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Crystal structure of DJ-101 in complex with tubulin protein
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 6% poly(ethylene glycol) 4000, 8% glycerol,
0.1 M Mes, 30 mM CaCl2 and 30 mM MgCl2 (pH 6.7)
Crystal Properties Matthews coefficient Solvent content 2.89 57.37
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 105.199 α = 90 b = 157.029 β = 90 c = 182.576 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 PSI PILATUS 6M 2015-12-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL19U1 0.97853 SSRF BL19U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 2.8 50 100 19.3 6.7 75002
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 2.8 50 71085 3805 99.78 0.21637 0.21422 0.2159 0.25623 0.2547 RANDOM 55.723
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] 1.65 0.15 -1.8
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.064 r_dihedral_angle_3_deg 14.346 r_dihedral_angle_4_deg 13.657 r_dihedral_angle_1_deg 5.717 r_long_range_B_refined 4.861 r_long_range_B_other 4.764 r_mcangle_it 3.011 r_mcangle_other 3.011 r_scangle_other 2.658 r_mcbond_it 1.728
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.064 r_dihedral_angle_3_deg 14.346 r_dihedral_angle_4_deg 13.657 r_dihedral_angle_1_deg 5.717 r_long_range_B_refined 4.861 r_long_range_B_other 4.764 r_mcangle_it 3.011 r_mcangle_other 3.011 r_scangle_other 2.658 r_mcbond_it 1.728 r_mcbond_other 1.728 r_scbond_it 1.485 r_scbond_other 1.485 r_angle_refined_deg 1.139 r_angle_other_deg 0.888 r_chiral_restr 0.062 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 17256 Nucleic Acid Atoms Solvent Atoms 22 Heterogen Atoms 239
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling MOLREP phasing