X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
Temperature 293.0
Details 6% POLYETHYLENE GLYCOL 4000, 8% GLYCEROL, 0.1 M MES, 30 MM CACL2, 30 MM MGCL2, PH 6.7

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 105.54 α = 90
b = 157.33 β = 90
c = 184.03 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 -- 2018-01-16
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL19U1 0.9798 SSRF BL19U1

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
2.5 50 99.9 0.086 -- -- 6.8 -- 108297 -- -- --
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)
2.5 2.54 100.0 0.8 -- 2.3 7.0 --

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 2.5 48.42 -- -- -- 101772 5334 97.79 -- 0.24283 0.24078 0.28185 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 2.476 2.54 -- 294 5694 0.328 0.368 -- 74.82
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 45.181
Anisotropic B[1][1] 0.16
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.17
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.01
RMS Deviations
Key Refinement Restraint Deviation
r_scbond_it 2.884
r_dihedral_angle_3_deg 16.489
r_dihedral_angle_4_deg 14.464
r_mcbond_other 3.131
r_bond_other_d 0.001
r_scbond_other 2.884
r_mcbond_it 3.136
r_gen_planes_refined 0.005
r_dihedral_angle_1_deg 7.353
r_mcangle_other 5.189
r_scangle_other 4.868
r_angle_refined_deg 1.441
r_angle_other_deg 1.172
r_bond_refined_d 0.006
r_dihedral_angle_2_deg 32.79
r_chiral_restr 0.06
r_mcangle_it 5.189
r_gen_planes_other 0.001
r_long_range_B_other 7.975
r_long_range_B_refined 7.976
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 17019
Nucleic Acid Atoms 0
Heterogen Atoms 212
Solvent Atoms 83

Software

Software
Software Name Purpose
REFMAC refinement version: 5.8.0238
HKL-2000 data reduction
HKL-2000 data scaling
MOLREP phasing