4MF0

ITK kinase domain in complex with benzothiazole inhibitor compound 12a (1S,2S)-2-{4-[(DIMETHYLAMINO)METHYL]PHENYL}-N-[6-(PYRIDIN-3-YL)-1,3-BENZOTHIAZOL-2-YL]CYCLOPROPANECARBOXAMIDE (12a)


X-RAY DIFFRACTION Experimental Data & Validation


X-ray Experimental Help

Crystallization

Crystalization Experiments
Method Vapor Diffusion Sitting Drop
pH 7.5
Temperature 292.0
Details potassium thiocyanate, PEG3350, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 292K

Crystal Data

Unit Cell
Length (Å) Angle (°)
a = 40.15 α = 90
b = 155.49 β = 93.74
c = 47.26 γ = 90
Symmetry
Space Group P 1 21 1

Diffraction

Diffraction Experiment
ID # Data Collection Temperature
1 110
Diffraction Detector
Detector Diffraction Type Details Collection Date
CCD MARMOSAIC 300 mm CCD -- 2010-08-16
Diffraction Radiation
Monochromator Protocol
diamond [111] SINGLE WAVELENGTH
Diffraction Detector Source
Source Type Wavelength List Synchrotron Site Beamline
SYNCHROTRON APS BEAMLINE 21-ID-G 0.98 APS 21-ID-G

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
2.67 50 99.9 -- 0.088 -- 3.4 16381 16341 0.0 -3.0 65.42

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 2.67 47.16 -- 0.0 16381 16341 829 99.66 0.215 0.2149 0.212 0.2677 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 2.67 2.85 -- 165 2790 0.246 0.2737 -- 99.66
Temperature Factor Modeling
Temperature Factor Value
Mean Isotropic B 54.78
Anisotropic B[1][1] -3.6206
Anisotropic B[1][2] 0.0
Anisotropic B[1][3] -5.9186
Anisotropic B[2][2] -11.0822
Anisotropic B[2][3] 0.0
Anisotropic B[3][3] 14.7028
RMS Deviations
Key Refinement Restraint Deviation
t_bond_d 0.008
t_other_torsion 20.29
t_omega_torsion 2.46
t_angle_deg 1.06
Coordinate Error
Parameter Value
Luzzati ESD (Observed) 0.371
Number of Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms Numbers
Protein Atoms 3817
Nucleic Acid Atoms 0
Heterogen Atoms 62
Solvent Atoms 25

Software

Software
Software Name Purpose
MAR345dtb data collection
PHASER phasing
BUSTER refinement version: 2.11.4
HKL-2000 data reduction
SCALEPACK data scaling