☰ Navigation Tabs
Human TRIM21 PRYSPRY domain in complex with HGC652
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 9QBA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.7 293 6% PEG 6000
0.1 Na Citrate pH 4.7
Crystal Properties Matthews coefficient Solvent content 2.29 46.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 67.877 α = 90 b = 67.877 β = 90 c = 70.91 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 EIGER2 XE 16M 2025-05-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.97625 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.4 45.3 100 0.039 0.04 0.009 1 36.5 19.9 36566
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.4 1.42 100 0.665 0.693 0.194 0.93 12.6
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 1.4 45.3 34616 1917 100 0.16805 0.16645 0.1807 0.19696 0.2035 RANDOM 18.869
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] -0.89 -0.44 -0.89 2.88
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 10.468 r_long_range_B_other 10.466 r_dihedral_angle_3_deg 9.646 r_dihedral_angle_1_deg 7.188 r_mcangle_other 6.223 r_mcangle_it 6.217 r_scangle_other 6.052 r_scbond_it 4.156 r_scbond_other 4.154 r_mcbond_it 4.149
RMS Deviations Key Refinement Restraint Deviation r_long_range_B_refined 10.468 r_long_range_B_other 10.466 r_dihedral_angle_3_deg 9.646 r_dihedral_angle_1_deg 7.188 r_mcangle_other 6.223 r_mcangle_it 6.217 r_scangle_other 6.052 r_scbond_it 4.156 r_scbond_other 4.154 r_mcbond_it 4.149 r_mcbond_other 4.13 r_dihedral_angle_2_deg 4.056 r_rigid_bond_restr 3.663 r_angle_refined_deg 1.442 r_angle_other_deg 0.499 r_chiral_restr 0.076 r_gen_planes_refined 0.008 r_bond_refined_d 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_dihedral_angle_4_deg 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_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1383 Nucleic Acid Atoms Solvent Atoms 103 Heterogen Atoms 54
Software Software Software Name Purpose REFMAC refinement Aimless data scaling xia2 data reduction MOLREP phasing PDB_EXTRACT data extraction