X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.5
Temperature 293.0
Details 100mM Bis-Tris, 100mM ammonium sulfate, 25% PEG-3350, pH 6.5, Vapor diffusion, hanging drop, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 75.18 α = 90
b = 76.29 β = 90
c = 81.53 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
CCD ADSC QUANTUM 315r -- 2011-06-26
Diffraction Radiation
Monochromator Protocol
Kirkpatrick-Baez pair of bi-morph mirrors plus channel cut cryogenically cooled monochromator crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 0.98 SOLEIL PROXIMA 1

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 35.83 91.7 -- 0.063 -- 3.1 37078 37078 -- -- 20.15
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)
1.85 1.95 77.6 0.415 0.415 1.2 2.2 4489

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 1.85 35.835 -- 0.0 -- 36974 1850 90.85 -- 0.1919 0.1893 0.2401 --
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 1.85 1.9 -- 105 2133 0.3384 0.3927 -- 73.0
X Ray Diffraction 1.9 1.9559 -- 125 2345 0.3483 0.4423 -- 80.0
X Ray Diffraction 1.9559 2.0191 -- 134 2756 0.2155 0.2504 -- 94.0
X Ray Diffraction 2.0191 2.0912 -- 116 2193 0.2349 0.3577 -- 75.0
X Ray Diffraction 2.0912 2.1749 -- 152 2919 0.1982 0.2711 -- 100.0
X Ray Diffraction 2.1749 2.2739 -- 129 2428 0.2268 0.2788 -- 82.0
X Ray Diffraction 2.2739 2.3938 -- 161 2898 0.1861 0.2539 -- 99.0
X Ray Diffraction 2.3938 2.5437 -- 156 2945 0.1736 0.2549 -- 99.0
X Ray Diffraction 2.5437 2.74 -- 159 2903 0.1799 0.226 -- 98.0
X Ray Diffraction 2.74 3.0156 -- 153 2925 0.1839 0.2487 -- 98.0
X Ray Diffraction 3.0156 3.4517 -- 145 2907 0.1812 0.2433 -- 97.0
X Ray Diffraction 3.4517 4.3476 -- 166 2873 0.1574 0.1988 -- 96.0
X Ray Diffraction 4.3476 35.842 -- 149 2899 0.1673 0.1779 -- 91.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 28.0384
Anisotropic B[1][1] -3.9568
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.6471
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 5.604
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 12.944
f_plane_restr 0.005
f_chiral_restr 0.077
f_angle_d 1.134
f_bond_d 0.008
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3267
Nucleic Acid Atoms 0
Heterogen Atoms 19
Solvent Atoms 458

Software

Computing
Computing Package Purpose
XSCALE Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
BALBES Structure Solution
PHENIX (phenix.refine: 1.7.3_928) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
phenix refinement
SCALA version: 3.3.16 data reduction