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 5, 24-27% (v/v) polyethylene glycol (PEG) 400, 30-80 mM MgCl 2 , 5% (v/v) Jeffamine M-600 pH 7 (Hampton)

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 47.78 α = 90
b = 78.23 β = 101.2
c = 86.48 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS EIGER X 16M -- 2017-02-18
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-B 1.033 APS 23-ID-B

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
2.9 44.88 91.9 0.218 -- -- 3.3 -- 13000 -- -- --
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)
2.9 3.0 74.5 0.71 -- 1.3 2.3 --

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 2.9 29.487 -- 1.35 -- 12850 660 91.84 -- 0.2544 0.2525 0.2877 --
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 2.9002 3.1239 -- 95 2073 0.3358 0.3387 -- 78.0
X Ray Diffraction 3.1239 3.4378 -- 135 2454 0.3025 0.376 -- 93.0
X Ray Diffraction 3.4378 3.9343 -- 130 2557 0.267 0.2983 -- 97.0
X Ray Diffraction 3.9343 4.953 -- 151 2510 0.2547 0.298 -- 96.0
X Ray Diffraction 4.953 29.4885 -- 149 2596 0.2275 0.26 -- 96.0
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 0.483
f_dihedral_angle_d 14.369
f_chiral_restr 0.037
f_plane_restr 0.003
f_bond_d 0.003
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3405
Nucleic Acid Atoms 0
Heterogen Atoms 66
Solvent Atoms 2

Software

Software
Software Name Purpose
PHENIX refinement version: (dev_2614: ???)
DENZO data reduction
SCALEPACK data scaling
PHASER phasing