X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8
Temperature 277.0
Details 0.05 M HEPES pH 8.0, 30% PEG550 MME, 1.2% Fos-Choline 10

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 80.19 α = 90
b = 80.19 β = 90
c = 293.69 γ = 120
Symmetry
Space Group P 31 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2012-07-05
Diffraction Radiation
Monochromator Protocol
Double crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I04 0.9795 Diamond I04

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
3.4 44.85 74.6 0.09 0.08 -- 5.3 -- 11881 -- -- 96.4
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)
3.4 3.49 5.8 0.68 -- 3.13 0.5 --

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
MAD 3.4 44.85 -- -- -- 11292 589 74.7 -- 0.2662 0.2652 0.2861 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 3.4 3.7405 -- 34 641 0.3201 0.3994 -- 17.4
X Ray Diffraction 3.7405 4.2813 -- 154 2964 0.2724 0.3216 -- 80.0
X Ray Diffraction 4.2813 5.3926 -- 195 3768 0.2334 0.2579 -- 99.9
X Ray Diffraction 5.3926 44.85 -- 206 3916 0.2802 0.2854 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 127.1
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.045
f_plane_restr 0.006
f_dihedral_angle_d 11.482
f_bond_d 0.005
f_angle_d 1.188
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3283
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 0

Software

Software
Software Name Purpose
PHENIX refinement version: 1.9_1692
XDS data reduction
XSCALE data scaling
SHARP phasing