X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 293.0
Details 0.2 M Na2SO4 pH 6.7 20% PEG3350 Protein sample buffer: 20 mM HEPES pH 7.4 150 mM NaCl supplemented with 50 mM Citrate pH 7.4

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 67.34 α = 90
b = 123.89 β = 90
c = 139.8 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 EIGER X 16M -- 2018-05-05
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P14 (MX2) 0.9762 PETRA III, EMBL c/o DESY P14 (MX2)

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
1.85 67.34 99.8 -- -- -- 9.2 -- 100132 -- -- 25.12
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)
1.85 1.96 99.5 -- -- 8.7 9.2 --

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 1.85 61.94 -- 0.0 -- 100130 4982 99.7 -- 0.166 0.165 0.193 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 1.85 1.9 -- 332 6859 0.213 0.261 0.0 98.39
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 29.67
Anisotropic B[1][1] 2.9164
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.1965
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -2.72
RMS Deviations
Key Refinement Restraint Deviation
t_omega_torsion 3.5
t_bond_d 0.01
t_angle_deg 1.01
t_other_torsion 14.73
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.2
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8104
Nucleic Acid Atoms 0
Heterogen Atoms 107
Solvent Atoms 593

Software

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