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Structure-based Design, Synthesis, and Biological Evaluation of Imidazo[1,2-b]pyridazine-based p38 MAP Kinase Inhibitors
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.4 293 18.% PEG 3350, 0.06M MES, 0.04M MES_Na
Crystal Properties Matthews coefficient Solvent content 2.16 43.13
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 69.813 α = 90 b = 69.974 β = 90 c = 73.878 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 CCD ADSC QUANTUM 315r 2007-05-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.3 0.9700 ALS 5.0.3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.6 50.7 95.5 0.068 11.6 4.3 46461
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.6 1.64 60 0.428 2.6
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 MOLECULAR REPLACEMENT THROUGHOUT 1.6 50 44054 2346 95.37 0.20221 0.20033 0.2082 0.23712 0.2424 RANDOM 22.054
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] -0.62 1.46 -0.84
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.357 r_dihedral_angle_4_deg 17.971 r_dihedral_angle_3_deg 12.533 r_long_range_B_refined 5.656 r_long_range_B_other 5.369 r_dihedral_angle_1_deg 5.073 r_angle_refined_deg 1.322 r_mcangle_it 0.975 r_mcangle_other 0.975 r_scangle_other 0.924
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.357 r_dihedral_angle_4_deg 17.971 r_dihedral_angle_3_deg 12.533 r_long_range_B_refined 5.656 r_long_range_B_other 5.369 r_dihedral_angle_1_deg 5.073 r_angle_refined_deg 1.322 r_mcangle_it 0.975 r_mcangle_other 0.975 r_scangle_other 0.924 r_angle_other_deg 0.885 r_scbond_it 0.567 r_mcbond_it 0.542 r_mcbond_other 0.542 r_scbond_other 0.534 r_chiral_restr 0.074 r_bond_refined_d 0.009 r_gen_planes_refined 0.006 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 2712 Nucleic Acid Atoms Solvent Atoms 380 Heterogen Atoms 34
Software Software Software Name Purpose REFMAC refinement HKL-2000 data collection HKL-2000 data scaling MOLREP phasing PDB_EXTRACT data extraction HKL-2000 data reduction