2019-02-13 REL PDBe PDBe PDBe 2018-12-19 2019-02-13 2019-02-13 2019-02-13 Correlative FM and ET of GFP-Bax in HCT116 cells Ader NR Hoffmann PC Ganeva I Borgeaud AC Wang C Youle RJ Kukulski W Ader NR Hoffmann PC Ganeva I Borgeaud AC Wang C Youle RJ Kukulski W Molecular and topological reorganizations in mitochondrial architecture interplay during Bax-mediated steps of apoptosis. Elife US 8 2019 30714902 doi:10.7554/eLife.40712 2050-084X EMD-4483 other EM volume
EMD-4483 contains another tomogram from the paper cited in this entry..
 EMD-4484 associated EM volume Bax/Bak Double knockout HCT116 (homo sapiens) stably expressing GFP-Bax Bax/Bak Double knockout HCT116 (homo sapiens) stably expressing GFP-Bax 0
Cryofixation of cell was performed 3 h after treatment ABT-737.
Homo sapiens tomography cell 7.4 DMEM
DMEM, high glucose, GlutaMAX, pyruvate (Thermo 31996) medium supplemented with 10% heat-inactivated FBS (Gibco 10270), 10 mM HEPES, and 1x NEAA (Thermo 11140)
 POSITIVE Uranyl Acetate
0.008% uranyl acetate in acetone
 Lowicryl HM20
We use a temperature-controlling Leica AFS2 with FSP. FS is performed at -90 degrees C for 24-36 h in 0.008 percent (w/v) uranyl acetate in glass-distilled acetone. The temperature is then increased to -45 C (5 degrees C/h). Next, the samples are washed three times with acetone and infiltrated with increasing concentrations (10 percent , 25 percent, 50 percent, 75 percent, 2 h each) of Lowicryl HM20 in acetone. During the final mix, the temperature is raised to -35 degrees C (2.5 degree C/h). The temperature is then raised further to -25 degrees C (2.5 degrees C/h), while 100 percent Lowicryl is exchanged three times in 4 h steps with agitation. Then, UV light is applied for 24 h to initialize Lowicryl polymerization. The temperature is then raised to 20 degrees C (5 degrees C/h). At this point, samples can be taken out of the AFS2, but we wait at least 2 days before removing blocks from the plastic wheel to ensure complete polymerization.
 COPPER 200 CARBON CONTINUOUS Agar Scientific Ltd. 20 OTHER
HPF is accomplished using a Leica HPM100 in the provided temperature- and humidity-controlled chamber. To high-pressure freeze cells, we use a carrier method described in the manual for the Leica EM HPM100 CLEM 3 mm system for HPF of sapphire disks. In brief, carriers are assembled as follows between two plastic half cylinders: (1) 6 mm copper gold-plated support ring in a 6 mm CLEM middle plate, (2) a 3 mm sapphire (cells up), (3) a 3 mm spacer ring, (4) a clean sapphire, and (5) a 6 mm cover ring.. The value given for _emd_high_pressure_freezing.instrument is Leica EM HP100. This is not in a list of allowed values set(['LEICA EM PACT2', 'LEICA EM PACT', 'EMS-002 RAPID IMMERSION FREEZER', 'OTHER', 'LEICA EM HPM100', 'BAL-TEC HPM 010']) so OTHER is written into the XML file.
 Ultracut E Microtome (Reichert) 296 300 FEI TECNAI F20 SPOT SCAN BRIGHT FIELD FIELD EMISSION GUN 200 50.0 OTHER
ET was done in STEM mode on an axial brightfield detector with a high-tilt tomography holder (Model 2020; Fischione Instruments) at a 1.1nm pixel size with a camera length of 200 mm.
OTHER 2048 2048 1000.0
ET was done in STEM mode on an axial brightfield detector with a high-tilt tomography holder (Model 2020; Fischione Instruments) at a 1.1nm pixel size with a camera length of 200 mm. [NOTE: Electron dose unknown. Value specified here is a dummy]
 1 BACK PROJECTION eTomo 4.10.20
222 tilted images used from two axies
222 emd_4484.map.gz 1 IMAGE STORED AS SIGNED INTEGER (2 BYTES) 2048 2048 176 0 0 -88 2048 2048 176 22568.96 22568.96 1939.52 90.0 90.0 90.0 X Y Z -32767.0 13636.0 358.648300000000006 301.690999999999974 11.02 11.02 11.02 AUTHOR Reconstructed tomogram of mitochondria in Bax/Bak double knockout HCT116 cells stably expressing GFP-Bax following treatment with ABT-737.