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Dibenzooxepinone inhibitor 12b in complex with p38 MAPK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293.15 100 mM MES pH 5.6-6.3
20-30 % PEG4000
25 mM BOG
Crystal Properties Matthews coefficient Solvent content 2.14 42.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.65 α = 90 b = 70.21 β = 90 c = 74.57 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 90 PIXEL DECTRIS PILATUS 6M 2016-01-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.97863 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim I (All) 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 1.8 50 100 0.062 24.88 12.9 31220
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.85 99.9 1.57 1.76 12.3
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 (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 1.8 48.72 31220 2350 99.98 0.1909 0.18773 0.1976 0.23332 0.2415 RANDOM 34.787
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] 2.7 -0.87 -1.83
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.371 r_dihedral_angle_4_deg 21.543 r_dihedral_angle_3_deg 16.444 r_long_range_B_refined 7.867 r_long_range_B_other 7.867 r_scangle_other 5.947 r_dihedral_angle_1_deg 5.554 r_mcangle_it 4.352 r_mcangle_other 4.351 r_scbond_it 4.057
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.371 r_dihedral_angle_4_deg 21.543 r_dihedral_angle_3_deg 16.444 r_long_range_B_refined 7.867 r_long_range_B_other 7.867 r_scangle_other 5.947 r_dihedral_angle_1_deg 5.554 r_mcangle_it 4.352 r_mcangle_other 4.351 r_scbond_it 4.057 r_scbond_other 4.056 r_mcbond_it 3.351 r_mcbond_other 3.345 r_angle_refined_deg 1.958 r_angle_other_deg 1.691 r_chiral_restr 0.124 r_bond_refined_d 0.02 r_gen_planes_refined 0.011 r_bond_other_d 0.005 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 2649 Nucleic Acid Atoms Solvent Atoms 134 Heterogen Atoms 84
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing