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Adhiron-mediated Identification of a Novel and Selective Allosteric Pocket in Aurora Kinase A
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5G1X
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 291.15 Molecular Dimensions (Morpheous-Fusion)Condition E6
90 mM LiNaK; 1.2 % Cholic acid derivative; 0.1 M Buffer System 2 (0.5M Sodium HEPES; 0.5M MOPS
(acid)); 7.5pH; 30 % Precipitant Mix 1 (40% v/v PEG 500 MME; 20 % w/v
PEG 20000)
Crystal Properties Matthews coefficient Solvent content 2.56 51.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.92 α = 90 b = 88.92 β = 90 c = 100.05 γ = 120
Symmetry Space Group P 31 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 193 PIXEL DECTRIS PILATUS 6M 2024-01-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 0.6199 Diamond I24
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 2.1 41.96 100 1 13.8 19.7 27145
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 2.1 2.14 98.6 0.9
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 2.1 40.662 27145 1299 99.853 0.193 0.1908 0.1929 0.2319 0.1939 42.242
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] -0.253 -0.127 -0.253 0.821
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.496 r_dihedral_angle_3_deg 13.905 r_dihedral_angle_2_deg 10.835 r_lrange_other 9.433 r_lrange_it 9.431 r_scangle_it 7.517 r_scangle_other 7.515 r_dihedral_angle_1_deg 6.623 r_mcangle_it 5.391 r_mcangle_other 5.39
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 14.496 r_dihedral_angle_3_deg 13.905 r_dihedral_angle_2_deg 10.835 r_lrange_other 9.433 r_lrange_it 9.431 r_scangle_it 7.517 r_scangle_other 7.515 r_dihedral_angle_1_deg 6.623 r_mcangle_it 5.391 r_mcangle_other 5.39 r_scbond_it 5.035 r_scbond_other 5.034 r_mcbond_it 3.821 r_mcbond_other 3.817 r_angle_refined_deg 1.745 r_dihedral_angle_other_2_deg 1.126 r_angle_other_deg 0.588 r_nbd_other 0.276 r_nbd_refined 0.226 r_symmetry_nbd_other 0.207 r_nbtor_refined 0.186 r_xyhbond_nbd_refined 0.16 r_symmetry_xyhbond_nbd_refined 0.126 r_symmetry_nbd_refined 0.12 r_symmetry_nbtor_other 0.086 r_chiral_restr 0.081 r_bond_refined_d 0.008 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2732 Nucleic Acid Atoms Solvent Atoms 95 Heterogen Atoms 66
Software Software Software Name Purpose REFMAC refinement xia2 data reduction xia2 data scaling PHASER phasing