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Crystal structure of p38alpha C162S in complex with ATPgS and CAS 2094667-81-7 (in catalytic site, Y35 out), P 1 21 1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4LOO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.8 293 27.5% PEG3350,
0.1M BIS-TRIS pH 6.8
Crystal Properties Matthews coefficient Solvent content 2.27 45.89
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.141 α = 90 b = 68.072 β = 94.78 c = 79.98 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 PIXEL DECTRIS PILATUS 6M Elliptically bent mirror 2020-10-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 0.97926 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 2.6 79.7 99.2 0.086 9.2 3 22113 43.8
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 2.6 2.74 99 0.465 3.5 3.1
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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 4LOO 2.6 79.7 22092 1103 98.89 0.202 0.1994 0.2013 0.2541 0.2563 56.94
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] -0.442 1.034 -1.953 2.192
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.218 r_dihedral_angle_6_deg 12.707 r_lrange_it 7.357 r_lrange_other 7.35 r_dihedral_angle_2_deg 6.227 r_dihedral_angle_1_deg 6.159 r_mcangle_it 4.304 r_mcangle_other 4.303 r_scangle_it 3.961 r_scangle_other 3.96
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 16.218 r_dihedral_angle_6_deg 12.707 r_lrange_it 7.357 r_lrange_other 7.35 r_dihedral_angle_2_deg 6.227 r_dihedral_angle_1_deg 6.159 r_mcangle_it 4.304 r_mcangle_other 4.303 r_scangle_it 3.961 r_scangle_other 3.96 r_mcbond_it 2.432 r_mcbond_other 2.432 r_scbond_it 2.224 r_scbond_other 2.224 r_angle_refined_deg 1.056 r_angle_other_deg 0.352 r_symmetry_xyhbond_nbd_refined 0.216 r_nbd_refined 0.205 r_symmetry_nbd_other 0.199 r_xyhbond_nbd_refined 0.181 r_nbtor_refined 0.178 r_symmetry_nbd_refined 0.178 r_nbd_other 0.175 r_symmetry_nbtor_other 0.077 r_chiral_restr 0.045 r_bond_refined_d 0.003 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5641 Nucleic Acid Atoms Solvent Atoms 117 Heterogen Atoms 77
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction SCALA data scaling PHASER phasing