X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion
pH 8
Temperature 296.0
Details 1.5 M sodium citrate, Tris 50 mM

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 42.32 α = 90
b = 41.24 β = 104.28
c = 71.84 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD OXFORD ONYX CCD -- 2016-02-10
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SEALED TUBE OXFORD DIFFRACTION ENHANCE ULTRA 1.5406 -- --

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
1.7 30 94.6 0.068 -- -- 2.451 -- 25205 -- -3.0 18.625
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)
1.7 1.8 84.3 0.712 -- 1.07 1.46 --

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 1.7 30.0 -- 0.0 -- 23640 1185 93.17 -- 0.186 0.1841 0.2223 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 1.701 1.745 -- 73 1578 0.349 0.35 0.0 85.1
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 13.396
Anisotropic B[1][1] -0.02
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.08
Anisotropic B[2][2] -0.08
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.12
RMS Deviations
Key Refinement Restraint Deviation
r_dihedral_angle_2_deg 34.394
r_bond_refined_d 0.01
r_gen_planes_refined 0.006
r_dihedral_angle_4_deg 22.196
r_chiral_restr 0.091
r_angle_refined_deg 1.431
r_dihedral_angle_1_deg 6.419
r_dihedral_angle_3_deg 12.9
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2031
Nucleic Acid Atoms 0
Heterogen Atoms 24
Solvent Atoms 289

Software

Software
Software Name Purpose
XSCALE data scaling
REFMAC refinement version: 5.8.0073
PDB_EXTRACT data extraction version: 3.22
XDS data reduction
REFMAC phasing version: 5.8.0073