X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 5.5
Temperature 289.0
Details 8.5% PEG 6000, 0.1M MES, 1mM DTT, 1mM EDTA, 3% DMSO, 10% Glycerol, pH 5.5, VAPOR DIFFUSION, HANGING DROP, temperature 289K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 52.27 α = 90
b = 96.4 β = 103.26
c = 67.7 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 RIGAKU RAXIS IV -- 2009-10-12
Diffraction Radiation
Monochromator Protocol
YALE MIRRORS SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU FR-E+ SUPERBRIGHT 1.5418 -- --

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
1.95 27.2 100.0 -- -- -- -- -- 47614 2.0 2.0 25.39
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)
1.95 2.06 100.0 -- -- -- -- --

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 1.95 26.276 -- 1.41 -- 47564 1999 99.93 0.218 0.2057 0.2045 0.232 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 1.95 1.9988 -- 143 3265 0.2484 0.2839 -- 100.0
X Ray Diffraction 1.9988 2.0528 -- 141 3217 0.2287 0.2774 -- 100.0
X Ray Diffraction 2.0528 2.1132 -- 143 3244 0.2122 0.2433 -- 100.0
X Ray Diffraction 2.1132 2.1813 -- 143 3257 0.2092 0.2518 -- 100.0
X Ray Diffraction 2.1813 2.2593 -- 142 3246 0.2093 0.2955 -- 100.0
X Ray Diffraction 2.2593 2.3497 -- 143 3238 0.2107 0.2324 -- 100.0
X Ray Diffraction 2.3497 2.4565 -- 142 3238 0.2153 0.2294 -- 100.0
X Ray Diffraction 2.4565 2.5859 -- 142 3252 0.2148 0.246 -- 100.0
X Ray Diffraction 2.5859 2.7478 -- 143 3268 0.2233 0.2738 -- 100.0
X Ray Diffraction 2.7478 2.9597 -- 142 3240 0.2175 0.2562 -- 100.0
X Ray Diffraction 2.9597 3.257 -- 144 3271 0.2128 0.2193 -- 100.0
X Ray Diffraction 3.257 3.7272 -- 142 3254 0.2005 0.2294 -- 100.0
X Ray Diffraction 3.7272 4.6915 -- 144 3276 0.1751 0.2106 -- 100.0
X Ray Diffraction 4.6915 26.2788 -- 145 3299 0.1956 0.1923 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 30.8581
Anisotropic B[1][1] -0.0079
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 8.2318
Anisotropic B[2][2] 4.567
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] -4.5591
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.075
f_dihedral_angle_d 14.736
f_angle_d 1.203
f_bond_d 0.007
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 4781
Nucleic Acid Atoms 0
Heterogen Atoms 12
Solvent Atoms 312

Software

Computing
Computing Package Purpose
CrystalClear Data Collection
MOSFLM Data Reduction (intensity integration)
SCALA Data Reduction (data scaling)
PHASES Structure Solution
PHENIX (phenix.refine: 1.6.4_486) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.6.4_486) refinement
PHASES model building
CrystalClear data collection