X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 4.6
Temperature 298.0
Details 2.04 M ammonium sulfate, 0.1 M sodium acetate pH 4.6 Cryoprotected in 2.1 M ammonium sulfate, 0.1 M sodium acetate pH 4.6 and 25 % (v/v) ethylene glycol

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 130.16 α = 90
b = 130.16 β = 90
c = 167.24 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS3 6M Mirrors 2014-11-21
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I02 0.9794 Diamond I02

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
1.87 29.75 99.6 -- -- -- 5.9 -- 118143 -- -- 39.3
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)
1.87 1.92 -- -- -- 1.0 5.7 --

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 1.87 29.749 -- 1.34 -- 118081 5868 99.66 -- 0.1835 0.1826 0.1995 --
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 1.87 1.8912 -- 183 3639 0.3255 0.3113 -- 98.0
X Ray Diffraction 1.8912 1.9135 -- 191 3713 0.3379 0.3729 -- 100.0
X Ray Diffraction 1.9135 1.9368 -- 210 3651 0.3271 0.3444 -- 99.0
X Ray Diffraction 1.9368 1.9613 -- 180 3712 0.2907 0.3384 -- 99.0
X Ray Diffraction 1.9613 1.9871 -- 195 3683 0.2753 0.2778 -- 100.0
X Ray Diffraction 1.9871 2.0143 -- 210 3690 0.2517 0.2817 -- 100.0
X Ray Diffraction 2.0143 2.0431 -- 188 3733 0.243 0.2566 -- 100.0
X Ray Diffraction 2.0431 2.0736 -- 190 3733 0.2283 0.2416 -- 100.0
X Ray Diffraction 2.0736 2.106 -- 190 3703 0.2222 0.2947 -- 100.0
X Ray Diffraction 2.106 2.1405 -- 189 3731 0.2096 0.2304 -- 100.0
X Ray Diffraction 2.1405 2.1774 -- 188 3702 0.2037 0.2212 -- 100.0
X Ray Diffraction 2.1774 2.217 -- 187 3713 0.1954 0.2164 -- 100.0
X Ray Diffraction 2.217 2.2596 -- 196 3730 0.1994 0.2021 -- 100.0
X Ray Diffraction 2.2596 2.3057 -- 194 3683 0.1895 0.2355 -- 99.0
X Ray Diffraction 2.3057 2.3558 -- 200 3689 0.1909 0.2187 -- 99.0
X Ray Diffraction 2.3558 2.4106 -- 197 3732 0.1858 0.2123 -- 100.0
X Ray Diffraction 2.4106 2.4708 -- 169 3737 0.1817 0.2404 -- 100.0
X Ray Diffraction 2.4708 2.5376 -- 188 3740 0.1867 0.207 -- 100.0
X Ray Diffraction 2.5376 2.6122 -- 207 3740 0.1769 0.211 -- 100.0
X Ray Diffraction 2.6122 2.6965 -- 211 3719 0.1775 0.1946 -- 100.0
X Ray Diffraction 2.6965 2.7928 -- 190 3775 0.1746 0.1853 -- 100.0
X Ray Diffraction 2.7928 2.9045 -- 181 3740 0.1874 0.2191 -- 100.0
X Ray Diffraction 2.9045 3.0366 -- 234 3729 0.1861 0.2092 -- 99.0
X Ray Diffraction 3.0366 3.1965 -- 185 3755 0.176 0.2026 -- 99.0
X Ray Diffraction 3.1965 3.3965 -- 197 3763 0.1724 0.1851 -- 100.0
X Ray Diffraction 3.3965 3.6584 -- 201 3787 0.1591 0.1776 -- 100.0
X Ray Diffraction 3.6584 4.0257 -- 177 3829 0.158 0.1646 -- 100.0
X Ray Diffraction 4.0257 4.6064 -- 214 3795 0.1411 0.1549 -- 99.0
X Ray Diffraction 4.6064 5.7965 -- 220 3848 0.158 0.1653 -- 100.0
X Ray Diffraction 5.7965 29.7527 -- 206 4019 0.2209 0.2372 -- 99.0
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.007
f_plane_restr 0.005
f_chiral_restr 0.061
f_angle_d 0.902
f_dihedral_angle_d 10.315
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5854
Nucleic Acid Atoms 0
Heterogen Atoms 30
Solvent Atoms 407

Software

Software
Software Name Purpose
PHENIX refinement version: (1.13_2998: ???)
XDS data reduction
XSCALE data scaling
PHASER phasing