X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.2
Temperature 293.0
Details 10% (wt/vol) PEG400 10% isopropanol 2% (wt/vol) benzamidine 0.1M Tris pH 8.2

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 124.16 α = 90
b = 145.42 β = 90
c = 173.66 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS3 2M -- 2015-11-26
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE MASSIF-1 0.966 ESRF MASSIF-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
3 49.4 100.0 -- 0.277 -- 12.8 -- 62201 -- -- 103.93
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)
3.0 3.1 100.0 -- 3.28 1.07 11.8 --

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 3.02 49.35 -- 0.0 -- 62185 3166 99.7 -- 0.192 0.19 0.237 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 3.02 3.1 -- 193 4232 0.254 0.303 0.0 96.43
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 94.01
Anisotropic B[1][1] 7.6458
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -20.4127
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 12.7669
RMS Deviations
Key Refinement Restraint Deviation
t_other_torsion 3.7
t_omega_torsion 3.01
t_bond_d 0.01
t_angle_deg 1.18
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.4
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 13920
Nucleic Acid Atoms 0
Heterogen Atoms 179
Solvent Atoms 0

Software

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