X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 293.0
Details 0.2M Sodium acetate trihydrate, 0.1M Sodium cacodylate trihydrate pH 6.5, 30%(w/v) Polyethylene glycol 8000

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 37.79 α = 90
b = 47.93 β = 90
c = 82.71 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 PILATUS3 S 6M -- 2017-11-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL18U1 0.988 SSRF BL18U1

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
1.77 50 99.0 0.124 0.117 -- 6.3 -- 15228 -- -- --
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)
1.77 1.8 99.0 0.503 0.501 -- 5.5 --

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
MOLECULAR REPLACEMENT 1.77 34.37 -- -- -- 14420 760 99.83 -- 0.16066 0.15845 0.20255 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 1.772 1.817 -- 56 1012 0.22 0.295 -- 98.61
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 22.425
Anisotropic B[1][1] 0.05
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.02
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.07
RMS Deviations
Key Refinement Restraint Deviation
r_bond_refined_d 0.019
r_dihedral_angle_1_deg 5.048
r_chiral_restr 0.153
r_bond_other_d 0.002
r_mcangle_other 2.603
r_dihedral_angle_4_deg 21.108
r_dihedral_angle_2_deg 32.861
r_gen_planes_refined 0.011
r_mcangle_it 2.604
r_long_range_B_other 6.416
r_dihedral_angle_3_deg 15.369
r_long_range_B_refined 6.694
r_scangle_other 5.151
r_angle_other_deg 0.905
r_gen_planes_other 0.005
r_scbond_it 3.559
r_angle_refined_deg 1.82
r_mcbond_it 1.88
r_mcbond_other 1.876
r_scbond_other 3.563
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1222
Nucleic Acid Atoms 0
Heterogen Atoms 43
Solvent Atoms 202

Software

Software
Software Name Purpose
REFMAC refinement version: 5.7.0032
HKL-3000 data reduction
HKL-3000 data scaling
MOLREP phasing