X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 5
Temperature 293.0
Details 30% PEG 600, 0.1 M phosphate-citrate pH 5.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 69.51 α = 90
b = 77.28 β = 90
c = 81.45 γ = 90
Symmetry
Space Group P 21 21 21

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 77
Diffraction Detector
Detector Diffraction Type Details Collection Date
PIXEL DECTRIS PILATUS 6M -- 2012-06-17
Diffraction Radiation
Monochromator Protocol
Side scattering bent cube-root I-beam single crystal; asymmetric cut 4.965 degs SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON SSRL BEAMLINE BL11-1 0.97945 SSRL BL11-1

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
1.5 50 96.8 0.04 0.04 -- 5.6 67979 67979 -- -3.0 --
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)
1.5 1.6 83.4 0.51 0.51 2.3 4.4 --

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 1.5045 43.638 -- 2.0 -- 67979 3430 96.77 -- 0.1761 0.1745 0.2071 --
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 1.5045 1.526 -- 114 1851 0.286 0.3116 -- 68.0
X Ray Diffraction 1.526 1.5488 -- 139 2309 0.2606 0.302 -- 84.0
X Ray Diffraction 1.5488 1.573 -- 134 2430 0.2377 0.2485 -- 89.0
X Ray Diffraction 1.573 1.5987 -- 131 2571 0.2294 0.2322 -- 94.0
X Ray Diffraction 1.5987 1.6263 -- 157 2722 0.2187 0.2569 -- 99.0
X Ray Diffraction 1.6263 1.6559 -- 120 2760 0.2072 0.2651 -- 100.0
X Ray Diffraction 1.6559 1.6877 -- 169 2711 0.2013 0.2438 -- 100.0
X Ray Diffraction 1.6877 1.7222 -- 157 2730 0.1953 0.2495 -- 100.0
X Ray Diffraction 1.7222 1.7596 -- 161 2750 0.1952 0.2519 -- 100.0
X Ray Diffraction 1.7596 1.8006 -- 137 2758 0.1917 0.2263 -- 100.0
X Ray Diffraction 1.8006 1.8456 -- 149 2719 0.1888 0.2356 -- 98.0
X Ray Diffraction 1.8456 1.8955 -- 154 2739 0.1786 0.2157 -- 100.0
X Ray Diffraction 1.8955 1.9513 -- 140 2740 0.1804 0.1904 -- 100.0
X Ray Diffraction 1.9513 2.0143 -- 152 2770 0.1838 0.2338 -- 100.0
X Ray Diffraction 2.0143 2.0863 -- 127 2792 0.1736 0.2435 -- 100.0
X Ray Diffraction 2.0863 2.1698 -- 143 2754 0.1738 0.2139 -- 99.0
X Ray Diffraction 2.1698 2.2685 -- 161 2723 0.1721 0.2102 -- 98.0
X Ray Diffraction 2.2685 2.3881 -- 113 2814 0.1754 0.2236 -- 100.0
X Ray Diffraction 2.3881 2.5377 -- 164 2760 0.1811 0.2116 -- 100.0
X Ray Diffraction 2.5377 2.7336 -- 141 2801 0.1843 0.2081 -- 100.0
X Ray Diffraction 2.7336 3.0087 -- 133 2795 0.1805 0.197 -- 99.0
X Ray Diffraction 3.0087 3.4439 -- 144 2813 0.1727 0.2045 -- 99.0
X Ray Diffraction 3.4439 4.3383 -- 155 2811 0.1526 0.1787 -- 98.0
X Ray Diffraction 4.3383 43.6568 -- 135 2926 0.1477 0.1666 -- 97.0
RMS Deviations
Key Refinement Restraint Deviation
f_chiral_restr 0.089
f_plane_restr 0.007
f_bond_d 0.01
f_angle_d 1.26
f_dihedral_angle_d 13.194
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3349
Nucleic Acid Atoms 0
Heterogen Atoms 5
Solvent Atoms 457

Software

Software
Software Name Purpose
Blu-Ice data collection
PHASER phasing
PHENIX refinement version: (phenix.refine: 1.8.1_1168)
XDS data reduction
XDS data scaling