7SKW
Ab initio structure of triclinic lysozyme from electron-counted MicroED data
ELECTRON CRYSTALLOGRAPHY
Crystal Data
Unit Cell | |
---|---|
Length ( Å ) | Angle ( ˚ ) |
a = 26.42 | α = 88.319 |
b = 30.72 | β = 109.095 |
c = 33.01 | γ = 112.075 |
Symmetry | |
---|---|
Space Group | P 1 |
Refinement
Statistics | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Diffraction ID | Structure Solution Method | Cross Validation method | Resolution (High) | Resolution (Low) | Number Reflections (Observed) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Factor (All) | R-Work | R-Free | R-Free Selection Details | Mean Isotropic B | |||||||
ELECTRON CRYSTALLOGRAPHY | FREE R-VALUE | 0.87 | 19.876 | 64974 | 3168 | 87.578 | 0.198 | 0.1969 | 0.2214 | Random selection | 12.188 |
Temperature Factor Modeling | ||||||
---|---|---|---|---|---|---|
Anisotropic B[1][1] | Anisotropic B[1][2] | Anisotropic B[1][3] | Anisotropic B[2][2] | Anisotropic B[2][3] | Anisotropic B[3][3] | |
-0.65 | -0.32 | -0.122 | 0.143 | -0.056 | 0.652 |
RMS Deviations | |
---|---|
Key | Refinement Restraint Deviation |
r_dihedral_angle_2_deg | 31.154 |
r_dihedral_angle_4_deg | 17.978 |
r_dihedral_angle_3_deg | 12.114 |
r_dihedral_angle_1_deg | 7.011 |
r_lrange_it | 5.786 |
r_rigid_bond_restr | 3.001 |
r_lrange_other | 2.52 |
r_scangle_it | 2.377 |
r_angle_refined_deg | 2.288 |
r_scangle_other | 2.208 |
Software
Software | |
---|---|
Software Name | Purpose |
REFMAC | refinement |
Sample |
---|
Lysozyme |
Specimen Preparation | |
---|---|
Sample Aggregation State | 3D ARRAY |
Vitrification Instrument | LEICA PLUNGER |
Cryogen Name | ETHANE |
Sample Vitrification Details |
3D Reconstruction | |
---|---|
Reconstruction Method | CRYSTALLOGRAPHY |
Number of Particles | |
Reported Resolution (Å) | |
Resolution Method | DIFFRACTION PATTERN/LAYERLINES |
Other Details | |
Refinement Type | |
Symmetry Type | 3D CRYSTAL |
Space Group Name | |
Length a | 26.42 |
Length b | 30.72 |
Length c | 30.72 |
Angle Alpha | 112.075 |
Angle Beta | 109.095 |
Angle Gamma | 112.075 |
Map-Model Fitting and Refinement | |||||
---|---|---|---|---|---|
Id | 1 | ||||
Refinement Space | RECIPROCAL | ||||
Refinement Protocol | AB INITIO MODEL | ||||
Refinement Target | Maximum likelihood | ||||
Overall B Value | 12.188 | ||||
Fitting Procedure | |||||
Details |
Data Acquisition | |||||||||
---|---|---|---|---|---|---|---|---|---|
Detector Type | FEI FALCON IV (4k x 4k) | ||||||||
Electron Dose (electrons/Å**2) | 0.001 |
Imaging Experiment | 1 |
---|---|
Date of Experiment | |
Temperature (Kelvin) | |
Microscope Model | FEI TITAN KRIOS |
Minimum Defocus (nm) | |
Maximum Defocus (nm) | |
Minimum Tilt Angle (degrees) | |
Maximum Tilt Angle (degrees) | |
Nominal CS | 2.7 |
Imaging Mode | DIFFRACTION |
Specimen Holder Model | FEI TITAN KRIOS AUTOGRID HOLDER |
Nominal Magnification | |
Calibrated Magnification | |
Source | FIELD EMISSION GUN |
Acceleration Voltage (kV) | 300 |
Imaging Details |
EM Software | ||
---|---|---|
Task | Software Package | Version |
MODEL REFINEMENT | REFMAC | |
CRYSTALLOGRAPHY MERGING | AIMLESS | |
RECONSTRUCTION | REFMAC |
Image Processing | ||||
---|---|---|---|---|
CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
NONE |