X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 6
Temperature 293.0
Details 20% PEG4000, 200 mM sodium formate, 100 mM MES, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 46.65 α = 90
b = 84.67 β = 90
c = 114.73 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL PSI PILATUS 6M Kirkpatrick-Baez pair of bi-morph mirrors 2012-01-30
Diffraction Radiation
Monochromator Protocol
channel cut cryogenically cooled crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 0.918400 SOLEIL PROXIMA 1

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 47.5 99.3 0.093 -- -- 3.6 14577 14429 -- -- 59.25
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)
2.6 2.74 99.7 0.605 -- 2.3 3.6 2089

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 2.6 47.49 -- 0.0 -- 14428 732 99.0 -- 0.1901 0.1881 0.229 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 2.6 2.81 -- 151 2760 0.2047 0.2586 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 56.11
Anisotropic B[1][1] 6.3175
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 4.2283
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -10.5458
RMS Deviations
Key Refinement Restraint Deviation
t_angle_deg 1.03
t_other_torsion 2.91
t_bond_d 0.01
t_omega_torsion 3.01
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.333
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2820
Nucleic Acid Atoms 40
Heterogen Atoms 25
Solvent Atoms 187

Software

Software
Software Name Purpose
ADSC data collection version: Quantum
PHASER phasing
BUSTER refinement version: 2.11.2
XDS data reduction
SCALA data scaling