X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 296.0
Details 0.9-1.2 M lithium sulfate, 1 mM DTT, 0.1 M HEPES, pH 7.5-8.0, VAPOR DIFFUSION, SITTING DROP, temperature 296K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 114 α = 90
b = 117.83 β = 90
c = 108.3 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 2M-F -- 2012-02-11
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X06DA 1.0 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
2.1 39.87 100.0 0.082 0.078 -- 11.0 42829 42825 2.0 2.0 30.1
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)
2.1 2.21 100.0 0.319 0.305 0.075 0.117 6186

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 2.1 39.868 -- 1.34 42778 42769 2000 99.86 0.207 0.1796 0.1779 0.2138 RANDOM
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 2.1 2.1525 -- 141 2881 0.1865 0.2534 -- 100.0
X Ray Diffraction 2.1525 2.2107 -- 141 2868 0.1801 0.2164 -- 100.0
X Ray Diffraction 2.2107 2.2758 -- 141 2881 0.1784 0.2507 -- 100.0
X Ray Diffraction 2.2758 2.3492 -- 142 2880 0.1767 0.2313 -- 100.0
X Ray Diffraction 2.3492 2.4332 -- 141 2867 0.1762 0.2582 -- 100.0
X Ray Diffraction 2.4332 2.5306 -- 141 2898 0.1846 0.2345 -- 100.0
X Ray Diffraction 2.5306 2.6457 -- 143 2896 0.1918 0.234 -- 100.0
X Ray Diffraction 2.6457 2.7852 -- 142 2888 0.1894 0.2388 -- 100.0
X Ray Diffraction 2.7852 2.9596 -- 142 2911 0.1982 0.2404 -- 100.0
X Ray Diffraction 2.9596 3.188 -- 142 2902 0.1959 0.2452 -- 100.0
X Ray Diffraction 3.188 3.5087 -- 143 2926 0.1885 0.2076 -- 100.0
X Ray Diffraction 3.5087 4.016 -- 145 2941 0.1598 0.2123 -- 100.0
X Ray Diffraction 4.016 5.0581 -- 146 2959 0.1479 0.1605 -- 100.0
X Ray Diffraction 5.0581 39.8748 -- 150 3071 0.1898 0.1999 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 33.04
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.006
f_chiral_restr 0.075
f_dihedral_angle_d 13.376
f_angle_d 1.091
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4726
Nucleic Acid Atoms 0
Heterogen Atoms 50
Solvent Atoms 218

Software

Computing
Computing Package Purpose
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHASER Structure Solution
PHENIX (phenix.refine: 1.8.1_1168) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.8.1_1168) refinement
PHASER model building