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Crystal structure of human Mps1 catalytic domain T686A mutant in complex with SP600125 inhibitor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2ZMC PDB ENTRY 2ZMC
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 2.34 47.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.6 α = 90 b = 105.17 β = 90 c = 111.97 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 94 IMAGE PLATE RIGAKU RAXIS IV++ 2007-09-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 1.5418
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 2.88 59.76 99.8 0.107 0.072 11.7 3.1 9729 1 84.702
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 2.88 3.04 100 0.798 0.535 1.5 3.1 1397
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 2ZMC 2.88 40.49 9729 9261 468 99.61 0.22314 0.22122 0.2259 0.2605 0.2737 RANDOM 50.441
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] -3.78 0.73 3.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.778 r_dihedral_angle_4_deg 23.639 r_dihedral_angle_3_deg 14.003 r_dihedral_angle_1_deg 5.537 r_angle_refined_deg 1.023 r_angle_other_deg 0.786 r_scangle_it 0.537 r_mcangle_it 0.373 r_scbond_it 0.354 r_mcbond_it 0.332
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.778 r_dihedral_angle_4_deg 23.639 r_dihedral_angle_3_deg 14.003 r_dihedral_angle_1_deg 5.537 r_angle_refined_deg 1.023 r_angle_other_deg 0.786 r_scangle_it 0.537 r_mcangle_it 0.373 r_scbond_it 0.354 r_mcbond_it 0.332 r_symmetry_vdw_refined 0.2 r_nbd_refined 0.194 r_symmetry_vdw_other 0.183 r_nbtor_refined 0.174 r_nbd_other 0.165 r_symmetry_hbond_refined 0.131 r_xyhbond_nbd_refined 0.122 r_nbtor_other 0.082 r_chiral_restr 0.062 r_mcbond_other 0.03 r_bond_refined_d 0.006 r_gen_planes_refined 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2111 Nucleic Acid Atoms Solvent Atoms 26 Heterogen Atoms 33
Software Software Software Name Purpose REFMAC refinement CrystalClear data collection MOSFLM data reduction SCALA data scaling MOLREP phasing