X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 293.0
Details 0.1M MOPS/sodium HEPES, 40-50% Morpheus precipitant mix 4 (50% mix = 12.5% MPD, 12.5% PEG1000, 12.5% PEG3350), 0.1M morpheus carboxylic acids mix (0.02M each of sodium formate, ammonium actetate, sodium citrate tribasic dihydrate, sodium oxamate, potassium sodium tartrate tetrahydrate

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 73.32 α = 90
b = 114.96 β = 100.79
c = 120.92 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2018-10-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I04-1 0.91587 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
2.27 82.74 99.6 0.111 -- -- 3.4 -- 91197 -- -- --
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)
2.27 2.39 99.9 1.393 -- -- 3.5 --

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 2.4 82.74 -- 0.0 -- 72868 3787 99.46 -- 0.2193 0.2159 0.2855 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 2.4 2.462 -- 277 5409 0.322 0.323 0.0 99.84
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 44.518
Anisotropic B[1][1] 0.22
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -2.59
Anisotropic B[2][2] 4.41
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -3.4
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_2_deg 29.866
r_gen_planes_refined 0.007
r_bond_refined_d 0.009
r_dihedral_angle_4_deg 18.139
r_angle_refined_deg 1.772
r_dihedral_angle_1_deg 8.2
r_angle_other_deg 1.322
r_dihedral_angle_3_deg 16.469
r_chiral_restr 0.067
r_bond_other_d 0.001
r_gen_planes_other 0.001
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 11006
Nucleic Acid Atoms 0
Heterogen Atoms 178
Solvent Atoms 325

Software

Software
Software Name Purpose
Aimless data scaling version: 0.7.2
REFMAC refinement version: 5.8.0238
PDB_EXTRACT data extraction version: 3.24
XDS data reduction
REFMAC phasing