X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6.6
Temperature 293.0
Details ammonium sulfate, 2-propanol, phosphate, pH 6.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 122.34 α = 90
b = 122.34 β = 90
c = 115.03 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 ADSC QUANTUM 4 -- 2001-03-02
Diffraction Radiation
Monochromator Protocol
GRAPHITE MAD
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL40B2 0.9792, 0.9795, 0.9640 SPring-8 BL40B2

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
2.5 20 98.6 0.073 0.067 -- 6.0 34218 34168 2.0 2.0 51.58
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)
2.5 2.64 99.5 0.285 0.26 2.9 6.0 4953

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 2.5 10.0 0.0 0.0 34194 33228 2759 97.2 -- -- 0.2012 0.2695 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 2.5 2.59 2963 238 -- 0.2936 0.374 -- 89.03
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 55.2873
Anisotropic B[1][1] 2.164
Anisotropic B[1][2] -2.143
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 2.164
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.329
RMS Deviations
Key Refinement Restraint Deviation
c_angle_deg 1.54243
c_dihedral_angle_d 23.0174
c_improper_angle_d 1.0257
c_bond_d 0.009681
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.32
Luzzati Sigma A (Observed) 0.31
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.43
Luzzati Sigma A (R-Free Set) 0.41
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 7452
Nucleic Acid Atoms 0
Heterogen Atoms 64
Solvent Atoms 94

Software

Software
Software Name Purpose
MOSFLM data reduction
SCALA data scaling
SHARP phasing
CNS refinement version: 1.0
CCP4 data scaling version: (SCALA)