☰ Navigation Tabs
Crystal Structure of human MLH1 N-terminal domain with ADP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3RBN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7.25 293 10.00 %v/v 2-PropOH
20.00 %w/v PEG 4K
0.1 M HEPES pH 7.25
Crystal Properties Matthews coefficient Solvent content 2.89 57.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 93.678 α = 90 b = 93.678 β = 90 c = 86.022 γ = 120
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 EIGER X 16M 2019-10-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X06SA 0.9999 SLS X06SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) 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 2.27 81.13 99.7 0.03 0.034 22.38 4.4 19851
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.27 2.52 100 0.443 0.502 3.62
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.27 31.7 19850 1313 99.734 0.235 0.2324 0.2341 0.2691 0.2674 79.05
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] 0.31 0.155 0.31 -1.006
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 13.132 r_dihedral_angle_3_deg 11.395 r_lrange_other 8.454 r_lrange_it 8.453 r_dihedral_angle_1_deg 6.222 r_mcangle_it 6.104 r_mcangle_other 6.103 r_scangle_it 5.709 r_scangle_other 5.707 r_mcbond_it 3.866
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_6_deg 13.132 r_dihedral_angle_3_deg 11.395 r_lrange_other 8.454 r_lrange_it 8.453 r_dihedral_angle_1_deg 6.222 r_mcangle_it 6.104 r_mcangle_other 6.103 r_scangle_it 5.709 r_scangle_other 5.707 r_mcbond_it 3.866 r_mcbond_other 3.861 r_scbond_other 3.512 r_scbond_it 3.511 r_angle_refined_deg 1.061 r_angle_other_deg 0.469 r_dihedral_angle_other_2_deg 0.239 r_nbd_refined 0.172 r_dihedral_angle_2_deg 0.17 r_symmetry_nbd_other 0.165 r_symmetry_nbd_refined 0.165 r_nbtor_refined 0.153 r_xyhbond_nbd_refined 0.132 r_nbd_other 0.103 r_symmetry_xyhbond_nbd_refined 0.078 r_symmetry_nbtor_other 0.07 r_chiral_restr 0.052 r_bond_refined_d 0.004 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2385 Nucleic Acid Atoms Solvent Atoms 27 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing