☰ Navigation Tabs
Two way mode of binding of antithyroid drug methimazole to mammalian heme peroxidases: Structure of the complex of lactoperoxidase with methimazole at 1.97 Angstrom resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4OEK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 298 Sodium nitrate, PEG
Crystal Properties Matthews coefficient Solvent content 2.25 45.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.31 α = 90 b = 93.02 β = 89.97 c = 81.53 γ = 90
Symmetry Space Group P 1 21 1
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 2015-11-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 0.97 ESRF BM14
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 1.97 40.43 93.8 7.2 4 78463
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 1.966 2.017 2.1
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 4OEK 1.97 40.43 78463 2415 94.84 0.17819 0.17675 0.1834 0.22586 0.2261 RANDOM 32.345
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] 0.21 0.38 1.12 -1.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.88 r_dihedral_angle_4_deg 19.329 r_dihedral_angle_3_deg 15.377 r_long_range_B_refined 8.399 r_long_range_B_other 8.399 r_dihedral_angle_1_deg 7.403 r_scangle_other 5.049 r_mcangle_it 4.624 r_mcangle_other 4.624 r_angle_other_deg 3.554
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.88 r_dihedral_angle_4_deg 19.329 r_dihedral_angle_3_deg 15.377 r_long_range_B_refined 8.399 r_long_range_B_other 8.399 r_dihedral_angle_1_deg 7.403 r_scangle_other 5.049 r_mcangle_it 4.624 r_mcangle_other 4.624 r_angle_other_deg 3.554 r_scbond_it 3.256 r_scbond_other 3.256 r_mcbond_it 3.048 r_mcbond_other 3.046 r_angle_refined_deg 1.85 r_chiral_restr 0.125 r_gen_planes_other 0.02 r_bond_refined_d 0.017 r_gen_planes_refined 0.011 r_bond_other_d 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 9507 Nucleic Acid Atoms Solvent Atoms 775 Heterogen Atoms 326
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling AMoRE phasing