X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Evaporation
pH 4.5
Details 0.08M Mg(OAc)2, 0.1M NaOAc pH 4.5, 4% benzamidine HCl, 4% PEG 8000., EVAPORATION

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 83.65 α = 90
b = 83.65 β = 90
c = 94.24 γ = 90
Symmetry
Space Group P 43 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON DIAMOND BEAMLINE I24 0.9686 Diamond I24

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
3.2 29.57 -- 0.085 -- -- 8.8 -- 5917 -- -- --
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)
3.2 3.37 -- -- -- 18.6 6.1 --

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 3.2 29.56 -- -- -- 5628 267 99.5 -- 0.226 0.222 0.317 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 3.2 3.28 -- 14 330 0.372 0.462 -- 96.36
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 109.22
Anisotropic B[1][1] 3.99
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 3.99
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -7.98
RMS Deviations
Key Refinement Restraint Deviation
r_chiral_restr 0.097
r_dihedral_angle_3_deg 24.851
r_dihedral_angle_2_deg 35.872
r_dihedral_angle_4_deg 20.788
r_angle_refined_deg 1.718
r_gen_planes_refined 0.013
r_dihedral_angle_1_deg 6.607
r_bond_refined_d 0.013
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 1008
Nucleic Acid Atoms 688
Heterogen Atoms 0
Solvent Atoms 0

Software

Software
Software Name Purpose
DNA data collection
REFMAC refinement version: 5.6.0117
MOSFLM data reduction
SCALA data scaling