5SV9
Structure of the SLC4 transporter Bor1p in an inward-facing conformation
ELECTRON MICROSCOPY
Sample |
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Bor1p dimer in an inward-facing conformation |
Specimen Preparation | |
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Sample Aggregation State | HELICAL ARRAY |
Vitrification Instrument | HOMEMADE PLUNGER |
Cryogen Name | ETHANE |
Sample Vitrification Details |
3D Reconstruction | |
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Reconstruction Method | HELICAL |
Number of Particles | 75 |
Reported Resolution (Å) | 5.9 |
Resolution Method | FSC 0.143 CUT-OFF |
Other Details | Reconstruction was done using D1 symmetry because of an existing two-fold symmetry in the unit cells composing the helical lattice. This two-fold axis ... |
Refinement Type | |
Symmetry Type | HELICAL |
Axial Symmetry | C1 |
Axial Rise | 4.8 |
Angular Rotation | 37.35 |
Map-Model Fitting and Refinement | |||||
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Id | 1 (4YZF, 4YZF) | ||||
Refinement Space | REAL | ||||
Refinement Protocol | FLEXIBLE FIT | ||||
Refinement Target | cross-correlation coefficient | ||||
Overall B Value | |||||
Fitting Procedure | |||||
Details | A homology model was first created using human AE1 (PDB entry 4YZF) as a template using MODELLER, placed into the density map using SITUS, and then fi ... |
Data Acquisition | |||||||||
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Detector Type | GATAN K2 SUMMIT (4k x 4k) | ||||||||
Electron Dose (electrons/Å**2) | 45 |
Imaging Experiment | 1 |
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Date of Experiment | |
Temperature (Kelvin) | |
Microscope Model | FEI TECNAI F20 |
Minimum Defocus (nm) | 1000 |
Maximum Defocus (nm) | 2500 |
Minimum Tilt Angle (degrees) | |
Maximum Tilt Angle (degrees) | |
Nominal CS | 2 |
Imaging Mode | BRIGHT FIELD |
Specimen Holder Model | GATAN 626 SINGLE TILT LIQUID NITROGEN CRYO TRANSFER HOLDER |
Nominal Magnification | 19000 |
Calibrated Magnification | |
Source | FIELD EMISSION GUN |
Acceleration Voltage (kV) | 200 |
Imaging Details |
EM Software | ||
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Task | Software Package | Version |
PARTICLE SELECTION | SPARX/EMAN2 | EMAN2.1 |
CTF CORRECTION | CTFFIND | 3 |
CTF CORRECTION | FREALIX | 1.2.0 |
MODEL FITTING | Situs | 2.8 |
MODEL FITTING | NAMD | 2.11 |
INITIAL EULER ASSIGNMENT | FREALIX | 1.2.0 |
FINAL EULER ASSIGNMENT | FREALIX | 1.2.0 |
RECONSTRUCTION | FREALIX | 1.2.0 |
RECONSTRUCTION | SPARX/EMAN2 | EMAN2.1 |
Image Processing | ||||
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CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
PHASE FLIPPING AND AMPLITUDE CORRECTION | 87 |