X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6
Temperature 298.0
Details 30% PEG 1000, 0.1M MIB buffer

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 51.65 α = 90
b = 56.95 β = 90
c = 114.79 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2017-04-11
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I04-1 0.92 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
1.68 40.43 99.9 0.072 -- -- 6.6 -- 39399 -- -- --
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)
1.68 1.72 100.0 1.566 -- -- 6.5 2857

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 1.68 40.43 -- 0.0 -- 37428 1914 99.85 -- 0.1822 0.1804 0.2177 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 1.68 1.724 -- 119 2733 0.306 0.348 -- 99.82
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 35.741
Anisotropic B[1][1] 0.26
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.4
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.66
RMS Deviations
Key Refinement Restraint Deviation
r_angle_refined_deg 1.901
r_angle_other_deg 1.079
r_dihedral_angle_1_deg 6.482
r_dihedral_angle_2_deg 34.717
r_gen_planes_refined 0.01
r_gen_planes_other 0.002
r_dihedral_angle_3_deg 13.049
r_mcangle_it 5.498
r_mcbond_other 3.66
r_mcbond_it 3.664
r_bond_refined_d 0.019
r_bond_other_d 0.002
r_chiral_restr 0.125
r_dihedral_angle_4_deg 17.056
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2692
Nucleic Acid Atoms 0
Heterogen Atoms 8
Solvent Atoms 310

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0155
Aimless data scaling version: 0.5.31
PDB_EXTRACT data extraction version: 3.23
XDS data reduction
REFMAC phasing