☰ Navigation Tabs
O-methyltransferase CcOMT8
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model AlphaFold
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 291.15 0.1 M Tris pH 8.5, 0.8 M Potassium sodium tartrate tetrahydrate, 0.5% w/v PEG MME 5000
Crystal Properties Matthews coefficient Solvent content 2.51 50.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.79 α = 90 b = 63.85 β = 90 c = 99.41 γ = 106.67
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 2024-07-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL18U1 0.97853 SSRF BL18U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) 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 3 49.71 81 0.998 10.6 2.2 24406
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3 3.18 0.859
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 3 49.71 23157 1241 80.86 0.23313 0.23051 0.2171 0.2836 0.2673 RANDOM 70
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] 68.44 -28.35 -7.3 -18.79 53.9 -49.65
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.537 r_dihedral_angle_3_deg 18.261 r_dihedral_angle_4_deg 12.767 r_mcangle_it 9.718 r_mcangle_other 9.717 r_scangle_other 8.592 r_dihedral_angle_1_deg 6.246 r_mcbond_it 6.171 r_mcbond_other 6.169 r_scbond_it 5.256
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.537 r_dihedral_angle_3_deg 18.261 r_dihedral_angle_4_deg 12.767 r_mcangle_it 9.718 r_mcangle_other 9.717 r_scangle_other 8.592 r_dihedral_angle_1_deg 6.246 r_mcbond_it 6.171 r_mcbond_other 6.169 r_scbond_it 5.256 r_scbond_other 5.256 r_angle_refined_deg 1.396 r_angle_other_deg 0.763 r_chiral_restr 0.071 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 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 10172 Nucleic Acid Atoms Solvent Atoms 3 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction Aimless data scaling PHASER phasing