X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 289.0
Details 0.1 M Tris 8.5, LiSO4, PEG 4000

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 96.49 α = 90
b = 96.49 β = 90
c = 80.63 γ = 120
Symmetry
Space Group P 65

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 4 -- 2012-03-14
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL12-2 1.0 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
1.83 41.78 100.0 0.035 -- -- 10.1 -- 37600 -- -- --
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)
1.833 1.839 100.0 0.868 -- -- 9.1 --

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
MOLECULAR REPLACEMENT 1.888 41.779 -- 1.35 -- 34245 1731 99.82 -- 0.1824 0.1815 0.1986 --
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 1.8879 1.9435 -- 163 2672 0.2895 0.3415 0.0 100.0
X Ray Diffraction 1.9435 2.0062 -- 122 2717 0.2493 0.279 0.0 100.0
X Ray Diffraction 2.0062 2.0779 -- 155 2685 0.2158 0.2738 0.0 100.0
X Ray Diffraction 2.0779 2.1611 -- 127 2718 0.1949 0.2194 0.0 100.0
X Ray Diffraction 2.1611 2.2594 -- 139 2726 0.1776 0.1928 0.0 100.0
X Ray Diffraction 2.2594 2.3785 -- 139 2713 0.17 0.2078 0.0 100.0
X Ray Diffraction 2.3785 2.5275 -- 136 2711 0.1897 0.2216 0.0 100.0
X Ray Diffraction 2.5275 2.7227 -- 156 2684 0.1914 0.2047 0.0 100.0
X Ray Diffraction 2.7227 2.9966 -- 132 2741 0.1813 0.226 0.0 100.0
X Ray Diffraction 2.9966 3.43 -- 157 2686 0.1874 0.1996 0.0 100.0
X Ray Diffraction 3.43 4.3208 -- 157 2707 0.1657 0.1798 0.0 100.0
X Ray Diffraction 4.3208 41.7894 -- 148 2754 0.1709 0.1719 0.0 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 43.0209
Anisotropic B[1][1] 0.0
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.0
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.0
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.007
f_dihedral_angle_d 13.788
f_plane_restr 0.005
f_angle_d 1.025
f_chiral_restr 0.076
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2223
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 142

Software

Software
Software Name Purpose
Aimless data scaling
PDB_EXTRACT data extraction version: 3.22
XDS data reduction
PHASER phasing
PHENIX refinement version: 1.7.3_928