4V4L
Structure of the Drosophila apoptosome
ELECTRON MICROSCOPY
Sample |
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Drosophila apoptosome (double ring) |
Sample Components |
Apaf-1 related killer DARK |
Specimen Preparation | |
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Sample Aggregation State | PARTICLE |
Vitrification Instrument | FEI VITROBOT MARK III |
Cryogen Name | ETHANE |
Sample Vitrification Details | blotting at room temperature with sample at room temperature |
3D Reconstruction | |
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Reconstruction Method | SINGLE PARTICLE |
Number of Particles | 48271 |
Reported Resolution (Å) | 6.9 |
Resolution Method | FSC 0.5 CUT-OFF |
Other Details | Projection matching was done with Fourier ring correlation, model-based masking and SSNR weighting over an 80-6 angstrom resolution range. The final r ... |
Refinement Type | |
Symmetry Type | POINT |
Point Symmetry | D8 |
Map-Model Fitting and Refinement | |||||
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Id | 1 | ||||
Refinement Space | REAL | ||||
Refinement Protocol | FLEXIBLE FIT | ||||
Refinement Target | Cross-correlation coefficient | ||||
Overall B Value | |||||
Fitting Procedure | |||||
Details | METHOD--Flexible fitting, local refinement REFINEMENT PROTOCOL--rigid body first, and then used individual helices DETAILS--Chimera was used to do in ... |
Data Acquisition | |||||||||
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Detector Type | GENERIC TVIPS (4k x 4k) | ||||||||
Electron Dose (electrons/Å**2) | 20 |
Imaging Experiment | 1 |
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Date of Experiment | 2009-09-15 |
Temperature (Kelvin) | 93 |
Microscope Model | FEI TECNAI F20 |
Minimum Defocus (nm) | 1500 |
Maximum Defocus (nm) | 3000 |
Minimum Tilt Angle (degrees) | |
Maximum Tilt Angle (degrees) | |
Nominal CS | 2 |
Imaging Mode | BRIGHT FIELD |
Specimen Holder Model | GATAN LIQUID NITROGEN |
Nominal Magnification | 50000 |
Calibrated Magnification | 50000 |
Source | FIELD EMISSION GUN |
Acceleration Voltage (kV) | 160 |
Imaging Details | actual magnification at the ccd 87000, camera pixel size 15um, 1.72 angstrom per pixel, data collected semi-automatically with EMTools (TVIPS) |
EM Software | ||
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Task | Software Package | Version |
MODEL FITTING | Flex-EM | |
MODEL FITTING | MODELLER | |
MODEL FITTING | UCSF Chimera | |
RECONSTRUCTION | EMAN | 2 |
Image Processing | ||||
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CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
each CCD frame |