X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
Temperature 298.0
Details 10% PEG 8000, 0.1 IMIDAZOLE PH 6.8, 0.1 M SODIUM ACETATE, 0.005 M YBCL3

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 77.44 α = 90
b = 87.58 β = 90
c = 99.06 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 80
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2012-02-20
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SLS BEAMLINE X10SA 1.0 SLS X10SA

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
1.84 50 99.8 -- -- -- 6.5 -- 59014 -- -- --

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 1.84 29.01 -- 0.0 -- 59014 2951 99.85 -- 0.1569 0.1554 0.1861 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 1.84 1.89 -- 216 4108 0.2089 0.2686 0.0 99.85
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 27.05
Anisotropic B[1][1] -1.0898
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 5.1794
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.0896
RMS Deviations
Key Refinement Restraint Deviation
t_other_torsion 15.81
t_angle_deg 1.0
t_omega_torsion 3.58
t_bond_d 0.01
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.172
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4865
Nucleic Acid Atoms 0
Heterogen Atoms 31
Solvent Atoms 676

Software

Software
Software Name Purpose
BUSTER refinement version: 2.11.2
PDB_EXTRACT data extraction version: 3.22
XDS data reduction
XSCALE data scaling
PHASER phasing