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Crystal structure of the C276S mutant of MAP2K7
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5B2K
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 PEG3350, sodium citrate
Crystal Properties Matthews coefficient Solvent content 2.63 53.21
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.534 α = 90 b = 71.534 β = 90 c = 262.305 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 ADSC QUANTUM 315r 2015-06-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-5A 1.0 Photon Factory BL-5A
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 2.92 61.95 100 0.095 34.7 20 9446
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 2.92 2.97 100 0.802 4.1 21
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 5b2k 2.92 61.95 8909 467 99.88 0.23362 0.23011 0.2818 0.2988 0.3492 RANDOM 55.161
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] -3.52 -1.76 -3.52 11.41
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.382 r_dihedral_angle_3_deg 22.139 r_dihedral_angle_4_deg 18.639 r_long_range_B_other 11.84 r_long_range_B_refined 11.839 r_dihedral_angle_1_deg 8.564 r_mcangle_it 6.36 r_mcangle_other 6.357 r_scangle_other 6.239 r_mcbond_other 3.876
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.382 r_dihedral_angle_3_deg 22.139 r_dihedral_angle_4_deg 18.639 r_long_range_B_other 11.84 r_long_range_B_refined 11.839 r_dihedral_angle_1_deg 8.564 r_mcangle_it 6.36 r_mcangle_other 6.357 r_scangle_other 6.239 r_mcbond_other 3.876 r_mcbond_it 3.874 r_scbond_it 3.843 r_scbond_other 3.819 r_angle_refined_deg 1.689 r_angle_other_deg 0.867 r_chiral_restr 0.087 r_bond_refined_d 0.012 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2117 Nucleic Acid Atoms Solvent Atoms 20 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing