X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Evaporation
pH 7
Temperature 293.0
Details 0.1M Tris-HCl pH7.0, 0.3M Ammonium sulfate, 36% MPD

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 279.82 α = 90
b = 279.82 β = 90
c = 279.82 γ = 90
Symmetry
Space Group I 21 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2015-12-19
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 1.0 Photon Factory BL-5A

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
3.1 48 99.9 0.13 -- -- 7.6 -- 65670 -- -- --
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)
-- -- -- -- -- -- -- --

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 3.101 47.989 -- 1.35 -- 65625 3328 99.85 -- 0.186 0.1847 0.2092 --
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 3.1011 3.1454 -- 148 2548 0.2852 0.3195 -- 99.0
X Ray Diffraction 3.1454 3.1923 -- 142 2599 0.2673 0.2904 -- 100.0
X Ray Diffraction 3.1923 3.2422 -- 122 2559 0.2756 0.2763 -- 100.0
X Ray Diffraction 3.2422 3.2953 -- 131 2593 0.2645 0.2877 -- 100.0
X Ray Diffraction 3.2953 3.3522 -- 134 2554 0.2592 0.3059 -- 100.0
X Ray Diffraction 3.3522 3.4131 -- 150 2639 0.2467 0.2884 -- 100.0
X Ray Diffraction 3.4131 3.4787 -- 134 2526 0.2254 0.269 -- 100.0
X Ray Diffraction 3.4787 3.5497 -- 141 2571 0.2232 0.2846 -- 100.0
X Ray Diffraction 3.5497 3.6269 -- 142 2622 0.2122 0.274 -- 100.0
X Ray Diffraction 3.6269 3.7112 -- 142 2557 0.1962 0.2092 -- 100.0
X Ray Diffraction 3.7112 3.804 -- 143 2600 0.184 0.2359 -- 100.0
X Ray Diffraction 3.804 3.9068 -- 144 2563 0.1826 0.1837 -- 100.0
X Ray Diffraction 3.9068 4.0217 -- 130 2603 0.1633 0.2014 -- 100.0
X Ray Diffraction 4.0217 4.1514 -- 139 2589 0.1582 0.1831 -- 100.0
X Ray Diffraction 4.1514 4.2997 -- 141 2587 0.144 0.1741 -- 100.0
X Ray Diffraction 4.2997 4.4717 -- 141 2593 0.1479 0.1647 -- 100.0
X Ray Diffraction 4.4717 4.6751 -- 132 2598 0.1361 0.1629 -- 100.0
X Ray Diffraction 4.6751 4.9213 -- 149 2610 0.1417 0.1674 -- 100.0
X Ray Diffraction 4.9213 5.2293 -- 134 2597 0.1617 0.1892 -- 100.0
X Ray Diffraction 5.2293 5.6325 -- 131 2625 0.1727 0.1906 -- 100.0
X Ray Diffraction 5.6325 6.1983 -- 141 2612 0.1938 0.2163 -- 100.0
X Ray Diffraction 6.1983 7.0927 -- 135 2625 0.2074 0.2449 -- 100.0
X Ray Diffraction 7.0927 8.9267 -- 124 2673 0.1564 0.1561 -- 100.0
X Ray Diffraction 8.9267 47.9946 -- 158 2654 0.1801 0.1837 -- 98.0
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.063
f_dihedral_angle_d 16.26
f_plane_restr 0.006
f_angle_d 1.346
f_bond_d 0.014
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 9182
Nucleic Acid Atoms 0
Heterogen Atoms 72
Solvent Atoms 109

Software

Software
Software Name Purpose
PHENIX refinement version: 1.9_1692
XDS data reduction
XDS data scaling
PHENIX phasing