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Crystal structure of Aurora-A bound to DBS1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 4M Sodium nitrate, 0.1M Tris pH 8.5
Crystal Properties Matthews coefficient Solvent content 2.39 48.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.61 α = 90 b = 77.42 β = 90 c = 84.24 γ = 90
Symmetry Space Group P 21 21 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 EIGER X 16M 2024-10-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9537 Diamond I04
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 2 51.27 98.9 1 13.8 13.6 28883
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 2 2.03 0.4
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2 51.267 28848 1300 98.771 0.189 0.187 0.1994 0.228 0.2374 57.563
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] 2.639 -0.7 -1.938
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 13.242 r_dihedral_angle_3_deg 12.764 r_lrange_other 8.857 r_lrange_it 8.85 r_dihedral_angle_2_deg 7.047 r_scangle_it 6.969 r_scangle_other 6.967 r_dihedral_angle_1_deg 5.776 r_scbond_it 4.341 r_scbond_other 4.341
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 13.242 r_dihedral_angle_3_deg 12.764 r_lrange_other 8.857 r_lrange_it 8.85 r_dihedral_angle_2_deg 7.047 r_scangle_it 6.969 r_scangle_other 6.967 r_dihedral_angle_1_deg 5.776 r_scbond_it 4.341 r_scbond_other 4.341 r_mcangle_it 4.185 r_mcangle_other 4.184 r_mcbond_it 2.835 r_mcbond_other 2.835 r_angle_refined_deg 1.191 r_dihedral_angle_other_2_deg 0.461 r_angle_other_deg 0.395 r_nbd_refined 0.213 r_symmetry_nbd_other 0.184 r_symmetry_nbd_refined 0.183 r_nbtor_refined 0.175 r_xyhbond_nbd_refined 0.174 r_nbd_other 0.172 r_symmetry_xyhbond_nbd_refined 0.13 r_symmetry_nbtor_other 0.075 r_chiral_restr 0.054 r_bond_refined_d 0.004 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2935 Nucleic Acid Atoms Solvent Atoms 84 Heterogen Atoms 27
Software Software Software Name Purpose REFMAC refinement xia2 data reduction DIALS data scaling MOLREP phasing REFMAC refinement PDB-REDO refinement