X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Details 0.17 M SODIUM ACETATE; 0.085 M TRIS, PH 8.5; 25.5% (W/V) PEG4000, 15% (V/V) GLYCEROL

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 70.78 α = 90
b = 81.31 β = 90
c = 111.19 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
PIXEL DECTRIS PILATUS 6M MIRRORS 2011-04-18
Diffraction Radiation
Monochromator Protocol
SI CRYSTAL SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I24 -- DIAMOND I24

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
2.3 38.51 99.1 0.08 -- -- 3.21 -- 28918 -- 5.0 56.28
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)
2.3 2.38 99.1 0.54 -- 1.2 3.2 --

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 2.3 38.508 -- 1.34 -- 28863 1468 98.91 -- 0.2451 0.2436 0.2728 --
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 2.3 2.3822 -- 137 2698 0.367 0.4225 -- 99.0
X Ray Diffraction 2.3822 2.4776 -- 157 2680 0.3399 0.4079 -- 99.0
X Ray Diffraction 2.4776 2.5903 -- 144 2721 0.3331 0.3575 -- 99.0
X Ray Diffraction 2.5903 2.7268 -- 140 2744 0.3366 0.4263 -- 100.0
X Ray Diffraction 2.7268 2.8976 -- 150 2676 0.3191 0.4214 -- 98.0
X Ray Diffraction 2.8976 3.1213 -- 161 2745 0.3086 0.3147 -- 100.0
X Ray Diffraction 3.1213 3.4352 -- 149 2728 0.2748 0.3079 -- 99.0
X Ray Diffraction 3.4352 3.9318 -- 132 2769 0.223 0.2615 -- 99.0
X Ray Diffraction 3.9318 4.952 -- 169 2767 0.1855 0.2279 -- 99.0
X Ray Diffraction 4.952 38.513 -- 129 2867 0.2118 0.1871 -- 97.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 69.018
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.001
f_angle_d 0.495
f_plane_restr 0.001
f_chiral_restr 0.019
f_dihedral_angle_d 14.354
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3626
Nucleic Acid Atoms 0
Heterogen Atoms 48
Solvent Atoms 80

Software

Software
Software Name Purpose
PHENIX refinement version: (PHENIX.REFINE)
d*TREK data reduction
d*TREK data scaling
PHASER phasing