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X-ray structure of the human mitogen-activated protein kinase kinase 2 (MEK2)in a complex with ligand and MgATP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1S9J HUMAN MAP2K1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 288 Sodium / Potassium phosphate, DTT, pH 7, VAPOR DIFFUSION, HANGING DROP, temperature 288K, pH 7.00
Crystal Properties Matthews coefficient Solvent content 2.94 58.12
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 161.888 α = 90 b = 161.888 β = 90 c = 122.986 γ = 120
Symmetry Space Group P 61 2 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 MARRESEARCH 2002-08-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID APS 17-ID
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 3.2 14.4 99.9 0.088 25.6 9.8 15147
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) 3.2 3.28 1 0.368 6
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT HUMAN MAP2K1 3.2 14.4 15147 802 99.91 0.29401 0.29028 0.36374 0.2898 RANDOM 41.694
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] -1.36 -0.68 -1.36 2.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.435 r_angle_refined_deg 1.217 r_scangle_it 1.175 r_mcangle_it 0.659 r_scbond_it 0.646 r_mcbond_it 0.355 r_nbd_refined 0.195 r_symmetry_vdw_refined 0.182 r_xyhbond_nbd_refined 0.13 r_chiral_restr 0.072
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.435 r_angle_refined_deg 1.217 r_scangle_it 1.175 r_mcangle_it 0.659 r_scbond_it 0.646 r_mcbond_it 0.355 r_nbd_refined 0.195 r_symmetry_vdw_refined 0.182 r_xyhbond_nbd_refined 0.13 r_chiral_restr 0.072 r_symmetry_hbond_refined 0.049 r_bond_refined_d 0.007 r_gen_planes_refined 0.002 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_symmetry_vdw_other r_symmetry_hbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4686 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 126
Software Software Software Name Purpose HKL-2000 data collection TRUNCATE data reduction MOLREP phasing REFMAC refinement HKL-2000 data reduction CCP4 data scaling