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Crystal structure of ULK2 in complexed with MRT68921
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 293.15 37.5% PEG 3350, 0.1 M sodium citrate, pH 5.9, 0.15 M MgCl2, 0.1 M bis-tris, pH 5.5, 5% glycerol
Crystal Properties Matthews coefficient Solvent content 2.16 43.15
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.648 α = 90 b = 69.05 β = 97.93 c = 107.71 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 PILATUS3 2M 2018-06-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06DA 1.000 SLS X06DA
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 2.05 57.97 100 0.078 0.998 11.7 5.3 68365 32.4
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 2.05 2.12 99.9 0.657 0.842 2.4 5.3
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 2.05 57.97 65014 3331 99.95 0.19696 0.19518 0.2052 0.23085 0.2346 RANDOM 45.569
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] -0.73 -0.38 2.79 -1.88
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.759 r_dihedral_angle_4_deg 20.877 r_dihedral_angle_3_deg 15.276 r_dihedral_angle_1_deg 6.883 r_long_range_B_refined 6.569 r_long_range_B_other 6.569 r_scangle_other 3.192 r_mcangle_it 3.104 r_mcangle_other 3.104 r_scbond_it 1.982
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.759 r_dihedral_angle_4_deg 20.877 r_dihedral_angle_3_deg 15.276 r_dihedral_angle_1_deg 6.883 r_long_range_B_refined 6.569 r_long_range_B_other 6.569 r_scangle_other 3.192 r_mcangle_it 3.104 r_mcangle_other 3.104 r_scbond_it 1.982 r_scbond_other 1.982 r_mcbond_it 1.851 r_mcbond_other 1.851 r_angle_refined_deg 1.267 r_angle_other_deg 0.905 r_chiral_restr 0.071 r_bond_refined_d 0.012 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 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 8578 Nucleic Acid Atoms Solvent Atoms 357 Heterogen Atoms 201
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction Aimless data scaling PHASER phasing