X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.6
Temperature 293.0
Details 0.095 M Sodium sodium citrate tribasic dihydrate, pH 5.6, 19 % v/v 2-Propanol, 19 % w/v PEG 4K, 5 % v/v glycerol

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 38.99 α = 90
b = 111.23 β = 93.87
c = 77.4 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS3 S 6M -- 2016-12-06
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-D 1.03324 APS 23-ID-D

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
1.55 50 99.9 -- 0.063 -- 6.3 -- 95052 -- -- --
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)
1.55 1.58 97.8 -- 0.6 2.4 2.4 4622

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 1.55 35.724 -- 1.34 -- 95009 4620 99.71 -- 0.1744 0.1731 0.1992 --
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 1.5493 1.5669 -- 142 2813 0.2632 0.2525 -- 93.0
X Ray Diffraction 1.5669 1.5853 -- 131 2950 0.2458 0.2583 -- 99.0
X Ray Diffraction 1.5853 1.6047 -- 133 3033 0.2371 0.2841 -- 100.0
X Ray Diffraction 1.6047 1.625 -- 149 3066 0.2265 0.2701 -- 100.0
X Ray Diffraction 1.625 1.6464 -- 148 2987 0.222 0.2235 -- 100.0
X Ray Diffraction 1.6464 1.6689 -- 183 2944 0.2153 0.2588 -- 100.0
X Ray Diffraction 1.6689 1.6928 -- 160 3087 0.2166 0.2538 -- 100.0
X Ray Diffraction 1.6928 1.718 -- 143 3010 0.2164 0.2569 -- 100.0
X Ray Diffraction 1.718 1.7449 -- 133 3004 0.2124 0.2145 -- 100.0
X Ray Diffraction 1.7449 1.7735 -- 149 3054 0.2128 0.2488 -- 100.0
X Ray Diffraction 1.7735 1.8041 -- 153 2998 0.2025 0.2308 -- 100.0
X Ray Diffraction 1.8041 1.8369 -- 169 3009 0.1948 0.1951 -- 100.0
X Ray Diffraction 1.8369 1.8722 -- 177 2991 0.2015 0.2105 -- 100.0
X Ray Diffraction 1.8722 1.9104 -- 159 2971 0.1978 0.249 -- 100.0
X Ray Diffraction 1.9104 1.952 -- 166 3053 0.2007 0.216 -- 100.0
X Ray Diffraction 1.952 1.9974 -- 127 3033 0.1914 0.2305 -- 100.0
X Ray Diffraction 1.9974 2.0473 -- 127 3071 0.1931 0.2137 -- 100.0
X Ray Diffraction 2.0473 2.1026 -- 147 2989 0.1924 0.2355 -- 100.0
X Ray Diffraction 2.1026 2.1645 -- 163 3042 0.1856 0.1971 -- 100.0
X Ray Diffraction 2.1645 2.2344 -- 152 2983 0.1869 0.212 -- 100.0
X Ray Diffraction 2.2344 2.3142 -- 155 3032 0.1855 0.2409 -- 100.0
X Ray Diffraction 2.3142 2.4069 -- 172 3032 0.1771 0.1793 -- 100.0
X Ray Diffraction 2.4069 2.5164 -- 162 2977 0.1809 0.1905 -- 100.0
X Ray Diffraction 2.5164 2.649 -- 156 3040 0.1878 0.2334 -- 100.0
X Ray Diffraction 2.649 2.8149 -- 160 3006 0.1796 0.2217 -- 100.0
X Ray Diffraction 2.8149 3.0321 -- 174 3030 0.1748 0.2101 -- 100.0
X Ray Diffraction 3.0321 3.3371 -- 166 2998 0.1662 0.1823 -- 100.0
X Ray Diffraction 3.3371 3.8195 -- 148 3054 0.1439 0.1851 -- 100.0
X Ray Diffraction 3.8195 4.8103 -- 136 3080 0.1289 0.1577 -- 100.0
X Ray Diffraction 4.8103 35.7339 -- 180 3052 0.1567 0.161 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.005
f_bond_d 0.006
f_chiral_restr 0.052
f_dihedral_angle_d 16.873
f_angle_d 0.845
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3983
Nucleic Acid Atoms 0
Heterogen Atoms 110
Solvent Atoms 601

Software

Software
Software Name Purpose
PHENIX refinement version: (1.10.1_2155: ???)
HKL-2000 data reduction
HKL-2000 data scaling
Auto-Rickshaw phasing