X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 8.5
Temperature 289.0
Details 0.2 M Magnesium Chloride, 0.1 M Tris pH 8.5, 30 % PEG400, VAPOR DIFFUSION, SITTING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 173.45 α = 90
b = 173.45 β = 90
c = 96.57 γ = 120
Symmetry
Space Group H 3

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD ADSC QUANTUM 210r mirrors 2011-08-08
Diffraction Radiation
Monochromator Protocol
Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 19-BM 0.97911 APS 19-BM

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
2.4 50 99.8 -- 0.057 -- 2.9 42456 42456 0.0 0.0 55.13
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)
2.4 2.44 98.6 -- 0.582 2.0 2.6 2075

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 2.4 32.456 -- 0.0 42206 42206 2129 99.62 0.186 0.186 0.185 0.212 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 2.4 2.4559 2783 140 2643 0.309 0.3538 -- 98.0
X Ray Diffraction 2.4559 2.5173 2820 150 2670 0.2756 0.2872 -- 99.0
X Ray Diffraction 2.5173 2.5853 2787 157 2630 0.2672 0.3124 -- 99.0
X Ray Diffraction 2.5853 2.6613 2807 161 2646 0.2465 0.2842 -- 100.0
X Ray Diffraction 2.6613 2.7472 2807 150 2657 0.2336 0.2666 -- 100.0
X Ray Diffraction 2.7472 2.8453 2848 128 2720 0.2285 0.2572 -- 100.0
X Ray Diffraction 2.8453 2.9592 2786 136 2650 0.225 0.2753 -- 100.0
X Ray Diffraction 2.9592 3.0937 2834 116 2718 0.2177 0.2691 -- 100.0
X Ray Diffraction 3.0937 3.2567 2803 130 2673 0.2087 0.2454 -- 100.0
X Ray Diffraction 3.2567 3.4605 2816 158 2658 0.199 0.2409 -- 100.0
X Ray Diffraction 3.4605 3.7274 2842 139 2703 0.1857 0.221 -- 100.0
X Ray Diffraction 3.7274 4.1018 2810 151 2659 0.1697 0.1816 -- 100.0
X Ray Diffraction 4.1018 4.6938 2834 150 2684 0.1403 0.1536 -- 100.0
X Ray Diffraction 4.6938 5.9079 2823 136 2687 0.1588 0.1842 -- 100.0
X Ray Diffraction 5.9079 32.459 2806 127 2679 0.1611 0.1794 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Isotropic Thermal Model mixed
Mean Isotropic B 65.0
Anisotropic B[1][1] -2.2325
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -2.2325
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 4.4649
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.067
f_bond_d 0.003
f_dihedral_angle_d 14.076
f_angle_d 0.877
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 6963
Nucleic Acid Atoms 0
Heterogen Atoms 57
Solvent Atoms 163

Software

Software
Software Name Purpose
SBC-Collect data collection
HKL-3000 data collection
HKL-3000 phasing
SHELXS phasing
MLPHARE phasing
RESOLVE model building
SOLVE phasing
PHENIX refinement version: (phenix.refine: dev_851)
HKL-3000 data reduction
HKL-3000 data scaling
RESOLVE phasing