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 -- --
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_scangle_it 4.773
r_scbond_it 2.977
r_mcangle_it 1.982
r_mcbond_it 1.103
r_nbd_refined 0.253
r_gen_planes_other 0.002
r_gen_planes_refined 0.008
r_chiral_restr 0.118
r_dihedral_angle_3_deg 16.971
r_dihedral_angle_1_deg 5.361
r_angle_other_deg 0.847
r_angle_refined_deg 1.811
r_bond_other_d 0.001
r_bond_refined_d 0.019
r_nbd_other 0.21
r_nbtor_other 0.229
r_xyhbond_nbd_refined 0.248
r_xyhbond_nbd_other 0.277
r_metal_ion_refined 0.01
r_symmetry_vdw_refined 1.166
r_symmetry_vdw_other 0.213
r_symmetry_hbond_refined 0.606
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

Computing
Computing Package Purpose
DENZO Data Reduction (intensity integration)
SCALEPACK Data Reduction (data scaling)
REFMAC 5.0.36 Structure Refinement
Software
Software Name Purpose
REFMAC version: 5.0.36 refinement