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ERK2 MAP kinase with mutations at Helix-G
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4S31
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 1.8 M ammonium sulfate
0.1 M Bis-tris pH 6.8 or 6.5
2% (w/v) PEG 550
Crystal Properties Matthews coefficient Solvent content 2.2 44.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 48.74 α = 90 b = 68.81 β = 110.14 c = 60.81 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 300K 2017-02-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.972 ESRF ID23-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) CC (Half) 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 1.74 45.8 99.4 0.047 0.99 16.1 3.7 38438
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 1.74 1.79 0.661
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 (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 4S31 1.74 45.8 36513 1925 99.45 0.14652 0.14386 0.1443 0.19726 0.1966 RANDOM 35.781
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] -0.77 0.14 -1.07 1.37
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.348 r_dihedral_angle_4_deg 24.416 r_dihedral_angle_3_deg 17.582 r_scangle_other 8.925 r_long_range_B_other 8.616 r_long_range_B_refined 8.605 r_scbond_other 7.742 r_scbond_it 7.74 r_dihedral_angle_1_deg 6.895 r_mcangle_other 6.645
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.348 r_dihedral_angle_4_deg 24.416 r_dihedral_angle_3_deg 17.582 r_scangle_other 8.925 r_long_range_B_other 8.616 r_long_range_B_refined 8.605 r_scbond_other 7.742 r_scbond_it 7.74 r_dihedral_angle_1_deg 6.895 r_mcangle_other 6.645 r_mcangle_it 6.64 r_mcbond_it 5.965 r_mcbond_other 5.946 r_rigid_bond_restr 4.687 r_angle_refined_deg 1.967 r_angle_other_deg 1.495 r_chiral_restr 0.098 r_bond_refined_d 0.016 r_gen_planes_refined 0.011 r_gen_planes_other 0.003 r_bond_other_d 0.001 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_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2747 Nucleic Acid Atoms Solvent Atoms 227 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction XDS data scaling PHASER phasing