X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 298.0
Details 20% PEG 3350 200 mM CaCl2, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 88.52 α = 90
b = 88.52 β = 90
c = 134.06 γ = 120
Symmetry
Space Group H 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARRESEARCH -- 2011-12-05
Diffraction Radiation
Monochromator Protocol
crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS 1.0 -- --

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
1.39 35 99.9 0.063 -- -- 10.1 -- 40675 -- -- --
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)
1.39 1.41 98.4 0.796 -- -- 5.0 1979

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 1.391 33.274 -- 1.34 -- 40649 1999 99.68 -- 0.1836 0.1828 0.1979 --
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 1.3906 1.4254 -- 137 2634 0.3826 0.3437 -- 96.0
X Ray Diffraction 1.4254 1.464 -- 142 2726 0.3121 0.3256 -- 100.0
X Ray Diffraction 1.464 1.507 -- 142 2755 0.2576 0.2935 -- 100.0
X Ray Diffraction 1.507 1.5557 -- 141 2741 0.2084 0.2141 -- 100.0
X Ray Diffraction 1.5557 1.6113 -- 142 2749 0.1863 0.187 -- 100.0
X Ray Diffraction 1.6113 1.6758 -- 142 2741 0.1799 0.1849 -- 100.0
X Ray Diffraction 1.6758 1.7521 -- 142 2742 0.1735 0.2008 -- 100.0
X Ray Diffraction 1.7521 1.8444 -- 143 2777 0.1649 0.1867 -- 100.0
X Ray Diffraction 1.8444 1.96 -- 142 2752 0.159 0.1922 -- 100.0
X Ray Diffraction 1.96 2.1113 -- 143 2774 0.1732 0.207 -- 100.0
X Ray Diffraction 2.1113 2.3237 -- 144 2769 0.1746 0.1839 -- 100.0
X Ray Diffraction 2.3237 2.6598 -- 144 2781 0.1812 0.1847 -- 100.0
X Ray Diffraction 2.6598 3.3506 -- 145 2807 0.1769 0.1904 -- 100.0
X Ray Diffraction 3.3506 33.2839 -- 150 2902 0.1743 0.1895 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 20.8433
Anisotropic B[1][1] -1.0946
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.0946
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.1892
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_bond_d 0.007
f_chiral_restr 0.068
f_dihedral_angle_d 14.37
f_angle_d 1.169
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1309
Nucleic Acid Atoms 0
Heterogen Atoms 44
Solvent Atoms 173

Software

Software
Software Name Purpose
SCALEPACK data scaling
PHASER phasing
PHENIX refinement version: 1.7.1_743
PDB_EXTRACT data extraction version: 3.10
DENZO data reduction