X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 277.0
Details PEG3350, HEPES, sodium chloride

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 65.75 α = 90
b = 78.28 β = 90
c = 59.16 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 -- 2015-11-09
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL19U1 0.978 SSRF BL19U1

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
1.41 20 99.2 0.042 -- -- 12.8 -- 59128 -- -- --
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)
1.41 1.49 95.2 0.737 -- 3.4 11.8 --

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
-- 1.41 19.879 -- 1.34 -- 59070 2945 99.25 -- 0.184 0.1827 0.21 Random selection
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 1.4101 1.4332 -- 95 2268 0.2713 0.2757 -- 85.0
X Ray Diffraction 1.4332 1.4579 -- 148 2661 0.238 0.2914 -- 100.0
X Ray Diffraction 1.4579 1.4844 -- 145 2630 0.2307 0.2405 -- 100.0
X Ray Diffraction 1.4844 1.513 -- 138 2670 0.2222 0.2611 -- 100.0
X Ray Diffraction 1.513 1.5438 -- 121 2660 0.2189 0.2371 -- 100.0
X Ray Diffraction 1.5438 1.5774 -- 146 2676 0.2184 0.2772 -- 100.0
X Ray Diffraction 1.5774 1.6141 -- 160 2626 0.1965 0.2086 -- 100.0
X Ray Diffraction 1.6141 1.6544 -- 135 2656 0.1943 0.244 -- 100.0
X Ray Diffraction 1.6544 1.6991 -- 119 2716 0.19 0.2115 -- 100.0
X Ray Diffraction 1.6991 1.7491 -- 149 2647 0.196 0.2025 -- 100.0
X Ray Diffraction 1.7491 1.8055 -- 153 2667 0.1901 0.2039 -- 100.0
X Ray Diffraction 1.8055 1.87 -- 142 2668 0.1937 0.2468 -- 100.0
X Ray Diffraction 1.87 1.9448 -- 137 2672 0.1893 0.2209 -- 100.0
X Ray Diffraction 1.9448 2.0332 -- 146 2694 0.1836 0.2292 -- 100.0
X Ray Diffraction 2.0332 2.1403 -- 150 2685 0.1891 0.2011 -- 100.0
X Ray Diffraction 2.1403 2.2742 -- 141 2717 0.1805 0.2115 -- 100.0
X Ray Diffraction 2.2742 2.4495 -- 134 2708 0.1882 0.2163 -- 100.0
X Ray Diffraction 2.4495 2.6955 -- 124 2744 0.1853 0.2016 -- 100.0
X Ray Diffraction 2.6955 3.0843 -- 146 2717 0.1885 0.2011 -- 100.0
X Ray Diffraction 3.0843 3.8812 -- 156 2756 0.1645 0.2051 -- 100.0
X Ray Diffraction 3.8812 10.0 -- 160 2887 0.1621 0.1878 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.006
f_plane_restr 0.006
f_chiral_restr 0.084
f_angle_d 0.96
f_dihedral_angle_d 23.67
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2260
Nucleic Acid Atoms 0
Heterogen Atoms 38
Solvent Atoms 267

Software

Software
Software Name Purpose
PHENIX refinement version: (1.10.1_2155: ???)
XDS data reduction
SCALA data scaling
PHASER phasing