X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 9.5
Temperature 293.0
Details 0.2 M lithium sulfate, 0.8 M sodium-potassium trtarate, 0.1 M CHES, pH 9.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 76.32 α = 90
b = 102.18 β = 90
c = 139.06 γ = 90
Symmetry
Space Group I 2 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 315 mirrrors 2010-08-05
Diffraction Radiation
Monochromator Protocol
Rosenbaum-Rock high-resolution double-crystal monochromator. LN2 cooled first crystal, sagittal focusing 2nd crystal SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-ID 0.97926 APS 19-ID

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
2.64 39.62 -- 0.049 0.049 -- 3.7 16308 16308 1.0 1.0 45.8
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)
2.64 2.69 98.1 0.469 0.469 3.1 3.7 826

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
SAD 2.64 39.62 0.0 0.0 16308 14998 753 91.66 0.193 0.193 0.1898 0.255 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 2.64 2.8438 2624 137 2624 0.2697 0.302 -- 86.0
X Ray Diffraction 2.8438 3.1299 2807 150 2807 0.2358 0.2841 -- 92.0
X Ray Diffraction 3.1299 3.5825 2929 154 2929 0.2069 0.2822 -- 95.0
X Ray Diffraction 3.5825 4.5126 2987 159 2987 0.1707 0.2668 -- 96.0
X Ray Diffraction 4.5126 39.62 2898 153 2898 0.1732 0.2209 -- 90.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model Isotropic
Mean Isotropic B 67.36
Anisotropic B[1][1] 9.33
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] 7.1486
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -16.4786
RMS Deviations
Key Refinement Restraint Deviation
f_dihedral_angle_d 15.23
f_chiral_restr 0.065
f_plane_restr 0.004
f_bond_d 0.008
f_angle_d 1.096
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.36
Luzzati Sigma A (Observed) 0.38
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2304
Nucleic Acid Atoms 0
Heterogen Atoms 31
Solvent Atoms 38

Software

Software
Software Name Purpose
HKL-3000 data collection
PHENIX model building
PHENIX refinement version: (phenix.refine: 1.6.4_486)
HKL-3000 data reduction
HKL-3000 data scaling
PHENIX phasing