X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Floating Drop
pH 5.8
Temperature 293.0
Details 0.1M imidazole pH5.8, 0.5M (NH4)2SO4, 0.7M Li2SO4, 3% ethylene glycol, VAPOR DIFFUSION, FLOATING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 209.91 α = 90
b = 209.91 β = 90
c = 180.54 γ = 120
Symmetry
Space Group P 63 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2009-07-22
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SPRING-8 BEAMLINE BL41XU 1.00000 SPRING-8 BL41XU

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
3.55 30 99.5 0.074 -- -- 20.0 -- 28716 0.0 0.0 78.3
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)
3.55 3.68 100.0 0.498 -- 6.5 20.0 2831

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 3.55 29.89 -- 0.0 28894 28487 1447 98.8 -- 0.25 0.25 0.283 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 3.55 3.68 -- 147 2661 0.342 0.356 0.029 99.6
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model GROUP
Mean Isotropic B 138.9
Anisotropic B[1][1] 13.37
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 13.37
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -26.73
RMS Deviations
Key Refinement Restraint Deviation
c_improper_angle_d 0.99
c_bond_d 0.009
c_angle_deg 1.5
c_dihedral_angle_d 25.5
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.5
Luzzati Sigma A (Observed) 0.65
Luzzati Resolution Cutoff (Low) 5.0
Luzzati ESD (R-Free Set) 0.6
Luzzati Sigma A (R-Free Set) 0.65
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4005
Nucleic Acid Atoms 0
Heterogen Atoms 28
Solvent Atoms 0

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
PHASER Structure Solution
CNS 1.3 Structure Refinement
Software
Software Name Purpose
CNS version: 1.3 refinement
PHASER model building
ADSC version: Quantum data collection