X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.5
Temperature 293.0
Details 0.1 M Tris, pH 7.5, 25% PEG 3350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 96.5 α = 90
b = 96.5 β = 90
c = 154.23 γ = 120
Symmetry
Space Group P 61

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD Bruker Platinum 135 -- 2014-05-24
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE BRUKER AXS MICROSTAR 1.54 -- --

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
1.9 22.92 99.9 0.087 -- -- 7.53 -- 64207 -- -- 17.18
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)
1.9 1.93 98.9 0.451 -- -- 3.05 --

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 1.9 22.92 -- 1.34 -- 64037 3155 99.79 -- 0.1901 0.1886 0.2204 --
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 1.8966 1.9249 -- 113 2637 0.2637 0.2793 -- 99.0
X Ray Diffraction 1.9249 1.9549 -- 128 2609 0.2506 0.2526 -- 100.0
X Ray Diffraction 1.9549 1.987 -- 125 2661 0.2301 0.2533 -- 100.0
X Ray Diffraction 1.987 2.0212 -- 147 2645 0.2237 0.2192 -- 100.0
X Ray Diffraction 2.0212 2.0579 -- 169 2652 0.2109 0.2684 -- 100.0
X Ray Diffraction 2.0579 2.0975 -- 141 2614 0.1963 0.1992 -- 100.0
X Ray Diffraction 2.0975 2.1403 -- 146 2658 0.2008 0.2544 -- 100.0
X Ray Diffraction 2.1403 2.1868 -- 131 2639 0.2055 0.2453 -- 100.0
X Ray Diffraction 2.1868 2.2376 -- 134 2636 0.2038 0.2446 -- 100.0
X Ray Diffraction 2.2376 2.2935 -- 142 2636 0.1913 0.2493 -- 100.0
X Ray Diffraction 2.2935 2.3555 -- 172 2613 0.1875 0.2081 -- 100.0
X Ray Diffraction 2.3555 2.4247 -- 128 2666 0.199 0.2715 -- 100.0
X Ray Diffraction 2.4247 2.5029 -- 153 2619 0.1942 0.2393 -- 100.0
X Ray Diffraction 2.5029 2.5922 -- 140 2629 0.1934 0.2525 -- 100.0
X Ray Diffraction 2.5922 2.6959 -- 131 2667 0.1813 0.2475 -- 100.0
X Ray Diffraction 2.6959 2.8183 -- 118 2652 0.1959 0.2478 -- 100.0
X Ray Diffraction 2.8183 2.9666 -- 126 2663 0.1891 0.218 -- 100.0
X Ray Diffraction 2.9666 3.1521 -- 164 2632 0.1882 0.2151 -- 100.0
X Ray Diffraction 3.1521 3.3947 -- 132 2665 0.1846 0.1929 -- 100.0
X Ray Diffraction 3.3947 3.735 -- 132 2652 0.1873 0.1769 -- 100.0
X Ray Diffraction 3.735 4.2725 -- 124 2662 0.1657 0.2061 -- 100.0
X Ray Diffraction 4.2725 5.3714 -- 138 2676 0.1521 0.1953 -- 100.0
X Ray Diffraction 5.3714 22.924 -- 121 2699 0.1679 0.1868 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 21.6651
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 0.794
f_bond_d 0.007
f_chiral_restr 0.054
f_dihedral_angle_d 14.706
f_plane_restr 0.004
Coordinate Error
Parameter Value
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3840
Nucleic Acid Atoms 0
Heterogen Atoms 20
Solvent Atoms 413

Software

Software
Software Name Purpose
XPREP data scaling version: 2008/2
PHENIX refinement
PDB_EXTRACT data extraction version: 3.20
PHASER phasing