X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 294.0
Details 100 mM Tris pH 8.5, 250 mM MgCl2, 17-18% PEG 4000, 4-7% glycerol, VAPOR DIFFUSION, SITTING DROP, temperature 294K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 56.07 α = 108.57
b = 56.86 β = 89.26
c = 60.93 γ = 104.14
Symmetry
Space Group P 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 98
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV -- --
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU -- -- --

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
2.3 30 91.0 -- 0.041 -- -- -- 27884 -- 0.0 32.9

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
MAD 2.3 24.73 -- 0.0 -- 27882 2020 90.9 0.23 0.226 0.226 0.279 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 2.3 2.44 -- 346 4374 0.273 0.325 0.017 92.3
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 39.7
Anisotropic B[1][1] 1.64
Anisotropic B[1][2] -2.59
Anisotropic B[1][3] 0.34
Anisotropic B[2][2] -0.27
Anisotropic B[2][3] -0.81
Anisotropic B[3][3] -1.37
RMS Deviations
Key Refinement Restraint Deviation
c_scangle_it 3.18
c_improper_angle_d 0.81
c_mcangle_it 2.66
c_mcbond_it 1.65
c_bond_d 0.006
c_scbond_it 2.32
c_angle_deg 1.3
c_dihedral_angle_d 26.6
Coordinate Error
Parameter Value
Luzzati ESD (R-Free Set) 0.39
Luzzati Sigma A (R-Free Set) 0.34
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 5064
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 164

Software

Software
Software Name Purpose
DENZO data reduction
SCALEPACK data scaling
CNS refinement
CNS phasing