X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging 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, HANGING DROP, temperature 296K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 113.04 α = 90
b = 115.13 β = 90
c = 108.07 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
2.4 40.33 99.9 0.13 0.124 -- 10.5 -- 27904 2.0 2.0 46.8
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)
2.4 2.53 99.9 0.346 0.33 5.6 11.7 4019

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 2.4 40.33 -- 1.34 27336 27327 1367 97.95 0.249 0.1992 0.1961 0.2566 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 2.4 2.4858 -- 134 2540 0.2192 0.3443 -- 97.0
X Ray Diffraction 2.4858 2.5853 -- 134 2538 0.2263 0.3625 -- 97.0
X Ray Diffraction 2.5853 2.7029 -- 133 2534 0.2426 0.3688 -- 97.0
X Ray Diffraction 2.7029 2.8454 -- 135 2564 0.2372 0.3151 -- 98.0
X Ray Diffraction 2.8454 3.0236 -- 135 2565 0.239 0.2979 -- 98.0
X Ray Diffraction 3.0236 3.257 -- 136 2587 0.2289 0.2936 -- 98.0
X Ray Diffraction 3.257 3.5846 -- 136 2581 0.1873 0.2627 -- 98.0
X Ray Diffraction 3.5846 4.1028 -- 138 2608 0.1733 0.2183 -- 98.0
X Ray Diffraction 4.1028 5.1674 -- 139 2660 0.1577 0.2 -- 99.0
X Ray Diffraction 5.1674 40.3356 -- 147 2783 0.1915 0.2267 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 41.09
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.006
f_chiral_restr 0.072
f_dihedral_angle_d 13.704
f_angle_d 1.108
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4673
Nucleic Acid Atoms 0
Heterogen Atoms 44
Solvent Atoms 113

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
None data collection