X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 292.0
Details 16-21% PEG1000 100mM Sodium/potassium phosphate, pH 6.0

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 114.01 α = 90
b = 114.01 β = 90
c = 65.74 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 -- 2016-03-19
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 0.9801 SOLEIL PROXIMA 1

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
2.35 39.48 99.8 0.093 -- -- 5.133 -- 20756 -- -3.0 40.77
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)
2.35 2.41 98.6 0.973 -- 1.72 4.446 --

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 2.35 39.476 -- 1.38 -- 20751 2002 99.77 -- 0.2019 0.1978 0.2408 --
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 2.3501 2.4089 -- 135 1267 0.3199 0.3623 0.0 98.0
X Ray Diffraction 2.4089 2.474 -- 140 1350 0.2828 0.3411 0.0 100.0
X Ray Diffraction 2.474 2.5468 -- 141 1320 0.2663 0.3161 0.0 100.0
X Ray Diffraction 2.5468 2.629 -- 141 1328 0.2482 0.3246 0.0 100.0
X Ray Diffraction 2.629 2.7229 -- 144 1328 0.238 0.2632 0.0 100.0
X Ray Diffraction 2.7229 2.8319 -- 141 1321 0.234 0.2831 0.0 100.0
X Ray Diffraction 2.8319 2.9607 -- 146 1331 0.2318 0.272 0.0 100.0
X Ray Diffraction 2.9607 3.1168 -- 138 1345 0.2295 0.2772 0.0 100.0
X Ray Diffraction 3.1168 3.3119 -- 145 1333 0.2143 0.3063 0.0 100.0
X Ray Diffraction 3.3119 3.5675 -- 144 1348 0.1942 0.2468 0.0 100.0
X Ray Diffraction 3.5675 3.9262 -- 148 1347 0.1654 0.2195 0.0 100.0
X Ray Diffraction 3.9262 4.4937 -- 144 1340 0.1595 0.1888 0.0 99.0
X Ray Diffraction 4.4937 5.6589 -- 142 1364 0.1632 0.2145 0.0 100.0
X Ray Diffraction 5.6589 39.4817 -- 153 1427 0.1742 0.1802 0.0 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 52.0095
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 0.89
f_dihedral_angle_d 20.629
f_bond_d 0.009
f_chiral_restr 0.052
f_plane_restr 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2269
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 151

Software

Software
Software Name Purpose
PHENIX refinement
XSCALE data scaling
PDB_EXTRACT data extraction version: 3.22
XDS data reduction
PHASER phasing