through networks of intermolecular hydrogen bonds and van der Waals interactions. Mutation of the important interface residues in procaspase-9 or Apaf-1 prevents or reduces activation of procaspase-9 in a cell-free system. Wild-type, but not mutant, prodomains of caspase-9 completely inhibit catalytic processing of procaspase-9. Furthermore, analysis of homologues from Caenorhabditis elegans indicates that recruitment of CED-3 by CED-4 is probably mediated by the same set of conserved structural motifs, with a corresponding change in the specificity-determining residues.


    Organizational Affiliation

    Department of Chemistry, Princeton University, New Jersey 08544, USA.



Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
APOPTOTIC PROTEASE ACTIVATING FACTOR 1
C
95Homo sapiensMutation(s): 0 
Gene Names: APAF1KIAA0413
Find proteins for O14727 (Homo sapiens)
Go to UniProtKB:  O14727
NIH Common Fund Data Resources
PHAROS  O14727

Find similar proteins by: Sequence  |  Structure

Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
PROCASPASE 9
P
97Homo sapiensMutation(s): 0 
Gene Names: CASP9MCH6
EC: 3.4.22 (PDB Primary Data), 3.4.22.62 (UniProt)
Find proteins for P55211 (Homo sapiens)
Go to UniProtKB:  P55211
NIH Common Fund Data Resources
PHAROS  P55211
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.50 Å
  • R-Value Free: 0.299 
  • R-Value Work: 0.224 
  • Space Group: P 62 2 2
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 92.5α = 90
b = 92.5β = 90
c = 136.8γ = 120
Software Package:
Software NamePurpose
X-PLORrefinement
DENZOdata reduction
SCALEPACKdata scaling

Structure Validation

View Full Validation Report



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2000-04-19
    Type: Initial release
  • Version 1.1: 2008-04-26
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance