X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8
Temperature 291.0
Details 200 mM MgF 100 mM HEPES pH8

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 99.4 α = 90
b = 169.9 β = 90
c = 187.42 γ = 90
Symmetry
Space Group I 2 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2015-07-19
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 0.9792 SOLEIL PROXIMA 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
3.5 49.21 100.0 0.1837 -- -- 66.5 -- 20413 -- -- --
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)
-- -- -- 1.071 -- -- -- --

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 3.5 49.21 -- -- -- 19401 1022 99.94 -- 0.18497 0.1829 0.22398 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 3.5 3.59 -- 75 1415 0.198 0.214 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 147.869
Anisotropic B[1][1] -0.47
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.45
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.92
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.014
r_dihedral_angle_2_deg 40.394
r_gen_planes_other 0.005
r_dihedral_angle_1_deg 5.533
r_scbond_other 7.041
r_scangle_other 11.511
r_long_range_B_refined 18.822
r_chiral_restr 0.095
r_bond_other_d 0.007
r_mcbond_other 6.515
r_long_range_B_other 18.821
r_scbond_it 7.047
r_dihedral_angle_3_deg 18.196
r_dihedral_angle_4_deg 15.605
r_mcbond_it 6.515
r_gen_planes_refined 0.007
r_mcangle_it 10.266
r_angle_other_deg 1.594
r_angle_refined_deg 1.823
r_mcangle_other 10.265
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 8530
Nucleic Acid Atoms 0
Heterogen Atoms 78
Solvent Atoms 0

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0124
BUSTER refinement
PHENIX refinement
XDS data reduction
XDS data scaling
SHELXDE phasing