X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Sitting Drop
pH 6.8
Temperature 298.0
Details 0.1 M Sodium cacodylate pH 6.8, 0.8 M Sodium Citrate, sitting drop, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 117.51 α = 90
b = 154.78 β = 90
c = 155.79 γ = 90
Symmetry
Space Group C 2 2 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC/MAR -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 17-ID 1.0 APS 17-ID

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
2.7 100 97.1 0.058 -- -- 5.1 -- 38336 -- -- --
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)
2.7 2.8 98.6 0.623 -- -- 5.1 --

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
FOURIER SYNTHESIS 2.8 50.0 -- -- -- 32509 1728 96.98 -- 0.25152 0.24914 0.29556 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 2.8 2.873 -- 110 2427 0.337 0.436 -- 98.37
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 69.955
Anisotropic B[1][1] -0.05
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.41
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.46
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.071
r_mcbond_it 0.393
r_bond_refined_d 0.007
r_nbtor_refined 0.301
r_dihedral_angle_3_deg 18.306
r_symmetry_hbond_refined 0.117
r_dihedral_angle_2_deg 35.979
r_gen_planes_refined 0.002
r_symmetry_vdw_refined 0.195
r_nbd_refined 0.183
r_xyhbond_nbd_refined 0.116
r_dihedral_angle_4_deg 14.762
r_mcangle_it 0.708
r_angle_refined_deg 1.028
r_scangle_it 0.971
r_scbond_it 0.552
r_dihedral_angle_1_deg 5.086
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7819
Nucleic Acid Atoms 0
Heterogen Atoms 32
Solvent Atoms 62

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
REFMAC refinement
PDB_EXTRACT data extraction version: 3.005