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Crystal structure of Aurora-A bound to DBS5
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 0.06M Divalents cation 1, 2.5% Cryo-polyol, 0.1M Buffer system 3, 30% Precipitant mix 1
Crystal Properties Matthews coefficient Solvent content 2.71 54.66
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 87.09 α = 90 b = 87.09 β = 90 c = 215.26 γ = 120
Symmetry Space Group P 32 2 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 EIGER2 X 16M 2024-12-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 Diamond I03
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 2.23 71.67 92.4 1 13.9 16 41554
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 2.23 2.41 0.7
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 2.28 71.67 41503 2155 94.152 0.192 0.19 0.1972 0.2313 0.2368 69.528
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] -1.21 -0.605 -1.21 3.925
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.547 r_dihedral_angle_6_deg 13.526 r_lrange_other 10.338 r_lrange_it 10.328 r_scangle_it 8.512 r_scangle_other 8.511 r_dihedral_angle_2_deg 7.714 r_dihedral_angle_1_deg 6.3 r_mcangle_it 6.285 r_mcangle_other 6.285
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 13.547 r_dihedral_angle_6_deg 13.526 r_lrange_other 10.338 r_lrange_it 10.328 r_scangle_it 8.512 r_scangle_other 8.511 r_dihedral_angle_2_deg 7.714 r_dihedral_angle_1_deg 6.3 r_mcangle_it 6.285 r_mcangle_other 6.285 r_scbond_it 5.693 r_scbond_other 5.692 r_mcbond_it 4.452 r_mcbond_other 4.448 r_angle_refined_deg 1.323 r_angle_other_deg 0.458 r_dihedral_angle_other_2_deg 0.437 r_symmetry_nbd_refined 0.395 r_nbd_refined 0.208 r_nbd_other 0.204 r_symmetry_xyhbond_nbd_refined 0.198 r_symmetry_nbd_other 0.188 r_nbtor_refined 0.178 r_xyhbond_nbd_refined 0.159 r_ncsr_local_group_2 0.104 r_symmetry_nbtor_other 0.08 r_ncsr_local_group_1 0.069 r_chiral_restr 0.062 r_symmetry_xyhbond_nbd_other 0.042 r_bond_refined_d 0.005 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5606 Nucleic Acid Atoms Solvent Atoms 241 Heterogen Atoms 68
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction STARANISO data scaling MOLREP phasing