X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.8
Temperature 298.0
Details 1.6 M NaCitrate, 50 mM Tris

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 42.08 α = 90
b = 41.14 β = 104.27
c = 71.76 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 6M -- 2016-05-16
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON CHESS BEAMLINE F1 0.977 CHESS F1

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
1.69 31.91 97.9 0.061 -- -- 3.4 -- 26067 -- -- 16.62
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)
1.69 1.73 96.4 0.53 -- -- 3.4 --

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 1.695 31.912 -- 1.34 -- 26055 1264 97.54 -- 0.1529 0.1516 0.177 --
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 1.6946 1.7625 -- 139 2701 0.1964 0.2516 0.0 96.0
X Ray Diffraction 1.7625 1.8427 -- 136 2725 0.1791 0.2201 0.0 97.0
X Ray Diffraction 1.8427 1.9398 -- 121 2713 0.1655 0.2024 0.0 97.0
X Ray Diffraction 1.9398 2.0613 -- 153 2713 0.1531 0.1878 0.0 98.0
X Ray Diffraction 2.0613 2.2204 -- 133 2745 0.1422 0.1794 0.0 97.0
X Ray Diffraction 2.2204 2.4438 -- 155 2742 0.1453 0.2083 0.0 98.0
X Ray Diffraction 2.4438 2.7973 -- 139 2790 0.1531 0.2094 0.0 98.0
X Ray Diffraction 2.7973 3.5235 -- 135 2797 0.1456 0.1555 0.0 98.0
X Ray Diffraction 3.5235 31.9178 -- 153 2865 0.1457 0.1406 0.0 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 23.2248
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.007
f_chiral_restr 0.06
f_dihedral_angle_d 13.343
f_bond_d 0.01
f_angle_d 1.091
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2049
Nucleic Acid Atoms 0
Heterogen Atoms 28
Solvent Atoms 138

Software

Software
Software Name Purpose
PHENIX refinement version: 1.11.1_2575
Aimless data scaling version: 0.5.32
PDB_EXTRACT data extraction version: 3.24
XDS data reduction
PHENIX phasing