X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Lipidic Cubic Phase
pH 5
Temperature 293.0
Details PEG 400, magnesium acetate, sodium acetate.

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 109.24 α = 90
b = 109.24 β = 90
c = 452.64 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 273
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL CS-PAD CXI-1 -- 2014-11-06
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
FREE ELECTRON LASER SLAC LCLS BEAMLINE CXI 1.33 SLAC LCLS CXI

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 30 72.4 -- -- -- 287.0 -- 76360 -- -- --
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 -- -- -- -- -- --

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 3.013 30.03 -- 1.33 -- 76360 3761 70.7 -- 0.2369 0.2343 0.2722 --
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 3.0256 3.0777 -- 9 213 0.3534 0.2968 -- 4.0
X Ray Diffraction 3.0777 3.1336 -- 21 459 0.3376 0.3521 -- 9.0
X Ray Diffraction 3.1336 3.1938 -- 29 715 0.3492 0.2956 -- 14.0
X Ray Diffraction 3.1938 3.2589 -- 65 992 0.354 0.4258 -- 19.0
X Ray Diffraction 3.2589 3.3297 -- 66 1369 0.3786 0.4023 -- 26.0
X Ray Diffraction 3.3297 3.407 -- 95 1828 0.3674 0.3888 -- 35.0
X Ray Diffraction 3.407 3.4921 -- 129 2435 0.3794 0.3633 -- 46.0
X Ray Diffraction 3.4921 3.5864 -- 172 3368 0.3679 0.3928 -- 64.0
X Ray Diffraction 3.5864 3.6917 -- 254 4917 0.3704 0.418 -- 93.0
X Ray Diffraction 3.6917 3.8107 -- 233 5041 0.3342 0.371 -- 95.0
X Ray Diffraction 3.8107 3.9466 -- 274 5054 0.3094 0.3286 -- 95.0
X Ray Diffraction 3.9466 4.1042 -- 248 5029 0.2934 0.3297 -- 95.0
X Ray Diffraction 4.1042 4.2905 -- 271 5079 0.2634 0.278 -- 95.0
X Ray Diffraction 4.2905 4.516 -- 286 5046 0.2541 0.2766 -- 95.0
X Ray Diffraction 4.516 4.7979 -- 284 5069 0.2242 0.2609 -- 95.0
X Ray Diffraction 4.7979 5.1666 -- 255 5087 0.2153 0.2407 -- 95.0
X Ray Diffraction 5.1666 5.6834 -- 256 5129 0.2372 0.3089 -- 95.0
X Ray Diffraction 5.6834 6.4985 -- 253 5156 0.2398 0.2924 -- 95.0
X Ray Diffraction 6.4985 8.1602 -- 302 5169 0.1988 0.2214 -- 94.0
X Ray Diffraction 8.1602 30.0313 -- 259 5431 0.1766 0.2274 -- 95.0
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.007
f_dihedral_angle_d 10.826
f_angle_d 0.845
f_chiral_restr 0.039
f_bond_d 0.005
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 25864
Nucleic Acid Atoms 0
Heterogen Atoms 112
Solvent Atoms 0

Software

Software
Software Name Purpose
PHENIX refinement version: 1.9_1692
CrystFEL data reduction
CrystFEL data scaling
PHASER phasing