X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 298.0
Details 0.1M Tris HCl, 0.2M LiSO4, 25-30% PEG 8000, pH 8.5, vapor diffusion, hanging drop, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 79.93 α = 90
b = 84.68 β = 90.93
c = 136.42 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 -- 2009-04-03
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.956 AUSTRALIAN SYNCHROTRON MX2

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
2.6 100 94.5 -- 0.117 -- 8.2 -- 31034 -- -- 54.19

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 3.16 58.12 -- 0.0 -- 31034 1565 98.58 -- 0.1814 0.1779 0.2471 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 3.16 3.26 -- 128 2325 0.2353 0.3495 -- 98.58
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 45.86
Anisotropic B[1][1] 5.2795
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0971
Anisotropic B[2][2] 1.8844
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -7.164
RMS Deviations
Key Refinement Restraint Deviation
t_bond_d 0.01
t_angle_deg 1.17
t_omega_torsion 2.94
t_other_torsion 22.59
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.495
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 12660
Nucleic Acid Atoms 0
Heterogen Atoms 25
Solvent Atoms 211

Software

Computing
Computing Package Purpose
blue ice Data Collection
xds Data Reduction (intensity integration)
XSCALE Data Reduction (data scaling)
PHASER Structure Solution
BUSTER 2.10.0 Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.11 data extraction
BUSTER-TNT refinement
Phaser molecular replacement
Xscale data reduction