6WDP
Interleukin 12 receptor subunit beta-1
X-RAY DIFFRACTION
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | VAPOR DIFFUSION | 5.9 | 293 | 1.75 M ammonium sulfate, 0.2 M NaCl, and 0.1 M sodium cacodylate pH 5.9 |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 55.78 | α = 90 |
b = 55.78 | β = 90 |
c = 182.01 | γ = 90 |
Symmetry | |
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Space Group | P 43 21 2 |
Diffraction
Diffraction Experiment | ||||||||||||||
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ID # | Crystal ID | Scattering Type | Data Collection Temperature | Detector | Detector Type | Details | Collection Date | Monochromator | Protocol | |||||
1 | 1 | x-ray | 100 | CCD | ADSC QUANTUM 315r | 2011-09-09 | M | SINGLE WAVELENGTH | ||||||
2 | 2 | x-ray | 100 | PIXEL | DECTRIS PILATUS 6M | 2012-01-22 | M | MAD | ||||||
3 | 2 | x-ray | 100 | PIXEL | DECTRIS PILATUS 6M | 2012-01-22 | M | MAD | ||||||
4 | 2 | x-ray | 100 | PIXEL | DECTRIS PILATUS 6M | 2012-01-22 | M | MAD |
Radiation Source | |||||
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ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | ALS BEAMLINE 8.2.2 | 1.0 | ALS | 8.2.2 |
2 | SYNCHROTRON | SSRL BEAMLINE BL12-2 | 0.9792 | SSRL | BL12-2 |
3 | SYNCHROTRON | SSRL BEAMLINE BL12-2 | 0.9184 | SSRL | BL12-2 |
4 | SYNCHROTRON | SSRL BEAMLINE BL12-2 | 0.9798 | SSRL | BL12-2 |
Data Collection
Overall | |||||||||||||||||||
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ID # | Resolution (High) | Resolution (Low) | Percent Possible (Observed) | R Merge I (Observed) | Rrim I (All) | Rpim I (All) | CC (Half) | Net I Over Average Sigma (I) | Redundancy | Number Reflections (All) | Number Reflections (Observed) | Observed Criterion Sigma (F) | Observed Criterion Sigma (I) | B (Isotropic) From Wilson Plot | |||||
1 | 2.01 | 36.19 | 98.84 | 0.1033 | 0.1084 | 0.032 | 0.999 | 13.8 | 11 | 19869 | 40.96 |
Highest Resolution Shell | |||||||||||||||||||
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ID # | Resolution (High) | Resolution (Low) | Percent Possible (All) | Percent Possible (Observed) | R Merge I (Observed) | Rrim I (All) | Rpim I (All) | CC (Half) | Mean I Over Sigma (Observed) | Redundancy | Number Unique Reflections (All) | ||||||||
1 | 2.01 | 2.082 | 94.03 | 1.685 | 1.789 | 0.5814 | 0.438 | 1.16 | 9 |
Refinement
Statistics | |||||||||||||||||||
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Diffraction ID | Structure Solution Method | Cross Validation method | Resolution (High) | Resolution (Low) | Cut-off Sigma (F) | Number Reflections (Observed) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Factor (Observed) | R-Work | R-Free | Mean Isotropic B | |||||||
X-RAY DIFFRACTION | MAD | FREE R-VALUE | 2.01 | 36.19 | 1.33 | 19844 | 994 | 98.53 | 0.223 | 0.2219 | 0.2417 | 50.04 |
Temperature Factor Modeling | ||||||
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Anisotropic B[1][1] | Anisotropic B[1][2] | Anisotropic B[1][3] | Anisotropic B[2][2] | Anisotropic B[2][3] | Anisotropic B[3][3] | |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
f_dihedral_angle_d | 17.0452 |
f_angle_d | 0.7196 |
f_chiral_restr | 0.0426 |
f_plane_restr | 0.0052 |
f_bond_d | 0.0044 |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 1645 |
Nucleic Acid Atoms | |
Solvent Atoms | 39 |
Heterogen Atoms | 23 |
Software
Software | |
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Software Name | Purpose |
PHENIX | refinement |
XDS | data reduction |
autoSHARP | phasing |
XDS | data scaling |