X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 8
Details 100 MM TRIS HCL PH 8.0; 15% (W/V) PEG 4K; 800 MM SODIUM FORMATE; PROTEIN AT 8 MG PER ML

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 217.67 α = 90
b = 217.67 β = 90
c = 263.15 γ = 120
Symmetry
Space Group H 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 120
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PIXEL -- 2014-12-07
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I03 -- 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
2.44 153.25 100.0 0.09 -- -- 10.2 -- 88697 -- 2.0 --
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)
2.44 2.5 100.0 0.71 -- 3.4 10.4 --

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 2.44 107.89 -- -- -- 84472 4220 99.99 -- 0.17453 0.17222 0.22052 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 2.44 2.503 -- 313 6200 0.295 0.363 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 49.197
Anisotropic B[1][1] -0.49
Anisotropic B[1][2] -0.24
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.49
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.57
RMS Deviations
Key Refinement Restraint Deviation
r_gen_planes_refined 0.013
r_scbond_it 6.513
r_mcbond_it 5.22
r_dihedral_angle_3_deg 18.234
r_chiral_restr 0.142
r_dihedral_angle_2_deg 31.266
r_mcangle_it 7.33
r_angle_refined_deg 2.241
r_dihedral_angle_4_deg 24.535
r_dihedral_angle_1_deg 7.195
r_bond_refined_d 0.02
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 10912
Nucleic Acid Atoms 0
Heterogen Atoms 80
Solvent Atoms 617

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0131
XDS data reduction
SCALA data scaling
MOLREP phasing