X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 295.0
Details 0.2M (NH4)2SO4, 20% PEG 3350, 0.4M 1,6-Hexanediol, 0.1M Tris pH 8.5, 4% Dioxane

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 120.57 α = 90
b = 120.57 β = 90
c = 73.7 γ = 120
Symmetry
Space Group P 31 1 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315r -- 2014-03-25
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 0.97915 SSRF BL17U

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
2.6 60.39 99.8 0.095 -- -- 10.6 -- 18911 -- -- --
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)
2.6 2.74 100.0 0.506 -- 4.8 10.5 --

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
SAD 2.6 46.66 -- -- -- 17884 971 99.32 -- 0.22849 0.22518 0.29436 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 2.599 2.666 -- 72 1287 0.45 0.516 -- 96.86
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 85.122
Anisotropic B[1][1] 3.21
Anisotropic B[1][2] 1.6
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 3.21
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -10.41
RMS Deviations
Key Refinement Restraint Deviation
r_scangle_other 9.991
r_angle_refined_deg 2.02
r_scbond_it 6.929
r_gen_planes_refined 0.007
r_mcangle_other 9.146
r_long_range_B_other 12.069
r_long_range_B_refined 12.071
r_mcbond_it 6.479
r_bond_other_d 0.003
r_dihedral_angle_2_deg 34.495
r_bond_refined_d 0.015
r_mcangle_it 9.149
r_gen_planes_other 0.002
r_angle_other_deg 1.17
r_dihedral_angle_1_deg 8.58
r_scbond_other 6.927
r_dihedral_angle_3_deg 20.26
r_chiral_restr 0.111
r_dihedral_angle_4_deg 23.575
r_mcbond_other 6.471
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2425
Nucleic Acid Atoms 0
Heterogen Atoms 3
Solvent Atoms 3

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0103
iMOSFLM data processing
SCALA data scaling
PHENIX phasing
Coot model building