X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 298.0
Details 0.1M sodium citrate pH 4.8, 28% Jeffamine ED-2001 pH 7.0

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 60.54 α = 90
b = 91.6 β = 90
c = 187.14 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS3 6M -- 2017-07-20
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL12-2 1.0 SSRL BL12-2

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
2.07 93.57 99.7 0.046 -- -- 5.8 -- 31907 -- -- 50.34
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)
2.07 2.13 99.9 0.702 -- 2.3 5.9 --

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
-- 2.07 50.51 -- 1.34 -- 31846 1566 99.52 -- 0.1862 0.1838 0.2315 --
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 2.07 2.14 -- 137 2708 0.2733 0.3334 -- 99.61
X Ray Diffraction 2.14 2.22 -- 119 2744 0.252 0.2746 -- 99.44
X Ray Diffraction 2.22 2.31 -- 145 2712 0.2399 0.3102 -- 99.27
X Ray Diffraction 2.31 2.41 -- 147 2718 0.2266 0.2924 -- 99.76
X Ray Diffraction 2.41 2.54 -- 140 2743 0.2314 0.2653 -- 99.86
X Ray Diffraction 2.54 2.7 -- 127 2730 0.2254 0.2886 -- 99.86
X Ray Diffraction 2.7 2.91 -- 151 2739 0.2321 0.2883 -- 99.24
X Ray Diffraction 2.91 3.2 -- 135 2758 0.2309 0.2862 -- 99.66
X Ray Diffraction 3.2 3.66 -- 141 2776 0.1935 0.2682 -- 99.29
X Ray Diffraction 3.66 4.61 -- 157 2787 0.151 0.1966 -- 99.8
X Ray Diffraction 4.61 50.52 -- 167 2865 0.1448 0.1817 -- 98.99
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 67.96
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 11.5051
f_angle_d 0.7518
f_plane_restr 0.0042
f_bond_d 0.0047
f_chiral_restr 0.0505
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4065
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 126

Software

Software
Software Name Purpose
PHENIX refinement version: 1.13_2998
PHENIX refinement version: 1.13_2998
MOSFLM data reduction
Aimless data scaling
PHASER phasing