X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7
Temperature 289.0
Details 1.6M ammonium citrate, 0.1M Bis-Tris propane, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 79.57 α = 90
b = 79.57 β = 90
c = 112.75 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD CCD ADSC unsupported-q315 -- 2012-03-28
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRF BEAMLINE BL17U 0.9797 SSRF BL17U

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
3 50 99.9 0.098 -- -- 6.9 -- 8690 -- -- --
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)
3.0 3.11 100.0 0.52 -- -- 7.1 --

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 3.0 50.0 -- -- -- 8160 450 99.49 -- 0.22929 0.22666 0.2789 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 3.0 3.078 -- 36 574 0.309 0.326 -- 99.67
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 78.167
Anisotropic B[1][1] 4.36
Anisotropic B[1][2] 2.18
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 4.36
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -6.54
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.069
r_scangle_it 4.833
r_mcbond_it 1.905
r_dihedral_angle_1_deg 4.962
r_gen_planes_refined 0.004
r_rigid_bond_restr 2.186
r_mcangle_it 3.519
r_dihedral_angle_4_deg 13.146
r_scbond_it 2.846
r_dihedral_angle_3_deg 17.228
r_bond_refined_d 0.007
r_dihedral_angle_2_deg 34.534
r_angle_refined_deg 1.028
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2498
Nucleic Acid Atoms 0
Heterogen Atoms 28
Solvent Atoms 0

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
REFMAC refinement version: 5.5.0102
PDB_EXTRACT data extraction version: 3.11