X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.4
Temperature 290.0
Details Tris, sodium citrate, acetone, phenol, pH 6.4, VAPOR DIFFUSION, HANGING DROP, temperature 290.0K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 80.49 α = 90
b = 80.49 β = 90
c = 37.94 γ = 120
Symmetry
Space Group H 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 298
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV mirrors 2001-11-12
Diffraction Radiation
Monochromator Protocol
mirror SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RU200 1.5418 -- --

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 23.24 98.7 0.057 -- -- 2.07 -- 5897 0.0 0.0 26.2
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)
2.0 2.07 89.3 0.301 -- 4.1 -- 543

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 2.0 23.24 -- 0.0 -- 5892 613 98.7 -- -- 0.219 0.264 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 2.0 2.13 753 89 753 0.331 0.378 0.011 80.6
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model RESTRAINED
Mean Isotropic B 29.5
Anisotropic B[1][1] -2.18
Anisotropic B[1][2] 2.43
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -2.18
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 6.82
RMS Deviations
Key Refinement Restraint Deviation
c_mcangle_it 2.05
c_scbond_it 2.47
c_bond_d 0.01
c_improper_angle_d 0.9
c_mcbond_it 1.41
c_scangle_it 3.1
c_dihedral_angle_d 24.1
c_angle_deg 2.1
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.21
Luzzati Sigma A (Observed) 0.24
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.2
Luzzati Sigma A (R-Free Set) 0.25
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 810
Nucleic Acid Atoms 0
Heterogen Atoms 9
Solvent Atoms 64

Software

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