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Crystal structure of human mitotic checkpoint kinase Mps1 catalytic domain apo form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1PHK PDB ENTRY 1PHK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 298 PEG300, HEPES, pH6.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.28 46.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.43 α = 90 b = 103.94 β = 90 c = 110.55 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 ADSC QUANTUM 315 mirrors 2007-11-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9200 Diamond I03
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 3.14 59.44 96.4 0.123 0.056 13.1 5.2 7029 1 84.992
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 3.14 3.31 96.4 0.636 0.283 2.8 5.3 1030
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 (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 PDB ENTRY 1PHK 3.14 59.4 7029 6697 332 95.21 0.22603 0.22279 0.2295 0.28902 0.2906 RANDOM 58.85
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] -5.29 -2.62 7.92
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.752 r_dihedral_angle_4_deg 22.698 r_dihedral_angle_3_deg 15.596 r_dihedral_angle_1_deg 6.375 r_angle_refined_deg 1.076 r_angle_other_deg 0.775 r_scangle_it 0.66 r_scbond_it 0.45 r_mcangle_it 0.418 r_mcbond_it 0.375
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.752 r_dihedral_angle_4_deg 22.698 r_dihedral_angle_3_deg 15.596 r_dihedral_angle_1_deg 6.375 r_angle_refined_deg 1.076 r_angle_other_deg 0.775 r_scangle_it 0.66 r_scbond_it 0.45 r_mcangle_it 0.418 r_mcbond_it 0.375 r_symmetry_hbond_refined 0.293 r_symmetry_vdw_refined 0.229 r_nbd_refined 0.212 r_symmetry_vdw_other 0.192 r_nbtor_refined 0.18 r_nbd_other 0.174 r_xyhbond_nbd_refined 0.102 r_nbtor_other 0.084 r_chiral_restr 0.06 r_mcbond_other 0.031 r_bond_refined_d 0.008 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2121 Nucleic Acid Atoms Solvent Atoms 4 Heterogen Atoms 16
Software Software Software Name Purpose REFMAC refinement ADSC data collection MOSFLM data reduction SCALA data scaling MOLREP phasing