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Structure of the Human Mitogen-Activated Protein Kinase Kinase 1 S218D and S222D mutant
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3EQD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 293 0.1M HEPES, 12%(w/v) PEG3350, 0.1M ammonium citrate,
Crystal Properties Matthews coefficient Solvent content 2.54 51.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 132.17 α = 90 b = 132.55 β = 90 c = 91.21 γ = 90
Symmetry Space Group P 21 21 2
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 MARMOSAIC 225 mm CCD 2014-12-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SPRING-8 BEAMLINE BL38B1 1.0 SPring-8 BL38B1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.9 14.93 99.93 68.1 2 35944
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.9 3.06 100 19.3 2
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 3EQD 2.9 14.93 34137 1769 99.93 0.21299 0.20889 0.1968 0.28928 0.275 RANDOM 63.784
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] -11.77 2.11 9.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.624 r_dihedral_angle_4_deg 21.415 r_dihedral_angle_3_deg 19.875 r_long_range_B_refined 12.324 r_mcangle_it 8.153 r_dihedral_angle_1_deg 7.125 r_scbond_it 5.552 r_mcbond_it 5.126 r_angle_refined_deg 1.835 r_chiral_restr 0.116
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.624 r_dihedral_angle_4_deg 21.415 r_dihedral_angle_3_deg 19.875 r_long_range_B_refined 12.324 r_mcangle_it 8.153 r_dihedral_angle_1_deg 7.125 r_scbond_it 5.552 r_mcbond_it 5.126 r_angle_refined_deg 1.835 r_chiral_restr 0.116 r_bond_refined_d 0.012 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9125 Nucleic Acid Atoms Solvent Atoms 14 Heterogen Atoms 126
Software Software Software Name Purpose HKL-2000 data reduction HKL-2000 data scaling PHENIX phasing PHENIX refinement