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Kinase domain of wild type human ULK1 in complex with compound CCT241533
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4WNO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 277.15 0.3-0.8 M NaAcetate pH 6, 20-26% w/v PEG3350
Crystal Properties Matthews coefficient Solvent content 3.62 65.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 95.8 α = 90 b = 111.67 β = 90 c = 84.5 γ = 90
Symmetry Space Group P 21 21 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 PIXEL DECTRIS PILATUS 6M 2022-05-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ELETTRA BEAMLINE 11.2C 0.9999 ELETTRA 11.2C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.019 67.383 100 0.999 16.9 11.6 60175
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.019 2.054 100 0.789 2.2 11.4
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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.019 67.383 60175 3109 99.927 0.186 0.1839 0.1849 0.2269 0.2274 45.019
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] 2.644 -1.843 -0.801
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 17.078 r_dihedral_angle_3_deg 15.453 r_lrange_other 9.235 r_lrange_it 9.232 r_dihedral_angle_2_deg 8.614 r_scangle_it 7.908 r_scangle_other 7.907 r_dihedral_angle_1_deg 6.03 r_scbond_it 5.43 r_scbond_other 5.429
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 17.078 r_dihedral_angle_3_deg 15.453 r_lrange_other 9.235 r_lrange_it 9.232 r_dihedral_angle_2_deg 8.614 r_scangle_it 7.908 r_scangle_other 7.907 r_dihedral_angle_1_deg 6.03 r_scbond_it 5.43 r_scbond_other 5.429 r_mcangle_it 4.98 r_mcangle_other 4.979 r_mcbond_it 3.96 r_mcbond_other 3.948 r_angle_refined_deg 1.47 r_angle_other_deg 0.498 r_nbd_other 0.22 r_nbd_refined 0.218 r_xyhbond_nbd_refined 0.205 r_symmetry_nbd_other 0.198 r_nbtor_refined 0.188 r_symmetry_nbd_refined 0.15 r_symmetry_xyhbond_nbd_refined 0.144 r_ncsr_local_group_1 0.102 r_symmetry_nbtor_other 0.083 r_chiral_restr 0.073 r_symmetry_xyhbond_nbd_other 0.023 r_chiral_restr_other 0.019 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4284 Nucleic Acid Atoms Solvent Atoms 291 Heterogen Atoms 70
Software Software Software Name Purpose REFMAC refinement XDS data reduction pointless data scaling MOLREP phasing