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Crystal structure of TRIM21 PRY-SPRY domain bound to Suramin
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 293 20% PEG 6.000
10% ethylene glycol
0.2 ammonium Chlorid
Crystal Properties Matthews coefficient Solvent content 1.91 35.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.591 α = 90 b = 56.014 β = 90 c = 69.008 γ = 90
Symmetry Space Group P 21 21 21
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 2024-03-02 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) 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 1.3 69.01 99.7 0.999 22.1 22.8 41260
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 1.3 1.32 0.918
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 1.3 43.49 39175 2020 99.64 0.16012 0.15914 0.168 0.17898 0.1914 RANDOM 11.374
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] 2.8 -0.64 -2.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.1 r_long_range_B_refined 10.087 r_long_range_B_other 10.086 r_dihedral_angle_1_deg 6.98 r_dihedral_angle_2_deg 4.368 r_scangle_other 3.823 r_mcangle_it 3.286 r_mcangle_other 3.286 r_scbond_it 2.514 r_scbond_other 2.497
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 12.1 r_long_range_B_refined 10.087 r_long_range_B_other 10.086 r_dihedral_angle_1_deg 6.98 r_dihedral_angle_2_deg 4.368 r_scangle_other 3.823 r_mcangle_it 3.286 r_mcangle_other 3.286 r_scbond_it 2.514 r_scbond_other 2.497 r_rigid_bond_restr 2.398 r_mcbond_it 2.037 r_mcbond_other 2.024 r_angle_refined_deg 1.424 r_angle_other_deg 0.457 r_chiral_restr 0.064 r_gen_planes_refined 0.016 r_bond_refined_d 0.008 r_gen_planes_other 0.002 r_bond_other_d 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 1483 Nucleic Acid Atoms Solvent Atoms 151 Heterogen Atoms 110
Software Software Software Name Purpose REFMAC refinement Aimless data scaling XDS data reduction MOLREP phasing