X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5
Temperature 298.0
Details 1.7 M Ammonium sulphate, 5% PEG 300, 10% glycerol and 0.1 M sodium acetate, vapor diffusion, hanging drop, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 37.44 α = 90
b = 37.44 β = 90
c = 85.62 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M vertical focusing mirror (VFM) and a horizontal focusing mirror(HFM), manufactured by IRELEC. 2012-07-13
Diffraction Radiation
Monochromator Protocol
Si(111) channel-cut crystal monochromator and a pair of KB mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ALBA BEAMLINE XALOC 0.97951 ALBA XALOC

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
0.98 32.43 98.3 0.051 -- -- 4.2 -- 72675 0.0 0.0 8.337
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)
0.98 1.0 81.4 0.162 -- 3.4 1.6 --

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 0.98 18.721 -- 1.33 77128 72675 3647 94.23 -- 0.134 0.1337 0.1414 --
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 0.98 0.9929 -- 72 1611 0.1693 0.1644 -- 57.0
X Ray Diffraction 0.9929 1.0065 -- 95 1873 0.1717 0.1772 -- 66.0
X Ray Diffraction 1.0065 1.0209 -- 132 2121 0.157 0.1708 -- 77.0
X Ray Diffraction 1.0209 1.0362 -- 144 2414 0.147 0.1676 -- 86.0
X Ray Diffraction 1.0362 1.0523 -- 145 2653 0.1286 0.1441 -- 94.0
X Ray Diffraction 1.0523 1.0696 -- 159 2715 0.1162 0.1306 -- 97.0
X Ray Diffraction 1.0696 1.088 -- 113 2798 0.1078 0.1132 -- 98.0
X Ray Diffraction 1.088 1.1078 -- 138 2729 0.0987 0.1236 -- 98.0
X Ray Diffraction 1.1078 1.1291 -- 145 2794 0.0943 0.1042 -- 98.0
X Ray Diffraction 1.1291 1.1522 -- 144 2785 0.0914 0.1111 -- 99.0
X Ray Diffraction 1.1522 1.1772 -- 110 2787 0.0923 0.1002 -- 98.0
X Ray Diffraction 1.1772 1.2046 -- 145 2836 0.0972 0.1146 -- 99.0
X Ray Diffraction 1.2046 1.2347 -- 159 2692 0.0939 0.1053 -- 98.0
X Ray Diffraction 1.2347 1.2681 -- 150 2801 0.096 0.1168 -- 99.0
X Ray Diffraction 1.2681 1.3054 -- 133 2796 0.0968 0.0891 -- 99.0
X Ray Diffraction 1.3054 1.3475 -- 149 2767 0.098 0.1134 -- 98.0
X Ray Diffraction 1.3475 1.3957 -- 169 2787 0.0981 0.1108 -- 100.0
X Ray Diffraction 1.3957 1.4515 -- 164 2796 0.0938 0.1226 -- 99.0
X Ray Diffraction 1.4515 1.5176 -- 166 2745 0.0975 0.1255 -- 99.0
X Ray Diffraction 1.5176 1.5975 -- 174 2775 0.1006 0.1123 -- 99.0
X Ray Diffraction 1.5975 1.6976 -- 110 2798 0.1145 0.1071 -- 98.0
X Ray Diffraction 1.6976 1.8285 -- 160 2749 0.1272 0.1254 -- 99.0
X Ray Diffraction 1.8285 2.0124 -- 140 2812 0.1318 0.1222 -- 100.0
X Ray Diffraction 2.0124 2.3031 -- 171 2792 0.1347 0.1433 -- 99.0
X Ray Diffraction 2.3031 2.8999 -- 130 2811 0.1643 0.2123 -- 99.0
X Ray Diffraction 2.8999 18.7244 -- 130 2791 0.186 0.1844 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 14.4743
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 10.475
f_bond_d 0.009
f_chiral_restr 0.076
f_plane_restr 0.009
f_angle_d 1.49
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 588
Nucleic Acid Atoms 0
Heterogen Atoms 8
Solvent Atoms 81

Software

Software
Software Name Purpose
Aimless data scaling version: 0.1.27
PHASER phasing
PHENIX refinement version: 1.8.1_1168
PDB_EXTRACT data extraction version: 3.11
ADSC data collection version: Quantum
XDS data reduction