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Crystal Structure of Human Dual Specificity Protein Kinase (TTK) in complex with a pyrolo-pyridin ligand
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3CEK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5.6 277 40% PEG300, 0.25M NaCl, 0.1M Na/K phosphate pH 5.6, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.13 60.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.969 α = 90 b = 114.686 β = 90 c = 111.174 γ = 90
Symmetry Space Group I 2 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARMOSAIC 225 mm CCD 2008-05-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.97642 SLS X10SA
Data Collection Overall ID # 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 2.74 60.302 99.1 0.073 0.073 10.3 3.7 12195 12085
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.74 2.89 99.9 0.647 0.647 2 3.7 1742
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3CEK 2.74 41.4 12273 12083 598 98.45 0.206 0.206 0.204 0.2103 0.239 0.2443 RANDOM 46.505
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] -5.41 6.89 -1.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.594 r_dihedral_angle_4_deg 26.734 r_dihedral_angle_3_deg 18.049 r_dihedral_angle_1_deg 6.74 r_scangle_it 2.446 r_angle_refined_deg 1.58 r_scbond_it 1.472 r_angle_other_deg 0.92 r_mcangle_it 0.897 r_mcbond_it 0.467
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.594 r_dihedral_angle_4_deg 26.734 r_dihedral_angle_3_deg 18.049 r_dihedral_angle_1_deg 6.74 r_scangle_it 2.446 r_angle_refined_deg 1.58 r_scbond_it 1.472 r_angle_other_deg 0.92 r_mcangle_it 0.897 r_mcbond_it 0.467 r_chiral_restr 0.084 r_mcbond_other 0.084 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1987 Nucleic Acid Atoms Solvent Atoms 5 Heterogen Atoms 67
Software Software Software Name Purpose SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection MOSFLM data reduction