X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.75
Temperature 293.0
Details 0.1M MIB pH 5.75 - 7.0, 27.5-35% PEG1000

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 97.49 α = 90
b = 97.49 β = 90
c = 80.39 γ = 90
Symmetry
Space Group I 4

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2018-01-29
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
1.45 26.16 99.9 0.054 -- -- 5.9 -- 66577 -- -- --
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)
1.45 1.49 98.7 0.567 -- -- 3.8 4830

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 1.45 68.93 -- 0.0 -- 63175 3400 99.88 -- 0.1806 0.1797 0.1975 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 1.449 1.486 -- 254 4583 0.259 0.29 -- 98.94
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 19.904
Anisotropic B[1][1] -0.6
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.6
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.2
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.109
r_dihedral_angle_2_deg 30.273
r_dihedral_angle_1_deg 6.456
r_angle_other_deg 1.009
r_gen_planes_refined 0.009
r_mcbond_it 1.369
r_bond_refined_d 0.015
r_dihedral_angle_3_deg 13.091
r_mcangle_it 2.102
r_gen_planes_other 0.002
r_angle_refined_deg 1.809
r_bond_other_d 0.002
r_dihedral_angle_4_deg 14.841
r_mcbond_other 1.369
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2608
Nucleic Acid Atoms 0
Heterogen Atoms 61
Solvent Atoms 139

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0189
Aimless data scaling version: 0.5.32
PDB_EXTRACT data extraction version: 3.23
XDS data reduction
REFMAC phasing