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Crystal structure of WT p38alpha
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4LOO 4LOO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 277 0.1M MAGNESIUM CHLORIDE HEXAHYDRATE,
0.1,M HEPES pH 7, 15 %w/v PEG 4000
Crystal Properties Matthews coefficient Solvent content 2.4 49.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.3 α = 90 b = 74.612 β = 90 c = 78.1 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 PIXEL DECTRIS PILATUS 6M Elliptically bent mirror 2020-02-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 0.979257 ALBA XALOC
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 2.65 78.1 94.1 0.075 13.6 5.6 10940 43.9
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 2.65 2.79 84.1 0.397 4.4 5.7
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 4LOO 2.65 53.95 10858 532 93.773 0.212 0.2087 0.2087 0.2778 0.2775 0 57.757
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] -1.646 -4.077 5.723
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.721 r_dihedral_angle_4_deg 15.591 r_dihedral_angle_3_deg 14.729 r_lrange_it 7.805 r_lrange_other 7.791 r_dihedral_angle_1_deg 5.949 r_mcangle_it 3.97 r_mcangle_other 3.969 r_scangle_it 3.294 r_scangle_other 3.293
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.721 r_dihedral_angle_4_deg 15.591 r_dihedral_angle_3_deg 14.729 r_lrange_it 7.805 r_lrange_other 7.791 r_dihedral_angle_1_deg 5.949 r_mcangle_it 3.97 r_mcangle_other 3.969 r_scangle_it 3.294 r_scangle_other 3.293 r_mcbond_other 2.27 r_mcbond_it 2.269 r_scbond_it 1.836 r_scbond_other 1.836 r_angle_refined_deg 1.21 r_angle_other_deg 1.027 r_nbd_refined 0.178 r_nbd_other 0.159 r_symmetry_nbd_other 0.158 r_xyhbond_nbd_refined 0.157 r_nbtor_refined 0.156 r_symmetry_nbd_refined 0.083 r_symmetry_nbtor_other 0.073 r_metal_ion_refined 0.072 r_symmetry_xyhbond_nbd_refined 0.057 r_chiral_restr 0.043 r_gen_planes_refined 0.003 r_bond_refined_d 0.002 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2704 Nucleic Acid Atoms Solvent Atoms 112 Heterogen Atoms 29
Software Software Software Name Purpose iMOSFLM data reduction SCALA data scaling PHASER phasing REFMAC refinement