☰ Navigation Tabs
Crystal Structure of PRMT3 with Compound II710
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2FYT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 291 20% PEG3350, 0.3 M Sodium Formate
Crystal Properties Matthews coefficient Solvent content 2.86 57.04
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 70.733 α = 90 b = 70.733 β = 90 c = 175.262 γ = 90
Symmetry Space Group P 43 21 2
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 EIGER2 X 16M 2021-03-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 0.97918 APS 24-ID-C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.06 50 97.4 0.09 1 8.9 10.4 27517
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.06 2.1 81.6 0.841 0.915 1.7 8.1
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 2.06 48.14 26354 1088 97.06 0.20883 0.20695 0.2147 0.25598 0.2571 RANDOM 54.369
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] 3.09 3.09 -6.17
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.746 r_dihedral_angle_4_deg 23.539 r_dihedral_angle_3_deg 16.664 r_long_range_B_other 7.718 r_long_range_B_refined 7.712 r_dihedral_angle_1_deg 7.525 r_scangle_other 6.464 r_mcangle_it 5.419 r_mcangle_other 5.419 r_scbond_it 4.796
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.746 r_dihedral_angle_4_deg 23.539 r_dihedral_angle_3_deg 16.664 r_long_range_B_other 7.718 r_long_range_B_refined 7.712 r_dihedral_angle_1_deg 7.525 r_scangle_other 6.464 r_mcangle_it 5.419 r_mcangle_other 5.419 r_scbond_it 4.796 r_scbond_other 4.794 r_mcbond_it 4.233 r_mcbond_other 4.233 r_angle_refined_deg 1.358 r_angle_other_deg 1.243 r_chiral_restr 0.057 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_gen_planes_other 0.002 r_bond_other_d 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 2338 Nucleic Acid Atoms Solvent Atoms 42 Heterogen Atoms 33
Software Software Software Name Purpose HKL-3000 data scaling PHASER phasing REFMAC refinement HKL-3000 data reduction