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Pathogenic mutations of human phosphorylation sites affect protein-protein interactions
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2WH0
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 19% PEG 3350, 0.35 M NaBr, 0.1 M BisTris-Propane pH 6.5
Crystal Properties Matthews coefficient Solvent content 2.97 58.65
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 123.78 α = 90 b = 123.78 β = 90 c = 250.2 γ = 120
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 6M 2022-12-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.9184 BESSY 14.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim 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 3.23 49.7 99.9 0.035 0.995 6.91 10.39 22972
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.23 3.42 0.296 0.368
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 (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 3.23 49.7 11549 608 99.93 0.23286 0.23036 0.2343 0.27937 0.2786 RANDOM 122.895
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] 15.92 15.92 -31.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.475 r_dihedral_angle_3_deg 14.191 r_dihedral_angle_4_deg 11.037 r_long_range_B_other 5.065 r_long_range_B_refined 5.062 r_dihedral_angle_1_deg 4.48 r_mcangle_other 3.098 r_mcangle_it 3.097 r_scangle_other 2.444 r_mcbond_it 1.766
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.475 r_dihedral_angle_3_deg 14.191 r_dihedral_angle_4_deg 11.037 r_long_range_B_other 5.065 r_long_range_B_refined 5.062 r_dihedral_angle_1_deg 4.48 r_mcangle_other 3.098 r_mcangle_it 3.097 r_scangle_other 2.444 r_mcbond_it 1.766 r_mcbond_other 1.758 r_scbond_it 1.358 r_scbond_other 1.354 r_angle_refined_deg 1.132 r_angle_other_deg 1.045 r_chiral_restr 0.035 r_bond_refined_d 0.002 r_gen_planes_refined 0.002 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 3908 Nucleic Acid Atoms Solvent Atoms 12 Heterogen Atoms 10
Software Software Software Name Purpose REFMAC refinement XSCALE data scaling XDS data reduction PHASER phasing