REL RCSB RCSB RCSB 2010-04-13 2010-04-29 2010-05-11 2013-04-17 Yuan S Yu X Topf M Ludtke SJ Wang X Akey CW apoptosome, Apaf-1, procaspase-9 CARD, apoptosis Yuan S Yu X Topf M Ludtke SJ Wang X Akey CW STRUCTURE 18 571 583 2010 20462491 doi:10.1016/j.str.2010.04.001 3j2t FULLOVERLAP human apoptosome with bound procaspase-9 CARD human apoptosome with bound procaspase-9 CARD

Apoptosomes were assembled in low salt buffer, procaspase-9 with a thrombin site in the CARD-p20 linker was added, and then the complex was thrombinized to release pc-9 catalytic domains.

heptameric Apaf-1 in the apoptosome with 7 bound procaspase-9 CARDs 3 1.1 Apaf-1 Homo sapiens Human cytosol 0.135

Seven Apaf-1 molecules were assembled with cytochrome c and dATP to form an apoptosome complex.

7 heptamer true sf21 insect cells pFastBac1 GO:0008635 IPR017251 procaspase-9 Homo sapiens Human cytosol 0.01

procaspase-9 binds on the human apoptosome through CARD-CARD interactions. Procaspase-9 was added to the apoptosome in slight excess and then thrombinized to remove the catalytic domains.

true Escherichia coli pET21b cytochrome c Bos taurus cow mitochrondria 0.01

cytochrome c is the assembly activator for Apaf-1

7 monomer false singleParticle particle 3 7.5

20mM HEPES, 10mM KCl, 1.5mM MgCl2, 1mM EDTA, 1mM EGTA, 1mM DTT

Quantifoil R1.2/1.3 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 1.5 3.0 62000.0 62000.0 GATAN LIQUID NITROGEN 96 objective lens astigmatism was corrected at 200,000 times magnification 2008-08-01 KODAK SO-163 FILM ZEISS SCAI 7 400 25 1.0 Side entry liquid nitrogen-cooled cryo specimen holder.

particles were selected with boxer

Each image

OTHER 9.5 OTHER EMAN

Final map contains 34000 particles. Setsf filtration was applied to the final map to boost amplitude at high resolution range and in the last cycles of refinement.

42000 592 1Z6T A RIGID BODY FIT chimera

PDBEntryID_givenInChain. Protocol: rigid body for each domain. After chimera fitting, Flex-EM was used to improve fitting and minimize collisions. The beta propellers were modeled using the map as a restraint, sequence alignments and the crystal structure of actin interacting protein 1.

cross correlation REAL emd_5186_msk_1.map emd_5186_msk_1.map 1 IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES) 200 200 200 -100 -100 -100 200 200 200 452.0 452.0 452.0 90.0 90.0 90.0 X Y Z 0.0 1.0 0.041508347 0.1861582 2.26 2.26 2.26 This is a mask used to filter the final 3D volume

::::EMDATABANK.org::::EMD-5186::::MASK:1::::