X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 291.0
Details 1.9 M cesium chloride, 50% DMSO, 50 mM Tris, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 291K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 93.43 α = 90
b = 93.43 β = 90
c = 129.92 γ = 120
Symmetry
Space Group P 61 2 2

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 100
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD RAYONIX MX-225 Collimating Mirror 2010-06-25
Diffraction Radiation
Monochromator Protocol
Double Crystal Si(111) SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON BESSY BEAMLINE 14.2 1.9 BESSY 14.2

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
1.9 50 98.3 -- 0.056 -- 30.6 49334 49334 -- -- --
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)
1.9 1.93 95.9 -- 0.333 11.3 27.5 1247

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
SAD 1.9 34.34 -- 0.0 51241 48848 1292 97.74 0.1515 0.1515 0.1498 0.1844 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 1.9 1.9389 -- 137 2585 0.2543 0.2659 -- 93.0
X Ray Diffraction 1.9389 1.981 -- 128 2653 0.2139 0.2766 -- 94.0
X Ray Diffraction 1.981 2.0271 -- 125 2693 0.1773 0.2408 -- 95.0
X Ray Diffraction 2.0271 2.0778 -- 148 2662 0.1561 0.2406 -- 96.0
X Ray Diffraction 2.0778 2.134 -- 116 2707 0.141 0.1784 -- 96.0
X Ray Diffraction 2.134 2.1967 -- 134 2694 0.1389 0.2184 -- 97.0
X Ray Diffraction 2.1967 2.2676 -- 164 2720 0.1375 0.2046 -- 98.0
X Ray Diffraction 2.2676 2.3487 -- 160 2716 0.1264 0.1944 -- 98.0
X Ray Diffraction 2.3487 2.4427 -- 123 2781 0.1316 0.1675 -- 98.0
X Ray Diffraction 2.4427 2.5538 -- 139 2743 0.138 0.2081 -- 98.0
X Ray Diffraction 2.5538 2.6884 -- 143 2779 0.1441 0.2165 -- 99.0
X Ray Diffraction 2.6884 2.8568 -- 135 2776 0.1471 0.176 -- 99.0
X Ray Diffraction 2.8568 3.0772 -- 149 2782 0.1515 0.184 -- 99.0
X Ray Diffraction 3.0772 3.3866 -- 141 2791 0.1556 0.1653 -- 100.0
X Ray Diffraction 3.3866 3.8761 -- 146 2793 0.1425 0.1386 -- 100.0
X Ray Diffraction 3.8761 4.8813 -- 139 2795 0.1277 0.1674 -- 100.0
X Ray Diffraction 4.8813 34.3455 -- 166 2785 0.1754 0.1692 -- 100.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -1.2031
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] 0.0
Anisotropic B[2][2] -1.2031
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 2.4063
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.004
f_chiral_restr 0.072
f_dihedral_angle_d 12.526
f_angle_d 0.979
f_bond_d 0.017
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2423
Nucleic Acid Atoms 0
Heterogen Atoms 17
Solvent Atoms 368

Software

Computing
Computing Package Purpose
MAR345dtb Data Collection
HKL-2000 Data Reduction (intensity integration)
HKL-2000 Data Reduction (data scaling)
SHELXC, SHELXD, SHELXE Structure Solution
PHENIX (phenix.refine: 1.7_650) Structure Refinement
Software
Software Name Purpose
PHENIX version: (phenix.refine: 1.7_650) refinement
MAR345dtb data collection