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Wee1-like kinase in complex wirh MIPS-54859
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model 1X8B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293.15 20% w/v PEG 8000, 0.2 M Magnesium acetate tetrahydrate, 0.1M Sodium cacodylate, pH 6.5
Crystal Properties Matthews coefficient Solvent content 2.36 47.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 50.076 α = 90 b = 68.676 β = 91.475 c = 88.557 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS EIGER2 XE 16M 2025-03-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.953738 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) 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 2.67 68.69 100 0.296 0.319 0.119 0.983 6.6 7.1 17269
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.67 2.72 100 2.579 2.772 1.01 0.244 7.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 2.67 54.322 17244 818 99.896 0.215 0.2123 0.2137 0.264 0.2639 RANDOM 52.568
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] 0.514 3.037 -0.518 -0.153
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.257 r_dihedral_angle_6_deg 14.458 r_lrange_it 11.508 r_lrange_other 11.507 r_mcangle_it 8.465 r_mcangle_other 8.463 r_scangle_it 7.746 r_scangle_other 7.744 r_dihedral_angle_1_deg 7.163 r_dihedral_angle_2_deg 6.607
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 17.257 r_dihedral_angle_6_deg 14.458 r_lrange_it 11.508 r_lrange_other 11.507 r_mcangle_it 8.465 r_mcangle_other 8.463 r_scangle_it 7.746 r_scangle_other 7.744 r_dihedral_angle_1_deg 7.163 r_dihedral_angle_2_deg 6.607 r_mcbond_it 5.345 r_mcbond_other 5.342 r_scbond_it 4.868 r_scbond_other 4.867 r_angle_refined_deg 1.513 r_angle_other_deg 0.541 r_nbd_other 0.245 r_symmetry_nbd_refined 0.241 r_nbd_refined 0.235 r_symmetry_nbd_other 0.218 r_nbtor_refined 0.188 r_xyhbond_nbd_refined 0.182 r_symmetry_nbtor_other 0.083 r_chiral_restr 0.068 r_symmetry_xyhbond_nbd_other 0.049 r_bond_refined_d 0.009 r_gen_planes_refined 0.006 r_symmetry_xyhbond_nbd_refined 0.004 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3939 Nucleic Acid Atoms Solvent Atoms 59 Heterogen Atoms 84
Software Software Software Name Purpose REFMAC refinement DIALS data scaling DIALS data reduction MOLREP phasing PDB_EXTRACT data extraction