X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 295.0
Details 0.06 M (magnesium chloride; calcium chloride), 0.1 M (Tris; bicine) pH 8.5, 37.5% (MPD; PEG 1000; PEG 3350)

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 69.67 α = 90
b = 139.42 β = 90
c = 49.56 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL PSI PILATUS 6M -- 2014-02-05
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 24-ID-C 0.9795 APS 24-ID-C

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
1.66 139.42 99.8 -- 0.056 -- 7.2 -- 57835 -- -- 26.5
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)
1.66 1.75 99.9 -- -- 2.1 7.4 --

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 1.66 69.708 -- 1.37 -- 57773 2000 99.76 -- 0.1757 0.1747 0.2029 --
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 1.66 1.7015 -- 140 3902 0.3152 0.3316 -- 100.0
X Ray Diffraction 1.7015 1.7475 -- 141 3917 0.2891 0.3194 -- 100.0
X Ray Diffraction 1.7475 1.799 -- 140 3922 0.2511 0.3038 -- 100.0
X Ray Diffraction 1.799 1.857 -- 143 3959 0.2187 0.2636 -- 100.0
X Ray Diffraction 1.857 1.9234 -- 141 3948 0.1899 0.2149 -- 100.0
X Ray Diffraction 1.9234 2.0004 -- 141 3946 0.1791 0.2108 -- 100.0
X Ray Diffraction 2.0004 2.0915 -- 141 3947 0.1807 0.24 -- 100.0
X Ray Diffraction 2.0915 2.2017 -- 143 3956 0.1766 0.2169 -- 100.0
X Ray Diffraction 2.2017 2.3397 -- 142 3974 0.1748 0.2096 -- 100.0
X Ray Diffraction 2.3397 2.5204 -- 143 3985 0.1705 0.1955 -- 100.0
X Ray Diffraction 2.5204 2.774 -- 143 4005 0.1727 0.2133 -- 100.0
X Ray Diffraction 2.774 3.1754 -- 145 4023 0.1707 0.2128 -- 100.0
X Ray Diffraction 3.1754 4.0006 -- 145 4051 0.1533 0.1591 -- 99.0
X Ray Diffraction 4.0006 69.7695 -- 152 4238 0.1637 0.1856 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 30.4
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.193
f_chiral_restr 0.068
f_bond_d 0.013
f_dihedral_angle_d 14.024
f_plane_restr 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4022
Nucleic Acid Atoms 0
Heterogen Atoms 120
Solvent Atoms 290

Software

Software
Software Name Purpose
PHENIX refinement version: (1.10_2155: ???)
XDS data reduction
XDS data scaling
PHASER phasing