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Crystal structure of ULK1 in complexed with PF-03814735
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, SITTING DROP 5.6 293.15 2.8 M Ammonium sulfate, 0.1 M citrate, pH 5.6
Crystal Properties Matthews coefficient Solvent content 2.36 47.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.241 α = 90 b = 74.241 β = 90 c = 222.31 γ = 90
Symmetry Space Group P 43 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 EIGER X 16M 2018-09-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 1.000 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.75 47.47 100 0.079 0.997 14.4 9.2 63838 23
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.75 1.81 100 0.777 0.806 2.7 9.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 4WNO 1.75 47.47 60554 3177 99.98 0.17146 0.17013 0.1813 0.19651 0.2083 RANDOM 31.23
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] 0.41 0.41 -0.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.445 r_dihedral_angle_4_deg 18.879 r_dihedral_angle_3_deg 13.259 r_long_range_B_refined 6.529 r_long_range_B_other 6.528 r_dihedral_angle_1_deg 6.366 r_scangle_other 4.411 r_scbond_it 2.859 r_scbond_other 2.859 r_mcangle_it 2.549
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.445 r_dihedral_angle_4_deg 18.879 r_dihedral_angle_3_deg 13.259 r_long_range_B_refined 6.529 r_long_range_B_other 6.528 r_dihedral_angle_1_deg 6.366 r_scangle_other 4.411 r_scbond_it 2.859 r_scbond_other 2.859 r_mcangle_it 2.549 r_mcangle_other 2.529 r_mcbond_it 1.688 r_mcbond_other 1.665 r_angle_refined_deg 1.541 r_angle_other_deg 1.414 r_chiral_restr 0.094 r_bond_refined_d 0.015 r_gen_planes_refined 0.011 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4375 Nucleic Acid Atoms Solvent Atoms 385 Heterogen Atoms 272
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing