X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7
Temperature 292.0
Details 20% PEG 4000, 80mM sodium acetate, 6.4% isopropanol, pH 7, VAPOR DIFFUSION, SITTING DROP, temperature 292K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 150 α = 90
b = 150 β = 90
c = 233 γ = 120
Symmetry
Space Group P 32 2 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MAR CCD 165 mm -- 2010-11-29
Diffraction Radiation
Monochromator Protocol
YALE MIRRORS SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON ESRF BEAMLINE ID23-2 0.87 ESRF ID23-2

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
3.2 20 99.4 -- 0.124 -- 4.3 50651 50372 0.0 -3.0 34.5
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)
3.2 3.28 100.0 0.449 -- 3.4 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 3.2 19.999 -- 1.99 50367 50367 2519 99.94 -- 0.1769 0.1743 0.2256 --
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 3.2 3.2613 -- 138 2617 0.2295 0.3052 -- 100.0
X Ray Diffraction 3.2613 3.3276 -- 137 2611 0.2288 0.2634 -- 100.0
X Ray Diffraction 3.3276 3.3996 -- 138 2624 0.2149 0.2765 -- 100.0
X Ray Diffraction 3.3996 3.4783 -- 139 2634 0.2117 0.281 -- 100.0
X Ray Diffraction 3.4783 3.5648 -- 138 2626 0.1994 0.2629 -- 100.0
X Ray Diffraction 3.5648 3.6606 -- 139 2643 0.1952 0.2588 -- 100.0
X Ray Diffraction 3.6606 3.7676 -- 138 2624 0.1805 0.2745 -- 100.0
X Ray Diffraction 3.7676 3.8884 -- 139 2627 0.1714 0.2077 -- 100.0
X Ray Diffraction 3.8884 4.0263 -- 138 2634 0.1656 0.2239 -- 100.0
X Ray Diffraction 4.0263 4.1861 -- 141 2680 0.1571 0.2217 -- 100.0
X Ray Diffraction 4.1861 4.3747 -- 139 2636 0.1526 0.2126 -- 100.0
X Ray Diffraction 4.3747 4.6027 -- 140 2657 0.1454 0.1924 -- 100.0
X Ray Diffraction 4.6027 4.8871 -- 139 2654 0.1505 0.1935 -- 100.0
X Ray Diffraction 4.8871 5.2581 -- 141 2663 0.1622 0.2134 -- 100.0
X Ray Diffraction 5.2581 5.7757 -- 142 2700 0.1711 0.1965 -- 100.0
X Ray Diffraction 5.7757 6.5852 -- 141 2688 0.1843 0.2432 -- 100.0
X Ray Diffraction 6.5852 8.2003 -- 143 2718 0.1785 0.2165 -- 100.0
X Ray Diffraction 8.2003 19.9998 -- 149 2812 0.1511 0.171 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -0.213
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -0.213
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 0.426
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.002
f_chiral_restr 0.047
f_dihedral_angle_d 12.485
f_angle_d 0.629
f_bond_d 0.002
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 23148
Nucleic Acid Atoms 0
Heterogen Atoms 0
Solvent Atoms 4

Software

Computing
Computing Package Purpose
ADSC Quantum Data Collection
XDS Data Reduction (intensity integration)
XSCALE Data Reduction (data scaling)
MOLREP Structure Solution
PHENIX (phenix.refine: 1.8_1069) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7.3_928) refinement
MOLREP model building
ADSC version: Quantum data collection