3IYZ
Structure of Aquaporin-4 S180D mutant at 10.0 A resolution from electron micrograph
ELECTRON CRYSTALLOGRAPHY
Starting Model(s)
Initial Refinement Model(s) | |||
---|---|---|---|
Type | Source | Accession Code | Details |
experimental model | PDB | 2ZZ9 |
Crystallization
Crystalization Experiments | ||||
---|---|---|---|---|
ID | Method | pH | Temperature | Details |
1 | 6 | pH 6.00 |
Crystal Data
Unit Cell | |
---|---|
Length ( Å ) | Angle ( ˚ ) |
a = 69 | α = 90 |
b = 69 | β = 90 |
c = 160 | γ = 90 |
Symmetry | |
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Space Group | P 4 21 2 |
Diffraction
Diffraction Experiment | ||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ID # | Crystal ID | Scattering Type | Data Collection Temperature | Detector | Detector Type | Details | Collection Date | Monochromator | Protocol | |||||
1 | 1 | electron | 4.2 | 2008-02-04 | M | SINGLE WAVELENGTH |
Refinement
Statistics | |||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Diffraction ID | Structure Solution Method | Starting model | Resolution (High) | Resolution (Low) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Work (Depositor) | R-Free (Depositor) | Mean Isotropic B | ||||||||||
ELECTRON CRYSTALLOGRAPHY | MOLECULAR REPLACEMENT | PDB entry 2ZZ9 | 10 |
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] | |
Non-Hydrogen Atoms Used in Refinement | |
---|---|
Non-Hydrogen Atoms | Number |
Protein Atoms | 223 |
Nucleic Acid Atoms | |
Solvent Atoms | |
Heterogen Atoms |
Software
Software | |
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Software Name | Purpose |
MRC | data scaling |
Sample |
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rat aquaporin-4 S180D mutant |
Specimen Preparation | |
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Sample Aggregation State | 2D ARRAY |
Vitrification Instrument | REICHERT-JUNG PLUNGER |
Cryogen Name | NITROGEN |
Sample Vitrification Details |
3D Reconstruction | |
---|---|
Reconstruction Method | CRYSTALLOGRAPHY |
Number of Particles | |
Reported Resolution (Å) | 10 |
Resolution Method | OTHER |
Other Details | MRC |
Refinement Type | |
Symmetry Type | 2D CRYSTAL |
Map-Model Fitting and Refinement | |||||
---|---|---|---|---|---|
Id | 1 (2ZZ9) | ||||
Refinement Space | REAL | ||||
Refinement Protocol | RIGID BODY FIT | ||||
Refinement Target | Cross-correlation coefficient | ||||
Overall B Value | |||||
Fitting Procedure | |||||
Details | REFINEMENT PROTOCOL--rigid body |
Data Acquisition | |||||||||
---|---|---|---|---|---|---|---|---|---|
Detector Type | GENERIC CCD | ||||||||
Electron Dose (electrons/Å**2) | 38 |
Imaging Experiment | 1 |
---|---|
Date of Experiment | |
Temperature (Kelvin) | 4.2 |
Microscope Model | JEOL KYOTO-3000SFF |
Minimum Defocus (nm) | 430 |
Maximum Defocus (nm) | 3730 |
Minimum Tilt Angle (degrees) | -60 |
Maximum Tilt Angle (degrees) | 60 |
Nominal CS | 1.6 |
Imaging Mode | BRIGHT FIELD |
Specimen Holder Model | OTHER |
Nominal Magnification | 90000 |
Calibrated Magnification | |
Source | FIELD EMISSION GUN |
Acceleration Voltage (kV) | 300 |
Imaging Details |
EM Software | ||
---|---|---|
Task | Software Package | Version |
MODEL FITTING | Situs | |
RECONSTRUCTION | MRC |
Image Processing | ||||
---|---|---|---|---|
CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
Each image |