X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 8.5
Temperature 296.0
Details 28% PEG 4K, 0.17 M Li2SO4, 0.085 M Tris pH 8.5, and 15% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 296K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 73.4 α = 90
b = 126.41 β = 90.08
c = 120.08 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
IMAGE PLATE MAR scanner 300 mm plate -- 2011-11-27
Diffraction Radiation
Monochromator Protocol
Mirrors SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 23-ID-D 1.03319 APS 23-ID-D

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
2.49 46.5 99.8 -- -- -- -- 75889 76041 0.0 0.0 --
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)
2.488 2.54 99.0 -- -- -- -- --

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 2.488 46.5 -- 1.35 76841 75512 3776 98.27 -- 0.2105 0.208 0.2564 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 2.4882 2.5197 -- 92 1893 0.2866 0.3366 -- 70.0
X Ray Diffraction 2.5197 2.5529 -- 136 2665 0.2866 0.3515 -- 99.0
X Ray Diffraction 2.5529 2.5878 -- 131 2663 0.2887 0.3747 -- 99.0
X Ray Diffraction 2.5878 2.6248 -- 139 2698 0.2698 0.3217 -- 99.0
X Ray Diffraction 2.6248 2.664 -- 129 2686 0.2602 0.3446 -- 100.0
X Ray Diffraction 2.664 2.7056 -- 138 2696 0.25 0.35 -- 100.0
X Ray Diffraction 2.7056 2.75 -- 139 2661 0.2335 0.3194 -- 100.0
X Ray Diffraction 2.75 2.7974 -- 124 2688 0.229 0.2889 -- 100.0
X Ray Diffraction 2.7974 2.8482 -- 139 2687 0.2324 0.2425 -- 100.0
X Ray Diffraction 2.8482 2.903 -- 149 2665 0.237 0.3067 -- 99.0
X Ray Diffraction 2.903 2.9623 -- 133 2709 0.2477 0.3162 -- 100.0
X Ray Diffraction 2.9623 3.0267 -- 142 2668 0.2365 0.2816 -- 100.0
X Ray Diffraction 3.0267 3.097 -- 117 2730 0.2155 0.2911 -- 100.0
X Ray Diffraction 3.097 3.1745 -- 158 2675 0.2159 0.2809 -- 99.0
X Ray Diffraction 3.1745 3.2603 -- 136 2694 0.2119 0.2813 -- 100.0
X Ray Diffraction 3.2603 3.3562 -- 150 2676 0.2147 0.2432 -- 100.0
X Ray Diffraction 3.3562 3.4645 -- 163 2645 0.2074 0.258 -- 99.0
X Ray Diffraction 3.4645 3.5883 -- 161 2658 0.2034 0.2416 -- 100.0
X Ray Diffraction 3.5883 3.7319 -- 136 2696 0.1986 0.2418 -- 100.0
X Ray Diffraction 3.7319 3.9016 -- 140 2708 0.1939 0.2529 -- 99.0
X Ray Diffraction 3.9016 4.1072 -- 165 2659 0.1842 0.2203 -- 99.0
X Ray Diffraction 4.1072 4.3644 -- 138 2685 0.1625 0.1928 -- 99.0
X Ray Diffraction 4.3644 4.7011 -- 139 2700 0.1559 0.2303 -- 99.0
X Ray Diffraction 4.7011 5.1736 -- 140 2714 0.174 0.2154 -- 100.0
X Ray Diffraction 5.1736 5.9209 -- 139 2700 0.184 0.2048 -- 100.0
X Ray Diffraction 5.9209 7.4548 -- 151 2737 0.2193 0.2581 -- 100.0
X Ray Diffraction 7.4548 46.5124 -- 152 2680 0.2093 0.2294 -- 97.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -7.082
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.3747
Anisotropic B[2][2] -6.7244
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 13.8064
RMS Deviations
Key Refinement Restraint Deviation
f_bond_d 0.008
f_chiral_restr 0.078
f_plane_restr 0.006
f_angle_d 1.165
f_dihedral_angle_d 15.188
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 13078
Nucleic Acid Atoms 0
Heterogen Atoms 75
Solvent Atoms 682

Software

Software
Software Name Purpose
Blu-Ice data collection
MOLREP phasing
PHENIX refinement version: (phenix.refine: 1.7.3_928)
HKL-2000 data reduction
SCALEPACK data scaling