X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 6.7
Temperature 293.0
Details 10% PEG 4K, 16% glycerol, 30 mM MgCl2, 30 mM CaCl2, 0.1 M MES/imidazole pH 6.7

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 105.67 α = 90
b = 159.92 β = 90
c = 181.01 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 2M-F -- 2017-06-09
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06DA 1.00000 SLS X06DA

Data Collection

Overall
Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (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
2.4 48.4 100.0 0.093 -- -- 6.8 -- 115121 -- -- --
High Resolution Shell
Resolution (High) Resolution (Low) Percent Possible (All) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All)
2.4 2.46 100.0 2.66 -- -- 6.6 --

Refinement

Statistics
Structure Solution Method Refinement High Resolution Refinement Low Resolution Cut-off Sigma (I) Cut-off Sigma (F) Number of Reflections (All) Number of Reflections (Observed) Number of Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work R-Free R-Free Selection Details
FOURIER SYNTHESIS 2.402 48.345 -- 1.34 -- 115121 5742 96.06 -- 0.1977 0.1954 0.24 --
High Resolution Shell
Refinement method Shell Resolution (High) Shell Resolution (Low) # of Reflections (Observed) # of Reflections (R-Free) # of Reflections (R-Work) R-Factor (R-Work) R-Factor (R-Free) R-Factor (R-Free Error) Percent Reflections (Observed)
X Ray Diffraction 2.4024 2.4297 -- 43 613 0.3356 0.4229 -- 17.0
X Ray Diffraction 2.4297 2.4583 -- 129 2491 0.3443 0.3613 -- 66.0
X Ray Diffraction 2.4583 2.4882 -- 200 3669 0.3447 0.3922 -- 99.0
X Ray Diffraction 2.4882 2.5197 -- 168 3794 0.3288 0.3804 -- 100.0
X Ray Diffraction 2.5197 2.5529 -- 189 3757 0.3194 0.3501 -- 100.0
X Ray Diffraction 2.5529 2.5878 -- 203 3772 0.3094 0.3606 -- 100.0
X Ray Diffraction 2.5878 2.6248 -- 181 3771 0.3072 0.3387 -- 100.0
X Ray Diffraction 2.6248 2.664 -- 212 3717 0.3036 0.3249 -- 100.0
X Ray Diffraction 2.664 2.7056 -- 205 3765 0.2973 0.3419 -- 100.0
X Ray Diffraction 2.7056 2.75 -- 202 3754 0.287 0.334 -- 100.0
X Ray Diffraction 2.75 2.7974 -- 182 3752 0.2717 0.3532 -- 100.0
X Ray Diffraction 2.7974 2.8482 -- 236 3752 0.2585 0.3187 -- 100.0
X Ray Diffraction 2.8482 2.903 -- 198 3769 0.2566 0.2805 -- 100.0
X Ray Diffraction 2.903 2.9623 -- 187 3790 0.2556 0.3068 -- 100.0
X Ray Diffraction 2.9623 3.0267 -- 187 3775 0.2561 0.3057 -- 100.0
X Ray Diffraction 3.0267 3.0971 -- 192 3771 0.2521 0.3175 -- 100.0
X Ray Diffraction 3.0971 3.1745 -- 207 3786 0.231 0.2969 -- 100.0
X Ray Diffraction 3.1745 3.2603 -- 220 3740 0.2345 0.2781 -- 100.0
X Ray Diffraction 3.2603 3.3562 -- 210 3791 0.2258 0.2682 -- 100.0
X Ray Diffraction 3.3562 3.4645 -- 170 3790 0.211 0.2963 -- 100.0
X Ray Diffraction 3.4645 3.5883 -- 204 3800 0.207 0.244 -- 100.0
X Ray Diffraction 3.5883 3.7319 -- 180 3823 0.1935 0.2426 -- 100.0
X Ray Diffraction 3.7319 3.9017 -- 207 3818 0.1757 0.2285 -- 100.0
X Ray Diffraction 3.9017 4.1073 -- 179 3816 0.1643 0.1987 -- 100.0
X Ray Diffraction 4.1073 4.3645 -- 189 3817 0.1564 0.2056 -- 100.0
X Ray Diffraction 4.3645 4.7012 -- 209 3829 0.1382 0.1939 -- 100.0
X Ray Diffraction 4.7012 5.1738 -- 200 3868 0.1454 0.1594 -- 100.0
X Ray Diffraction 5.1738 5.9214 -- 232 3829 0.1737 0.2306 -- 100.0
X Ray Diffraction 5.9214 7.4559 -- 217 3885 0.1911 0.2475 -- 100.0
X Ray Diffraction 7.4559 48.3552 -- 204 4075 0.1635 0.1885 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 0.535
f_dihedral_angle_d 10.641
f_bond_d 0.002
f_plane_restr 0.003
f_chiral_restr 0.041
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 17082
Nucleic Acid Atoms 0
Heterogen Atoms 228
Solvent Atoms 303

Software

Software
Software Name Purpose
PHENIX refinement version: (1.13_2998: ???)
XDS data reduction
XSCALE data scaling
PHENIX phasing