REL PDBe PDBe PDBe 2011-07-12 2012-03-15 2012-03-15 2012-03-15 Map of the apoptosome-procaspase-9 complex Yuan S Ludtke SJ Akey CW apoptosome, Apaf-1, procaspase-9 activation Yuan S Yu X Asara JM Heuser JE Ludtke SJ Akey CW The holo-apoptosome: activation of procaspase-9 and interactions with caspase-3. STRUCTURE 19 1084 1096 2011 21827945 doi:10.1016/j.str.2011.07.001 Human apoptosome-procaspase-9 complex Human apoptosome-procaspase-9 complex
A slight excess of procaspase-9 was added to ensure saturation of binding to sites on the apoptosome.
5-7 procaspase-9 molecules bound to the human apoptosome comprised of 7 Apaf-1 subunits 3 1.2 Apaf-1 Homo sapiens Human Cytosol 0.13
Apaf-1, cytochrome c and procaspase-9 were co-assembled in the presence of dATP to form the apoptosome-procaspase-9 complex
7 Heptamer true Spodoptera frugiperda pFastBac1 IPR017251 Procaspase-9 Homo sapiens Human Cytosol 0.05 Monomer true Escherichia coli pET21 Cytochrome c Bos taurus Cow heart Mitochondria 0.01 7 Monomer false singleParticle particle 3 7.5
20 mM HEPES, 10 mM KCl, 1.5 mM MgCl2, 1 mM EDTA, 1 mM EGTA, 1 mM DTT
Quantifoil holey grids
 ETHANE 100 77 FEI VITROBOT MARK III
Vitrification instrument: Vitrobot Mark 3 (FEI)
Blot for 2-3 seconds before plunging at 20C FEI TECNAI F20 FLOOD BEAM BRIGHT FIELD FIELD EMISSION GUN 120 2 1.8 3.5 29000.0 29000.0 GATAN LIQUID NITROGEN 96 objective lens astigmatism was corrected at 200,000 times magnification
4k x 4k ccd used
GENERIC TVIPS 447 20 Side entry liquid nitrogen-cooled cryo specimen holder
Apaf-1 was co-assembled with bovine cytochrome c and pc-9
Each image
 C1 OTHER 16.9 FSC 0.5 CUT-OFF EMAN2
3D volume was calculated without imposing any symmetry (c1)
20000 1000 emd_1931.map.gz 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 192 192 192 0 0 0 192 192 192 556.80005 556.80005 556.80005 90.0 90.0 90.0 X Y Z -0.67261672 2.2649889 0.01628205 0.14226763 2.9 2.9 2.9 0.8 AUTHOR Map of the apoptosome-procaspase-9 complex
::::EMDATABANK.org::::EMD-1931::::
 3IZA RIGID BODY FIT chimera
Protocol: rigid body
cross correlation REAL 1JXQ A RIGID BODY FIT chimera
PDBEntryID_givenInChain. Protocol: rigid body. final fit was done manually taking into account the orientation of the p20-p10 loop.
REAL