X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 293.0
Details 34 % (v/v) pentaerythritol propoxylate PO/OH 5/4 2 % (w/v) PEG 3350 100 mM Tris-HCl, pH 8.0

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 102.3 α = 90
b = 131.66 β = 90
c = 160.02 γ = 90
Symmetry
Space Group I 2 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 90
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2018-03-08
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.2 0.918 BESSY 14.2

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
2.09 50 99.2 0.12 -- -- 6.7 -- 63204 -- -- --
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)
2.09 2.22 97.0 0.943 -- 1.97 7.0 --

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
FOURIER SYNTHESIS 2.09 47.3 -- -- -- 61201 2100 99.36 -- 0.16186 0.16038 0.2044 RANDOM
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 2.094 2.149 -- 145 4218 0.284 0.288 -- 94.01
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 55.506
Anisotropic B[1][1] 1.89
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -3.35
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.47
RMS Deviations
Key Refinement Restraint Deviation
r_long_range_B_other 6.518
r_angle_refined_deg 1.834
r_mcangle_other 3.843
r_dihedral_angle_1_deg 6.674
r_chiral_restr 0.085
r_dihedral_angle_2_deg 32.748
r_scbond_other 3.9
r_scbond_it 3.9
r_angle_other_deg 1.167
r_mcbond_other 3.058
r_mcangle_it 3.844
r_bond_other_d 0.002
r_mcbond_it 3.058
r_dihedral_angle_3_deg 15.781
r_dihedral_angle_4_deg 17.017
r_scangle_other 5.324
r_gen_planes_refined 0.011
r_gen_planes_other 0.001
r_long_range_B_refined 6.518
r_bond_refined_d 0.016
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5529
Nucleic Acid Atoms 0
Heterogen Atoms 208
Solvent Atoms 395

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0222
XDS data reduction
XDS data scaling
Coot model building
REFMAC phasing