X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 6.5
Temperature 291.0
Details 0.2 M sodium chloride, 0.1 M sodium cacodylate pH 6.5, 2 M ammonium sulfate, cryoprotected adding a 10 % ethylene glycol

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 51.39 α = 90
b = 115.98 β = 90
c = 171.49 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2013-05-19
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 Diamond I03

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
2.23 96.1 99.9 0.094 0.094 -- 6.3 -- 50922 0.0 0.0 --
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)
2.23 2.29 99.8 0.674 -- 2.9 6.2 --

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 2.23 96.07 -- -- -- 48273 2580 99.83 -- 0.22157 0.21988 0.25368 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 2.23 2.288 -- 182 3235 0.329 0.378 -- 99.74
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 40.413
Anisotropic B[1][1] -1.11
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.36
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -1.25
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_1_deg 5.394
r_dihedral_angle_4_deg 24.774
r_gen_planes_refined 0.006
r_dihedral_angle_3_deg 14.738
r_chiral_restr 0.077
r_bond_refined_d 0.009
r_dihedral_angle_2_deg 36.71
r_angle_refined_deg 1.38
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5344
Nucleic Acid Atoms 0
Heterogen Atoms 96
Solvent Atoms 166

Software

Software
Software Name Purpose
REFMAC refinement version: 5.6.0117
XDS data reduction
XSCALE data scaling
PHASER phasing