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Crystal structure of human dual specificity protein kinase (TTK)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2QKR PDB entries 2QKR, 2H9V, 2F2U, 2EUE experimental model PDB 2H9V PDB entries 2QKR, 2H9V, 2F2U, 2EUE experimental model PDB 2F2U PDB entries 2QKR, 2H9V, 2F2U, 2EUE experimental model PDB 2EUE PDB entries 2QKR, 2H9V, 2F2U, 2EUE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.4 277 55% PEG 300, 0.25M NaCl, Na/K Phosphate pH 6.4, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.91 57.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.846 α = 90 b = 107.467 β = 90 c = 111.872 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 2007-12-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.97912 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 2.3 40.456 99.8 0.084 0.084 17.1 10.8 19092 19054
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.3 2.42 99.1 0.898 2.5 9.3 2722
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB entries 2QKR, 2H9V, 2F2U, 2EUE 2.3 34 19053 19053 980 99.85 0.188 0.188 0.184 0.25 0.2952 RANDOM 44.156
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] -2.35 2.8 -0.45
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.339 r_dihedral_angle_4_deg 25.939 r_dihedral_angle_3_deg 15.097 r_scangle_it 8.408 r_dihedral_angle_1_deg 6.465 r_scbond_it 6.184 r_mcangle_it 3.771 r_mcbond_it 2.266 r_angle_refined_deg 1.472 r_angle_other_deg 0.946
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.339 r_dihedral_angle_4_deg 25.939 r_dihedral_angle_3_deg 15.097 r_scangle_it 8.408 r_dihedral_angle_1_deg 6.465 r_scbond_it 6.184 r_mcangle_it 3.771 r_mcbond_it 2.266 r_angle_refined_deg 1.472 r_angle_other_deg 0.946 r_mcbond_other 0.592 r_chiral_restr 0.091 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2031 Nucleic Acid Atoms Solvent Atoms 69 Heterogen Atoms 32
Software Software Software Name Purpose SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection MOSFLM data reduction