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Structure of Hyoscyamine 6-beta Hydroxylase in complex with iron, succinate, and scopolamine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6TTM 6TTM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 PEG 3350, sodium formate, strontium chloride
Crystal Properties Matthews coefficient Solvent content 2.15 42.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.796 α = 90 b = 79.214 β = 111.24 c = 55.957 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 PIXEL DECTRIS EIGER X 16M 2021-04-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 1.03317 APS 23-ID-B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) 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 1.717 50 98.1 0.127 0.054 0.988 17.5 6.1 37388
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.717 1.75 97.5 1.098 0.599 0.536 1.7 4
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 6TTM 1.717 43.599 37388 1770 96.002 0.182 0.1816 0.1913 0.1991 0.2083 20.502
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] -0.003 -0.001 0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.968 r_dihedral_angle_4_deg 12.622 r_dihedral_angle_3_deg 12.475 r_dihedral_angle_1_deg 6.692 r_lrange_it 3.749 r_lrange_other 3.652 r_scangle_other 2.158 r_scangle_it 2.157 r_mcangle_it 1.783 r_mcangle_other 1.782
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.968 r_dihedral_angle_4_deg 12.622 r_dihedral_angle_3_deg 12.475 r_dihedral_angle_1_deg 6.692 r_lrange_it 3.749 r_lrange_other 3.652 r_scangle_other 2.158 r_scangle_it 2.157 r_mcangle_it 1.783 r_mcangle_other 1.782 r_scbond_it 1.3 r_scbond_other 1.294 r_angle_refined_deg 1.217 r_angle_other_deg 1.19 r_mcbond_it 1.04 r_mcbond_other 1.039 r_nbd_refined 0.204 r_symmetry_nbd_other 0.164 r_nbtor_refined 0.159 r_symmetry_nbd_refined 0.137 r_xyhbond_nbd_refined 0.129 r_nbd_other 0.125 r_metal_ion_refined 0.121 r_symmetry_metal_ion_refined 0.078 r_symmetry_nbtor_other 0.075 r_chiral_restr 0.058 r_symmetry_xyhbond_nbd_refined 0.04 r_bond_refined_d 0.004 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2578 Nucleic Acid Atoms Solvent Atoms 186 Heterogen Atoms 68
Software Software Software Name Purpose REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling PHASER phasing