8JEW
Human sodium-dependent vitamin C transporter 1 bound to L-ascorbic acid in an inward-open state
ELECTRON MICROSCOPY
Refinement
RMS Deviations | |
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Key | Refinement Restraint Deviation |
r_dihedral_angle_2_deg | 37.054 |
r_long_range_B_refined | 21.498 |
r_long_range_B_other | 21.497 |
r_dihedral_angle_4_deg | 17.845 |
r_dihedral_angle_3_deg | 15.801 |
r_scangle_other | 12.111 |
r_mcangle_it | 8.766 |
r_mcangle_other | 8.765 |
r_scbond_it | 7.717 |
r_scbond_other | 7.715 |
Sample |
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Human SVCT1 dimer in a substrate-bound inward-open state |
Specimen Preparation | |
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Sample Aggregation State | PARTICLE |
Vitrification Instrument | |
Cryogen Name | ETHANE |
Sample Vitrification Details |
3D Reconstruction | |
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Reconstruction Method | SINGLE PARTICLE |
Number of Particles | 147401 |
Reported Resolution (Å) | 2.49 |
Resolution Method | FSC 0.143 CUT-OFF |
Other Details | |
Refinement Type | |
Symmetry Type | POINT |
Point Symmetry | C2 |
Map-Model Fitting and Refinement | |||||
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Id | 1 | ||||
Refinement Space | |||||
Refinement Protocol | |||||
Refinement Target | |||||
Overall B Value | |||||
Fitting Procedure | |||||
Details |
Data Acquisition | |||||||||
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Detector Type | GATAN K3 BIOQUANTUM (6k x 4k) | ||||||||
Electron Dose (electrons/Å**2) | 49.7 |
Imaging Experiment | 1 |
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Date of Experiment | |
Temperature (Kelvin) | |
Microscope Model | FEI TITAN KRIOS |
Minimum Defocus (nm) | 800 |
Maximum Defocus (nm) | 1600 |
Minimum Tilt Angle (degrees) | |
Maximum Tilt Angle (degrees) | |
Nominal CS | |
Imaging Mode | BRIGHT FIELD |
Specimen Holder Model | |
Nominal Magnification | 105000 |
Calibrated Magnification | |
Source | FIELD EMISSION GUN |
Acceleration Voltage (kV) | 300 |
Imaging Details |
EM Software | ||
---|---|---|
Task | Software Package | Version |
PARTICLE SELECTION | RELION | 3.1.1 |
IMAGE ACQUISITION | SerialEM | 3.9.0 |
CTF CORRECTION | RELION | 3.1.1 |
MODEL FITTING | Coot | 0.9.6 |
MODEL REFINEMENT | Servalcat | 0.2.115 |
INITIAL EULER ASSIGNMENT | RELION | 3.1.1 |
FINAL EULER ASSIGNMENT | RELION | 3.1.1 |
CLASSIFICATION | RELION | 3.1.1 |
RECONSTRUCTION | RELION | 3.1.1 |
Image Processing | ||||
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CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
PHASE FLIPPING AND AMPLITUDE CORRECTION | 2852953 |