X-RAY DIFFRACTION Experimental Data & Validation

X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5.8
Temperature 298.0
Details 16-22% PEG 3350, 0.2M CaCl2, 0.1M MES, +/- 3% glycerol , pH 5.8, VAPOR DIFFUSION, SITTING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 68.27 α = 90
b = 136.12 β = 90
c = 168.46 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE RIGAKU RAXIS IV++ Osmic Blue multilayer optics 2010-11-01
Diffraction Radiation
Monochromator Protocol
-- SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RUH3R 1.54 -- --

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
2.3 37 95.8 0.04 -- -- 2.5 -- 67586 -- -- 25.1

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 2.3 31.552 -- 1.34 -- 67478 3412 95.65 -- 0.2313 0.2282 0.2898 --
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 2.3 2.3329 -- 124 2529 0.3593 0.4796 -- 91.0
X Ray Diffraction 2.3329 2.3677 -- 149 2525 0.3306 0.4425 -- 92.0
X Ray Diffraction 2.3677 2.4047 -- 117 2541 0.3343 0.4078 -- 92.0
X Ray Diffraction 2.4047 2.4441 -- 130 2587 0.3544 0.3962 -- 93.0
X Ray Diffraction 2.4441 2.4862 -- 142 2527 0.3287 0.4233 -- 93.0
X Ray Diffraction 2.4862 2.5314 -- 143 2598 0.3279 0.4271 -- 94.0
X Ray Diffraction 2.5314 2.58 -- 135 2596 0.3016 0.3533 -- 94.0
X Ray Diffraction 2.58 2.6327 -- 138 2608 0.3057 0.4121 -- 94.0
X Ray Diffraction 2.6327 2.6899 -- 151 2597 0.2862 0.3993 -- 96.0
X Ray Diffraction 2.6899 2.7524 -- 157 2684 0.2637 0.3551 -- 96.0
X Ray Diffraction 2.7524 2.8212 -- 139 2651 0.2606 0.3614 -- 96.0
X Ray Diffraction 2.8212 2.8975 -- 142 2689 0.2413 0.322 -- 97.0
X Ray Diffraction 2.8975 2.9827 -- 141 2723 0.2484 0.3087 -- 97.0
X Ray Diffraction 2.9827 3.0789 -- 130 2710 0.2316 0.3048 -- 98.0
X Ray Diffraction 3.0789 3.1888 -- 131 2739 0.2321 0.3181 -- 98.0
X Ray Diffraction 3.1888 3.3163 -- 168 2692 0.2327 0.3069 -- 98.0
X Ray Diffraction 3.3163 3.4671 -- 143 2731 0.231 0.2804 -- 98.0
X Ray Diffraction 3.4671 3.6496 -- 135 2759 0.235 0.2836 -- 98.0
X Ray Diffraction 3.6496 3.8779 -- 134 2780 0.2132 0.2912 -- 98.0
X Ray Diffraction 3.8779 4.1767 -- 147 2773 0.177 0.2185 -- 99.0
X Ray Diffraction 4.1767 4.5959 -- 156 2789 0.1538 0.1969 -- 99.0
X Ray Diffraction 4.5959 5.2583 -- 163 2796 0.1566 0.2017 -- 98.0
X Ray Diffraction 5.2583 6.6148 -- 158 2762 0.2164 0.2679 -- 97.0
X Ray Diffraction 6.6148 31.5552 -- 139 2680 0.2093 0.2413 -- 89.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] 9.9107
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.1314
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -8.7793
RMS Deviations
Key Refinement Restraint Deviation
f_angle_d 1.197
f_plane_restr 0.006
f_chiral_restr 0.073
f_bond_d 0.012
f_dihedral_angle_d 19.883
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 11034
Nucleic Acid Atoms 0
Heterogen Atoms 328
Solvent Atoms 947

Software

Software
Software Name Purpose
CrystalClear data collection
PHENIX refinement version: (phenix.refine: 1.7.2_869)
d*TREK data reduction
SCALA data scaling