X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 277.0
Details 16% PEG MME 2000 and 0.1 M sodium acetate pH 5.0

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 101.52 α = 90
b = 101.52 β = 90
c = 45.78 γ = 90
Symmetry
Space Group P 43

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS3 2M -- 2016-09-23
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-2 0.9763 ESRF ID23-2

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
3.03 30 99.8 -- -- -- 4.9 -- 9289 -- -- 97.46
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)
3.03 3.04 98.8 -- -- 1.76 5.1 85

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 3.03 28.25 -- 0.0 -- 9289 432 99.9 -- 0.232 0.231 0.27 RANDOM
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 3.03 3.39 -- 133 2470 0.311 0.384 0.0 99.92
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 73.21
Anisotropic B[1][1] 2.8749
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.8749
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -5.7497
RMS Deviations
Key Refinement Restraint Deviation
t_omega_torsion 2.2
t_bond_d 0.008
t_angle_deg 0.97
t_other_torsion 23.79
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.48
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1940
Nucleic Acid Atoms 656
Heterogen Atoms 4
Solvent Atoms 4

Software

Software
Software Name Purpose
BUSTER refinement version: 2.10.2
XDS data reduction
XSCALE data scaling
PHASER phasing