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Crystal structure of Aurora-A bound to DBL5
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 0.1M TRIS pH 8.5, 0.1M BICINE pH 8.5, 12.5% MPD, 12.5% PEG 1000, 12.5% PEG 3350, 0.03M Sodium fluoride, 0.03M Sodium bromide, 0.03M Sodium iodide.
Crystal Properties Matthews coefficient Solvent content 2.18 43.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.766 α = 90 b = 68.852 β = 90 c = 89.226 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 EIGER2 R 1M 2024-06-29 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 1.789 56.77 99.3 1 10.7 13.6 33504
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 1.79 1.82 0.3
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 1.789 54.569 33458 1671 99.25 0.197 0.1948 0.1926 0.2383 0.2369 39.823
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] 0.436 0.236 -0.672
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.209 r_dihedral_angle_6_deg 13.076 r_lrange_it 9.968 r_dihedral_angle_2_deg 8.205 r_dihedral_angle_1_deg 6.248 r_scangle_it 5.126 r_scbond_it 3.294 r_mcangle_it 2.918 r_mcbond_it 1.848 r_angle_refined_deg 1.787
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.209 r_dihedral_angle_6_deg 13.076 r_lrange_it 9.968 r_dihedral_angle_2_deg 8.205 r_dihedral_angle_1_deg 6.248 r_scangle_it 5.126 r_scbond_it 3.294 r_mcangle_it 2.918 r_mcbond_it 1.848 r_angle_refined_deg 1.787 r_nbtor_refined 0.314 r_symmetry_nbd_refined 0.238 r_nbd_refined 0.222 r_xyhbond_nbd_refined 0.177 r_symmetry_xyhbond_nbd_refined 0.161 r_chiral_restr 0.113 r_bond_refined_d 0.007 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2587 Nucleic Acid Atoms Solvent Atoms 232 Heterogen Atoms 63
Software Software Software Name Purpose REFMAC refinement xia2 data reduction DIALS data scaling MOLREP phasing