X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 298.0
Details 0.1 M Tris, pH 8.5: 0.5 M NaCl: 0.2 M MgCl2: 32.5 % v/v PEG 3350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 82.27 α = 90
b = 82.27 β = 90
c = 174.04 γ = 120
Symmetry
Space Group P 61 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M-F -- 2017-02-06
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I04-1 0.9282 Diamond I04-1

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
2.21 29.01 99.9 0.075 -- -- 18.9 -- 18264 -- -- --
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)
2.21 2.27 99.0 0.89 -- -- 18.9 --

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
MOLECULAR REPLACEMENT 2.209 29.007 -- 1.36 -- 18201 946 99.95 -- 0.1944 0.1919 0.24 --
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 2.2093 2.3258 -- 114 2401 0.2119 0.251 -- 100.0
X Ray Diffraction 2.3258 2.4714 -- 136 2412 0.2089 0.2802 -- 100.0
X Ray Diffraction 2.4714 2.6621 -- 136 2411 0.2249 0.2744 -- 100.0
X Ray Diffraction 2.6621 2.9298 -- 122 2444 0.2111 0.272 -- 100.0
X Ray Diffraction 2.9298 3.3532 -- 155 2420 0.2158 0.2917 -- 100.0
X Ray Diffraction 3.3532 4.2225 -- 133 2503 0.1816 0.2263 -- 100.0
X Ray Diffraction 4.2225 29.0097 -- 150 2664 0.1734 0.2084 -- 100.0
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.008
f_dihedral_angle_d 15.304
f_angle_d 1.028
f_chiral_restr 0.044
f_plane_restr 0.004
Coordinate Error
Parameter Value
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2099
Nucleic Acid Atoms 0
Heterogen Atoms 50
Solvent Atoms 73

Software

Software
Software Name Purpose
PHENIX refinement version: 1.9_1692
XDS data reduction
Aimless data scaling
PHENIX phasing