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Structure of the S1-cleaved mouse Notch1 Negative Regulatory Region (NRR)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3ETO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 2.0 M sodium chloride, 0.1 M sodium acetate pH 4.6
Crystal Properties Matthews coefficient Solvent content 2.77 55.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.724 α = 90 b = 65.724 β = 90 c = 161.683 γ = 90
Symmetry Space Group P 42 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 EIGER2 XE 16M 2020-02-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 1.06998 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim 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 2.065 60.886 91.5 0.105 0.109 0.03 0.999 14.6 12.9 15144
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.065 2.296 64.6 1.431 1.496 0.43 0.77 11.8
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3ETO 2.065 60.885 15143 795 66.922 0.198 0.196 0.1967 0.2375 0.2377 57.792
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] -0.597 -0.597 1.194
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.74 r_dihedral_angle_4_deg 28.636 r_dihedral_angle_3_deg 15.268 r_dihedral_angle_1_deg 7.389 r_lrange_it 6.218 r_scangle_it 3.461 r_mcangle_it 2.72 r_scbond_it 2.196 r_mcbond_it 1.623 r_angle_refined_deg 1.501
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.74 r_dihedral_angle_4_deg 28.636 r_dihedral_angle_3_deg 15.268 r_dihedral_angle_1_deg 7.389 r_lrange_it 6.218 r_scangle_it 3.461 r_mcangle_it 2.72 r_scbond_it 2.196 r_mcbond_it 1.623 r_angle_refined_deg 1.501 r_nbtor_refined 0.317 r_nbd_refined 0.235 r_symmetry_nbd_refined 0.2 r_symmetry_xyhbond_nbd_refined 0.149 r_xyhbond_nbd_refined 0.142 r_metal_ion_refined 0.129 r_chiral_restr 0.104 r_gen_planes_refined 0.007 r_bond_refined_d 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1796 Nucleic Acid Atoms Solvent Atoms 77 Heterogen Atoms 31
Software Software Software Name Purpose REFMAC refinement MOLREP phasing STARANISO data scaling Aimless data scaling XDS data reduction autoPROC data processing