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The structure of p38beta C162S in complex with a dihydroquinazolinone
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3GC7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.4 291 12% PEG 3350, 0.12 M ammonium fluoride, 30 uM CTAB, pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.21 44.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.124 α = 90 b = 157.71 β = 91.57 c = 60.36 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 ADSC QUANTUM 210 2002-11-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 1.00 APS 17-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.4 30 99.2 0.088 8.9 4.9 28873 28642 -3 45.7
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.4 2.5 94 0.336 1.2 5.4 2885
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 3GC7 2.4 30 27095 27046 1440 99.8 0.21171 0.20842 0.2029 0.27192 0.2628 RANDOM 34.968
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] -0.43 0.04 -0.74 1.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.264 r_dihedral_angle_3_deg 17.184 r_dihedral_angle_4_deg 16.593 r_dihedral_angle_1_deg 5.892 r_scangle_it 2.642 r_scbond_it 1.665 r_angle_refined_deg 1.389 r_mcangle_it 1.205 r_mcbond_it 0.652 r_nbtor_refined 0.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.264 r_dihedral_angle_3_deg 17.184 r_dihedral_angle_4_deg 16.593 r_dihedral_angle_1_deg 5.892 r_scangle_it 2.642 r_scbond_it 1.665 r_angle_refined_deg 1.389 r_mcangle_it 1.205 r_mcbond_it 0.652 r_nbtor_refined 0.301 r_symmetry_vdw_refined 0.293 r_nbd_refined 0.21 r_xyhbond_nbd_refined 0.158 r_symmetry_hbond_refined 0.146 r_symmetry_metal_ion_refined 0.098 r_chiral_restr 0.089 r_metal_ion_refined 0.057 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5485 Nucleic Acid Atoms Solvent Atoms 194 Heterogen Atoms 75
Software Software Software Name Purpose REFMAC refinement CNS refinement StructureStudio data collection HKL-2000 data reduction HKL-2000 data scaling CNS phasing