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ADC-7 in complex with boronic acid transition state inhibitor SM23
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4U0T
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 298 ADC-7 (3mg/mL) in 25% w/v polyethylene glycol (PEG) 1500, 0.1 M
succinate/phosphate/glycine
Crystal Properties Matthews coefficient Solvent content 2.18 43.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.712 α = 90 b = 81.651 β = 112.84 c = 106.415 γ = 90
Symmetry Space Group P 1 21 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 CCD RAYONIX MX-300 2014-08-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G 0.97856 APS 21-ID-G
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.95 98.073 99.6 0.09 0.997 11.9 4.1 101377
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.95 1.96 99.6 0.706 0.719 2.3 4.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 MOLECULAR REPLACEMENT THROUGHOUT 4U0T 1.95 98.07 96260 4995 99.45 0.18998 0.18708 0.195 0.24619 0.2527 RANDOM 35.77
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] -0.26 0.99 -2 1.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.597 r_dihedral_angle_3_deg 15.61 r_dihedral_angle_4_deg 13.168 r_dihedral_angle_1_deg 7.074 r_long_range_B_refined 6.23 r_long_range_B_other 6.211 r_scangle_other 4.942 r_mcangle_it 3.954 r_mcangle_other 3.954 r_scbond_it 3.381
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.597 r_dihedral_angle_3_deg 15.61 r_dihedral_angle_4_deg 13.168 r_dihedral_angle_1_deg 7.074 r_long_range_B_refined 6.23 r_long_range_B_other 6.211 r_scangle_other 4.942 r_mcangle_it 3.954 r_mcangle_other 3.954 r_scbond_it 3.381 r_scbond_other 3.38 r_mcbond_it 2.924 r_mcbond_other 2.924 r_angle_refined_deg 1.915 r_angle_other_deg 1.109 r_chiral_restr 0.147 r_bond_refined_d 0.018 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.002 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 11177 Nucleic Acid Atoms Solvent Atoms 628 Heterogen Atoms 88
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing Coot model building