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NOTCH4 phosphopeptide binding to 14-3-3sigma
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3IQU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 0.095 M HEPES pH=7.1-7.7
0.19 M CaCl2
5% glycerol
24-29% PEG400
Crystal Properties Matthews coefficient Solvent content 2.71 54.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.064 α = 90 b = 113.004 β = 90 c = 63.269 γ = 90
Symmetry Space Group C 2 2 21
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 X 9M 2024-06-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 0.873128 ESRF ID23-2
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 1.8 66.93 82.8 0.999 16.5 9 23185
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 1.8 1.84 0.805 2.8
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.8 66.93 21991 1173 82.83 0.17129 0.16935 0.20748 0.2138 RANDOM 33.859
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] 1.03 -0.52 -0.51
RMS Deviations Key Refinement Restraint Deviation r_scbond_it 22.989 r_scbond_other 22.987 r_long_range_B_other 18.066 r_long_range_B_refined 17.981 r_scangle_other 17.823 r_dihedral_angle_3_deg 13.096 r_mcbond_it 12.241 r_mcbond_other 12.218 r_mcangle_other 10.49 r_mcangle_it 10.48
RMS Deviations Key Refinement Restraint Deviation r_scbond_it 22.989 r_scbond_other 22.987 r_long_range_B_other 18.066 r_long_range_B_refined 17.981 r_scangle_other 17.823 r_dihedral_angle_3_deg 13.096 r_mcbond_it 12.241 r_mcbond_other 12.218 r_mcangle_other 10.49 r_mcangle_it 10.48 r_dihedral_angle_1_deg 5.061 r_angle_refined_deg 1.116 r_angle_other_deg 0.455 r_chiral_restr 0.054 r_bond_refined_d 0.009 r_gen_planes_refined 0.004 r_gen_planes_other 0.001 r_bond_other_d
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1910 Nucleic Acid Atoms Solvent Atoms 122 Heterogen Atoms 5
Software Software Software Name Purpose PDB-REDO refinement autoPROC data reduction Aimless data scaling MOLREP phasing