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Crystal Structure of Human p38alpha complexed with a pyridinone compound
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 9 298 20-30% PEG3000, 10 mM CaCl2, 50 mM CHES, pH 9.0, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 2.27 45.78
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.246 α = 90 b = 74.44 β = 90 c = 77.238 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 110 CCD ADSC QUANTUM 210 crystal monochromator 2001-10-25 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 1.0 APS 17-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 2.15 50 100 0.07 0.07 29.1 5.2 21118 21118 -1.5 -3 44.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.15 2.23 98.1 0.307 0.307 3 5.2 2013
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 FOURIER SYNTHESIS THROUGHOUT 2.15 23.38 20003 1067 99.63 0.20792 0.20566 0.2016 0.25189 0.2494 RANDOM 34.235
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] -0.85 -0.8 1.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.367 r_dihedral_angle_4_deg 17.504 r_dihedral_angle_3_deg 16.828 r_dihedral_angle_1_deg 6.449 r_scangle_it 2.142 r_scbond_it 1.481 r_angle_refined_deg 1.309 r_mcangle_it 1.145 r_angle_other_deg 0.899 r_mcbond_it 0.714
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.367 r_dihedral_angle_4_deg 17.504 r_dihedral_angle_3_deg 16.828 r_dihedral_angle_1_deg 6.449 r_scangle_it 2.142 r_scbond_it 1.481 r_angle_refined_deg 1.309 r_mcangle_it 1.145 r_angle_other_deg 0.899 r_mcbond_it 0.714 r_symmetry_vdw_other 0.253 r_symmetry_vdw_refined 0.213 r_nbd_refined 0.207 r_nbd_other 0.188 r_nbtor_refined 0.184 r_xyhbond_nbd_refined 0.152 r_symmetry_hbond_refined 0.149 r_mcbond_other 0.119 r_nbtor_other 0.089 r_chiral_restr 0.076 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2746 Nucleic Acid Atoms Solvent Atoms 211 Heterogen Atoms 60
Software Software Software Name Purpose ADSC data collection REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling