5I7D
Crystal Structure of srGAP2 F-BARx WT Form-2
X-RAY DIFFRACTION
Crystallization
Crystalization Experiments | ||||
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ID | Method | pH | Temperature | Details |
1 | VAPOR DIFFUSION, HANGING DROP | 293 | F-BARx eluted in 5% Glycerol, 25 mM Tris buffer pH=8.5, 1 mM DTT, and ~0.2 M NaCl at the elution peak, concentrated to ~15 mg/ml and crystallized in 0.2 M Ammonium citrate tribasic pH 6.5, 0.2 M Guanidine, 0.3 M NaCl, 16% PEG 3350 |
Crystal Properties | |
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Matthews coefficient | Solvent content |
3.05 | 59.65 |
Crystal Data
Unit Cell | |
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Length ( Å ) | Angle ( ˚ ) |
a = 120.904 | α = 90 |
b = 49.926 | β = 102.57 |
c = 234.084 | γ = 90 |
Symmetry | |
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Space Group | C 1 2 1 |
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 | PIXEL | DECTRIS PILATUS3 6M | 2015-05-07 | M | SINGLE WAVELENGTH |
Radiation Source | |||||
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ID # | Source | Type | Wavelength List | Synchrotron Site | Beamline |
1 | SYNCHROTRON | BESSY BEAMLINE 14.1 | 1.008818 | BESSY | 14.1 |
Data Collection
Overall | |||||||||||||||||||
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ID # | Resolution (High) | Resolution (Low) | Percent Possible (Observed) | 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 | 3.95 | 50 | 98.2 | 8.32 | 3.6 | 12297 |
Refinement
Statistics | |||||||||||||||||||
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Diffraction ID | Structure Solution Method | Cross Validation method | Resolution (High) | Resolution (Low) | Number Reflections (Observed) | Number Reflections (R-Free) | Percent Reflections (Observed) | R-Factor (Observed) | R-Work | R-Free | R-Free Selection Details | Mean Isotropic B | |||||||
X-RAY DIFFRACTION | MOLECULAR REPLACEMENT | THROUGHOUT | 3.95 | 46.39 | 11681 | 615 | 98.26 | 0.28037 | 0.27689 | 0.34941 | RANDOM | 196.854 |
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] | |
-6.27 | -4.64 | 31.69 | -21.24 |
RMS Deviations | |
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Key | Refinement Restraint Deviation |
r_dihedral_angle_2_deg | 51.218 |
r_dihedral_angle_3_deg | 20.992 |
r_long_range_B_refined | 20.089 |
r_dihedral_angle_4_deg | 14.245 |
r_mcangle_it | 9.121 |
r_mcbond_it | 5.328 |
r_scbond_it | 5.082 |
r_dihedral_angle_1_deg | 3.918 |
r_angle_refined_deg | 1.141 |
r_chiral_restr | 0.072 |
Non-Hydrogen Atoms Used in Refinement | |
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Non-Hydrogen Atoms | Number |
Protein Atoms | 6702 |
Nucleic Acid Atoms | |
Solvent Atoms | |
Heterogen Atoms |
Software
Software | |
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Software Name | Purpose |
REFMAC | refinement |
XDS | data reduction |
XDS | data scaling |
MOLREP | phasing |