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The crystal structure of DNA-bound human MutSbeta (MSH2/MSH3) in the canonical mismatch bound conformation with ADP bound in MSH2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 8RAU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 277 0.1 M MES pH 6.5 -7.5, 0.2 M Ammonium Acetate, 20 - 25 % PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.33 47.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 66.599 α = 67.56 b = 91.12 β = 86.81 c = 96.482 γ = 74.64
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 2019-02-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.99989 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 2.63 44.94 95.9 0.031 14.81 1.8 57658
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 2.63 2.88 0.464
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.63 44.94 56828 830 96.06 0.23965 0.23898 0.24 0.28409 0.2894 RANDOM 102.738
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] 0.96 -2.01 2.2 -1.39 -0.36 -0.77
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.791 r_dihedral_angle_3_deg 14.141 r_dihedral_angle_4_deg 12.791 r_dihedral_angle_1_deg 5.963 r_long_range_B_refined 2.384 r_long_range_B_other 2.384 r_angle_refined_deg 1.272 r_angle_other_deg 1.082 r_mcangle_it 1.015 r_mcangle_other 1.015
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.791 r_dihedral_angle_3_deg 14.141 r_dihedral_angle_4_deg 12.791 r_dihedral_angle_1_deg 5.963 r_long_range_B_refined 2.384 r_long_range_B_other 2.384 r_angle_refined_deg 1.272 r_angle_other_deg 1.082 r_mcangle_it 1.015 r_mcangle_other 1.015 r_scangle_other 0.669 r_mcbond_it 0.564 r_mcbond_other 0.563 r_scbond_it 0.507 r_scbond_other 0.497 r_chiral_restr 0.046 r_bond_refined_d 0.003 r_gen_planes_refined 0.003 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 13698 Nucleic Acid Atoms 899 Solvent Atoms 50 Heterogen Atoms 41
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing