5L1D
Structure of rabbit RyR2 in complex with FKBP12.6 in a closed state (conformation C1)
ELECTRON MICROSCOPY
Refinement
RMS Deviations | |
---|---|
Key | Refinement Restraint Deviation |
r_dihedral_angle_2_deg | 31.548 |
r_long_range_B_refined | 26.965 |
r_long_range_B_other | 26.965 |
r_dihedral_angle_3_deg | 16.038 |
r_dihedral_angle_4_deg | 11.316 |
r_mcangle_it | 11.282 |
r_mcangle_other | 11.282 |
r_scangle_other | 6.885 |
r_dihedral_angle_1_deg | 6.52 |
r_mcbond_it | 6.408 |
Sample |
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Ryanodine Receptor - FKBP12.6 |
Specimen Preparation | |
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Sample Aggregation State | PARTICLE |
Vitrification Instrument | FEI VITROBOT MARK IV |
Cryogen Name | ETHANE |
Sample Vitrification Details | Blot for 2 seconds before plunging into liquid ethane (FEI VITROBOT MARK IV). |
3D Reconstruction | |
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Reconstruction Method | SINGLE PARTICLE |
Number of Particles | 13158 |
Reported Resolution (Å) | 11 |
Resolution Method | FSC 0.5 CUT-OFF |
Other Details | FREALIGN half maps were used to calculate FSC. |
Refinement Type | |
Symmetry Type | POINT |
Point Symmetry | C4 |
Map-Model Fitting and Refinement | |||||
---|---|---|---|---|---|
Id | 1 | ||||
Refinement Space | RECIPROCAL | ||||
Refinement Protocol | RIGID BODY FIT | ||||
Refinement Target | |||||
Overall B Value | |||||
Fitting Procedure | |||||
Details |
Data Acquisition | |||||||||
---|---|---|---|---|---|---|---|---|---|
Detector Type | FEI FALCON II (4k x 4k) | ||||||||
Electron Dose (electrons/Å**2) | 20 |
Imaging Experiment | 1 |
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Date of Experiment | |
Temperature (Kelvin) | |
Microscope Model | FEI TITAN KRIOS |
Minimum Defocus (nm) | 2000 |
Maximum Defocus (nm) | 6000 |
Minimum Tilt Angle (degrees) | |
Maximum Tilt Angle (degrees) | |
Nominal CS | 2.7 |
Imaging Mode | BRIGHT FIELD |
Specimen Holder Model | FEI TITAN KRIOS AUTOGRID HOLDER |
Nominal Magnification | 59000 |
Calibrated Magnification | 62000 |
Source | FIELD EMISSION GUN |
Acceleration Voltage (kV) | 300 |
Imaging Details |
EM Software | ||
---|---|---|
Task | Software Package | Version |
PARTICLE SELECTION | RELION | 1.3 |
IMAGE ACQUISITION | EPU | |
CTF CORRECTION | CTFFIND | 3.5 |
CTF CORRECTION | FREALIGN | 9.11 |
MODEL FITTING | Situs | 2.8 |
MODEL FITTING | UCSF Chimera | 1.11 |
MODEL REFINEMENT | REFMAC | 5.8 |
INITIAL EULER ASSIGNMENT | FREALIGN | 9.11 |
FINAL EULER ASSIGNMENT | FREALIGN | 9.11 |
RECONSTRUCTION | FREALIGN | 9.11 |
Image Processing | ||||
---|---|---|---|---|
CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
PHASE FLIPPING AND AMPLITUDE CORRECTION | 13600 | Used Relion 1.3 to auto-pick the particles. Inspected each micrograph for false positives. |