X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 7.4
Details 100 mM Tris, pH 7.4, 13% PEG20000

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 92.71 α = 90
b = 92.71 β = 90
c = 97.75 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2013-04-26
Diffraction Radiation
Monochromator Protocol
Liquid nitrogen-cooled double crystal Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL12-2 1.28210 SSRL BL12-2

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
1.85 50 -- -- -- -- -- -- 41954 -- -- 34.23
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)
1.849 -- -- -- -- -- -- --

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
SAD 1.849 46.357 -- 1.35 -- 41937 1924 99.94 -- 0.1695 0.1684 0.1894 --
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 1.849 1.8728 -- 138 2817 0.2941 0.3522 -- 100.0
X Ray Diffraction 1.8728 1.8974 -- 149 2893 0.2643 0.2644 -- 100.0
X Ray Diffraction 1.8974 1.9234 -- 142 2796 0.2659 0.3075 -- 100.0
X Ray Diffraction 1.9234 1.9509 -- 140 2787 0.24 0.298 -- 100.0
X Ray Diffraction 1.9509 1.98 -- 148 2894 0.2319 0.2162 -- 100.0
X Ray Diffraction 1.98 2.011 -- 140 2784 0.2129 0.2523 -- 100.0
X Ray Diffraction 2.011 2.044 -- 146 2813 0.2062 0.279 -- 100.0
X Ray Diffraction 2.044 2.0792 -- 135 2859 0.2103 0.2497 -- 100.0
X Ray Diffraction 2.0792 2.117 -- 136 2843 0.2052 0.2176 -- 100.0
X Ray Diffraction 2.117 2.1577 -- 146 2806 0.1922 0.2242 -- 100.0
X Ray Diffraction 2.1577 2.2018 -- 142 2859 0.1803 0.1781 -- 100.0
X Ray Diffraction 2.2018 2.2496 -- 144 2787 0.1871 0.195 -- 100.0
X Ray Diffraction 2.2496 2.302 -- 139 2805 0.1745 0.1847 -- 100.0
X Ray Diffraction 2.302 2.3595 -- 144 2894 0.1711 0.2197 -- 100.0
X Ray Diffraction 2.3595 2.4233 -- 140 2805 0.1599 0.203 -- 100.0
X Ray Diffraction 2.4233 2.4946 -- 138 2855 0.1673 0.2154 -- 100.0
X Ray Diffraction 2.4946 2.5751 -- 148 2834 0.1595 0.1753 -- 100.0
X Ray Diffraction 2.5751 2.6672 -- 137 2802 0.1546 0.1986 -- 100.0
X Ray Diffraction 2.6672 2.774 -- 148 2839 0.1656 0.1957 -- 100.0
X Ray Diffraction 2.774 2.9002 -- 138 2829 0.1683 0.2029 -- 100.0
X Ray Diffraction 2.9002 3.0531 -- 132 2848 0.1786 0.2111 -- 100.0
X Ray Diffraction 3.0531 3.2443 -- 136 2852 0.1802 0.2164 -- 100.0
X Ray Diffraction 3.2443 3.4947 -- 146 2819 0.1688 0.1996 -- 100.0
X Ray Diffraction 3.4947 3.8462 -- 150 2841 0.1611 0.1798 -- 100.0
X Ray Diffraction 3.8462 4.4024 -- 140 2848 0.1332 0.1454 -- 100.0
X Ray Diffraction 4.4024 5.5451 -- 136 2820 0.1342 0.1362 -- 100.0
X Ray Diffraction 5.5451 46.3715 -- 146 2829 0.1756 0.1829 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 43.6853
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.009
f_chiral_restr 0.068
f_dihedral_angle_d 13.77
f_plane_restr 0.006
f_angle_d 1.227
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2426
Nucleic Acid Atoms 0
Heterogen Atoms 47
Solvent Atoms 300

Software

Software
Software Name Purpose
PHENIX refinement version: 1.8.2_1309
PDB_EXTRACT data extraction version: 3.11
HKL-2000 data reduction
HKL-2000 data scaling
SHELX phasing
SHARP phasing