X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
pH 6
Details AMMONIUM SULPHATE 2M, MES 0.1M, DIOXANE 2-3%, pH 6.00

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 139.67 α = 90
b = 139.67 β = 90
c = 208.11 γ = 120
Symmetry
Space Group H 3 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC CCD -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID14-4 -- ESRF ID14-4

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 20 95.9 0.059 -- -- 5.49 -- 82025 -- -- --
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 1.73 97.5 0.19 -- -- -- --

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 1.7 25.0 -- -- -- 77908 4117 95.9 -- -- 0.163 0.187 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 1.7 1.74 -- 286 5841 0.17 0.211 -- --
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 19.98
Anisotropic B[1][1] 0.53
Anisotropic B[1][2] 0.27
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 0.53
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -0.8
RMS Deviations
Key Refinement Restraint Deviation
r_symmetry_vdw_other 0.213
r_scbond_it 2.977
r_nbtor_other 0.229
r_mcangle_it 1.982
r_bond_refined_d 0.019
r_gen_planes_other 0.002
r_chiral_restr 0.118
r_bond_other_d 0.001
r_angle_refined_deg 1.811
r_nbd_other 0.21
r_dihedral_angle_1_deg 5.361
r_metal_ion_refined 0.01
r_symmetry_vdw_refined 1.166
r_xyhbond_nbd_other 0.277
r_symmetry_hbond_refined 0.606
r_angle_other_deg 0.847
r_gen_planes_refined 0.008
r_scangle_it 4.773
r_dihedral_angle_3_deg 16.971
r_nbd_refined 0.253
r_xyhbond_nbd_refined 0.248
r_mcbond_it 1.103
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5089
Nucleic Acid Atoms 0
Heterogen Atoms 54
Solvent Atoms 519

Software

Software
Software Name Purpose
REFMAC refinement version: 5.0.36
DENZO data reduction
SCALEPACK data scaling