X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.2
Temperature 293.0
Details 9% (W/V) PEG 6000 AND 0.1 M SODIUM CITRATE TRIBASIC DIHYDRATE

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 113.68 α = 90
b = 113.68 β = 90
c = 306.26 γ = 120
Symmetry
Space Group H 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS3 S 6M -- 2016-12-19
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I24 0.9686 Diamond I24

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
2.4 60.44 99.8 0.094 -- -- 37.2 -- 30184 -- -- 62.0
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)
2.4 2.44 96.9 -- -- 1.6 13.6 --

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 2.4 52.008 -- 1.36 -- 30173 1520 99.73 -- 0.1931 0.1921 0.2118 --
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 2.4 2.4775 -- 142 2546 0.3276 0.3811 -- 98.0
X Ray Diffraction 2.4775 2.566 -- 131 2546 0.265 0.2974 -- 100.0
X Ray Diffraction 2.566 2.6688 -- 139 2558 0.2333 0.261 -- 100.0
X Ray Diffraction 2.6688 2.7902 -- 138 2600 0.2231 0.2623 -- 100.0
X Ray Diffraction 2.7902 2.9373 -- 148 2565 0.1982 0.2537 -- 100.0
X Ray Diffraction 2.9373 3.1213 -- 144 2582 0.2098 0.2461 -- 100.0
X Ray Diffraction 3.1213 3.3623 -- 158 2580 0.2005 0.2314 -- 100.0
X Ray Diffraction 3.3623 3.7006 -- 125 2627 0.179 0.2294 -- 100.0
X Ray Diffraction 3.7006 4.2358 -- 140 2609 0.168 0.19 -- 100.0
X Ray Diffraction 4.2358 5.3358 -- 126 2661 0.1599 0.1507 -- 100.0
X Ray Diffraction 5.3358 52.0199 -- 129 2779 0.2061 0.2094 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 0.649
f_plane_restr 0.004
f_bond_d 0.003
f_chiral_restr 0.045
f_dihedral_angle_d 19.548
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2987
Nucleic Acid Atoms 0
Heterogen Atoms 164
Solvent Atoms 103

Software

Software
Software Name Purpose
PHENIX refinement version: (dev_2940: ???)
xia2 data reduction
xia2 data scaling
REFMAC phasing