3J94
Structure of ATP-bound N-ethylmaleimide sensitive factor determined by single particle cryoelectron microscopy
ELECTRON MICROSCOPY
Starting Model(s)
Initial Refinement Model(s) | |||
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Type | Source | Accession Code | Details |
experimental model | PDB | 1NSF |
Refinement
RMS Deviations | |
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Key | Refinement Restraint Deviation |
f_dihedral_angle_d | 18.409 |
f_angle_d | 1.762 |
f_chiral_restr | 0.071 |
f_bond_d | 0.008 |
f_plane_restr | 0.006 |
Sample |
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ATP-bound N-ethylmaleimide sensitive factor |
Specimen Preparation | |
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Sample Aggregation State | PARTICLE |
Vitrification Instrument | FEI VITROBOT MARK I |
Cryogen Name | ETHANE |
Sample Vitrification Details | Blot for 3.5 seconds before plunging into liquid ethane (FEI VITROBOT MARK I). |
3D Reconstruction | |
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Reconstruction Method | SINGLE PARTICLE |
Number of Particles | 50781 |
Reported Resolution (Å) | 4.2 |
Resolution Method | FSC 0.143 CUT-OFF |
Other Details | Every image is the sum of 30 frames recorded using the K2 Summit. The final reconstruction was calculated from images summed from frames #2-#18. (Sing ... |
Refinement Type | |
Symmetry Type | POINT |
Point Symmetry | C1 |
Map-Model Fitting and Refinement | |||||
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Id | 1 (1NSF) | ||||
Refinement Space | RECIPROCAL | ||||
Refinement Protocol | FLEXIBLE FIT | ||||
Refinement Target | R-factor | ||||
Overall B Value | |||||
Fitting Procedure | |||||
Details | REFINEMENT PROTOCOL--flexible DETAILS--D2 domain was from crystal structure 1NSF. D1 domain was built de novo. |
Data Acquisition | |||||||||
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Detector Type | GATAN K2 (4k x 4k) | ||||||||
Electron Dose (electrons/Å**2) | 26.4 |
Imaging Experiment | 1 |
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Date of Experiment | 2014-02-28 |
Temperature (Kelvin) | |
Microscope Model | FEI POLARA 300 |
Minimum Defocus (nm) | -1800 |
Maximum Defocus (nm) | -2800 |
Minimum Tilt Angle (degrees) | |
Maximum Tilt Angle (degrees) | |
Nominal CS | 2.3 |
Imaging Mode | BRIGHT FIELD |
Specimen Holder Model | OTHER |
Nominal Magnification | 31000 |
Calibrated Magnification | |
Source | FIELD EMISSION GUN |
Acceleration Voltage (kV) | 300 |
Imaging Details |
EM Software | ||
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Task | Software Package | Version |
MODEL FITTING | PHENIX | |
MODEL FITTING | UCSF Chimera | |
RECONSTRUCTION | RELION |
Image Processing | ||||
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CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
Each particle |