X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 293.0
Details 1.2M Ammonium Sulfate, 0.1M Na Cacodylate pH 6.2, 25 % Glycerol
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 293.0
Details 1.2M Ammonium Sulfate, 0.1M Na Cacodylate pH 6.2, 25 % Glycerol
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 293.0
Details 1.2M Ammonium Sulfate, 0.1M Na Cacodylate pH 6.2, 25 % Glycerol
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 293.0
Details 1.2M Ammonium Sulfate, 0.1M Na Cacodylate pH 6.2, 25 % Glycerol

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 68.37 α = 90
b = 68.37 β = 90
c = 103.98 γ = 90
Symmetry
Space Group P 43 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 293
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS EIGER2 X 4M multilayer monochromator 2019-02-01
Diffraction Radiation
Monochromator Protocol
multilayer monochromator SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE VMXi 0.979 Diamond VMXi

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
2.2 57.13 100.0 0.064 -- -- 14.7 -- 13162 -- -- 9.989
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)
2.2 2.24 100.0 0.132 -- 12.2 7.1 --

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 2.2 57.126 -- 1.36 -- 13109 1312 99.98 -- 0.111 0.1055 0.1611 --
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 2.1996 2.2877 -- 143 1287 0.0897 0.1558 -- 100.0
X Ray Diffraction 2.2877 2.3918 -- 140 1262 0.0946 0.1704 -- 100.0
X Ray Diffraction 2.3918 2.5179 -- 143 1283 0.1007 0.1693 -- 100.0
X Ray Diffraction 2.5179 2.6756 -- 144 1296 0.1045 0.1804 -- 100.0
X Ray Diffraction 2.6756 2.8822 -- 144 1289 0.1019 0.1748 -- 100.0
X Ray Diffraction 2.8822 3.1722 -- 143 1294 0.1076 0.1736 -- 100.0
X Ray Diffraction 3.1722 3.6312 -- 147 1319 0.1018 0.1481 -- 100.0
X Ray Diffraction 3.6312 4.5746 -- 148 1338 0.0944 0.1326 -- 100.0
X Ray Diffraction 4.5746 57.1448 -- 160 1429 0.1365 0.1726 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 2.821
f_bond_d 0.009
f_angle_d 0.895
f_chiral_restr 0.052
f_plane_restr 0.006
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2022
Nucleic Acid Atoms 0
Heterogen Atoms 19
Solvent Atoms 171

Software

Software
Software Name Purpose
PHENIX refinement version: (1.14_3260: ???)
DIALS data reduction
DIALS data scaling
PHASER phasing