X-RAY DIFFRACTION Experimental Data & Validation


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Crystallization

Crystalization Experiments
Method Vapor Diffusion Hanging Drop
pH 7.8
Temperature 298.0
Details 1.6M Na-Citrate and 50 mM Tris-Cl at pH 7.8 used as precipitant solution. DMSO was used to dissolve the inhibitor, VAPOR DIFFUSION, HANGING DROP, temperature 298K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 42.25 α = 90
b = 41.3 β = 104.09
c = 72.01 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++ -- 2010-07-27
Diffraction Radiation
Monochromator Protocol
Varimax Optics SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
ROTATING ANODE RIGAKU RUH3R 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
1.49 50 95.2 0.046 -- -- 4.7 39670 37765 -- -- --
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)
1.49 1.54 88.2 0.174 -- -- 4.5 --

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 1.491 23.864 -- 1.34 39670 37749 1873 95.44 -- 0.1645 0.1633 0.187 --
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 1.491 1.5313 -- 127 2580 0.3919 0.3932 -- 89.0
X Ray Diffraction 1.5313 1.5764 -- 138 2639 0.3042 0.3496 -- 92.0
X Ray Diffraction 1.5764 1.6272 -- 148 2692 0.2282 0.2576 -- 93.0
X Ray Diffraction 1.6272 1.6854 -- 137 2693 0.1715 0.2001 -- 94.0
X Ray Diffraction 1.6854 1.7528 -- 143 2705 0.155 0.1964 -- 95.0
X Ray Diffraction 1.7528 1.8326 -- 149 2710 0.1366 0.1805 -- 95.0
X Ray Diffraction 1.8326 1.9292 -- 136 2777 0.1398 0.1878 -- 96.0
X Ray Diffraction 1.9292 2.05 -- 146 2773 0.1436 0.1649 -- 96.0
X Ray Diffraction 2.05 2.2081 -- 147 2785 0.1443 0.1694 -- 97.0
X Ray Diffraction 2.2081 2.4302 -- 148 2830 0.1428 0.164 -- 98.0
X Ray Diffraction 2.4302 2.7814 -- 151 2856 0.1501 0.1732 -- 98.0
X Ray Diffraction 2.7814 3.5024 -- 151 2886 0.1597 0.1569 -- 99.0
X Ray Diffraction 3.5024 23.8666 -- 152 2950 0.1682 0.2026 -- 99.0
Temperature Factor Modeling
Temperature Factor Value
Anisotropic B[1][1] -0.4915
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -0.4284
Anisotropic B[2][2] -1.3432
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 1.8347
RMS Deviations
Key Refinement Restraint Deviation
f_plane_restr 0.007
f_chiral_restr 0.084
f_dihedral_angle_d 14.551
f_angle_d 1.387
f_bond_d 0.009
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 2049
Nucleic Acid Atoms 0
Heterogen Atoms 31
Solvent Atoms 184

Software

Computing
Computing Package Purpose
CrystalClear Data Collection
HKL Data Reduction (intensity integration)
HKL Data Reduction (data scaling)
phenix Structure Solution
PHENIX (phenix.refine: 1.7.2_869) Structure Refinement
Software
Software Name Purpose
pdb_extract version: 3.10 data extraction
phenix refinement
HKL data reduction