X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 293.0
Details 0.2 mol/L sodium acetate, 0.1 mol/L Tris pH 8.5, 28% PEG 3,350

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 94.92 α = 90
b = 94.92 β = 90
c = 120.5 γ = 120
Symmetry
Space Group H 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX225HE -- 2017-04-05
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 31-ID 0.97931 APS 31-ID

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
1.96 67.91 99.8 -- 0.14 3.9 5.3 -- 29024 -- -- --
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)
1.96 2.07 100.0 0.724 0.724 0.9 5.0 --

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 1.96 67.91 -- 0.0 -- 27523 1514 99.79 -- 0.1991 0.1974 0.2311 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 1.96 2.011 -- 91 2073 0.305 0.254 0.0 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 32.908
Anisotropic B[1][1] -0.57
Anisotropic B[1][2] -0.29
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.57
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.86
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_4_deg 15.8
r_dihedral_angle_3_deg 13.438
r_dihedral_angle_1_deg 6.819
r_dihedral_angle_2_deg 38.906
r_angle_refined_deg 1.516
r_bond_other_d 0.001
r_chiral_restr 0.086
r_bond_refined_d 0.011
r_gen_planes_refined 0.011
r_angle_other_deg 0.783
r_gen_planes_other 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2502
Nucleic Acid Atoms 0
Heterogen Atoms 66
Solvent Atoms 107

Software

Software
Software Name Purpose
SCALA data scaling version: 3.3.22
REFMAC refinement version: 5.8.0158
PDB_EXTRACT data extraction version: 3.22
iMOSFLM data reduction
PHASER phasing