X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Lipidic Cubic Phase
Temperature 293.0
Details 100 mM sodium citrate, pH 3.8-4.2, 10-35 mM magnesium sulfate, 20-23% v/v PEG400, 2.5% Jeffamine M-600

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 120.8 α = 90
b = 54.85 β = 95.83
c = 96.8 γ = 90
Symmetry
Space Group C 1 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 293
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL CS-PAD CXI-1 -- 2017-08-19
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
FREE ELECTRON LASER SLAC LCLS BEAMLINE CXI 1.302 -- --

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
2.5 30.03 100.0 -- -- -- 223.9 -- 22151 -- -- 74.95
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)
2.5 2.62 100.0 -- -- 0.25 90.5 --

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 2.5 27.27 -- 0.0 -- 22101 1050 100.0 -- 0.202 0.2 0.242 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 2.5 2.62 -- 127 2798 0.279 0.341 0.0 99.97
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 128.85
Anisotropic B[1][1] -5.0572
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 20.0275
Anisotropic B[2][2] -3.0975
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 8.1547
RMS Deviations
Key Refinement Restraint Deviation
t_omega_torsion 1.88
t_angle_deg 0.95
t_bond_d 0.009
t_other_torsion 18.66
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.56
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3416
Nucleic Acid Atoms 0
Heterogen Atoms 127
Solvent Atoms 5

Software

Software
Software Name Purpose
BUSTER refinement version: 2.10.2
CrystFEL data reduction version: 0.6.2
CrystFEL data scaling version: 0.6.2
PHASER phasing