X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 293.0
Details 0.8 M sodium citrate

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 27.98 α = 90
b = 30.05 β = 90
c = 53.87 γ = 90
Symmetry
Space Group P 21 21 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 80
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M-F -- 2018-05-19
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I04 0.9795 Diamond I04

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
1.41 27.96 95.2 0.088 -- -- 9.7 -- 8784 -- -- --
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)
1.41 1.45 70.9 0.857 -- 1.0 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 1.41 26.95 -- -- -- 8356 411 95.0 -- 0.21235 0.21067 0.24689 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 1.41 1.447 -- 22 430 0.402 0.386 -- 69.22
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 29.959
Anisotropic B[1][1] 0.49
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.69
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.2
RMS Deviations
Key Refinement Restraint Deviation
r_angle_other_deg 1.486
r_dihedral_angle_1_deg 3.008
r_mcbond_other 3.556
r_long_range_B_refined 9.802
r_mcbond_it 3.562
r_long_range_B_other 9.826
r_bond_other_d 0.001
r_scangle_other 10.827
r_gen_planes_refined 0.008
r_mcangle_it 4.847
r_bond_refined_d 0.009
r_gen_planes_other 0.003
r_dihedral_angle_2_deg 32.106
r_chiral_restr 0.076
r_angle_refined_deg 1.479
r_dihedral_angle_3_deg 14.773
r_scbond_other 5.933
r_mcangle_other 4.844
r_scbond_it 7.312
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 382
Nucleic Acid Atoms 0
Heterogen Atoms 12
Solvent Atoms 28

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0232
DIALS data reduction version: 1.9.3-gb491019a
Aimless data scaling version: 0.6.2
PHASER phasing version: 2.8.2