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TRIM21 PRYSPRY bound to compound 37
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2IWG
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 291.15 30% PEG 10000, 0.1 M TRIS
HCl pH 8.5
Crystal Properties Matthews coefficient Solvent content 1.93 36.31
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 37.104 α = 90 b = 60.62 β = 113.01 c = 41.931 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 PILATUS3 6M 2021-05-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I24 0.99 Diamond I24
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 2.1 38.624 100 0.959 4.8 9 10082
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 2.1 2.16 100 0.3 1.1
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 2.1 38.624 10066 447 99.98 0.235 0.2315 0.243 0.2965 0.3129 32.481
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] -1.668 1.299 -1.293 1.365
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.797 r_dihedral_angle_3_deg 18.546 r_dihedral_angle_4_deg 16.848 r_dihedral_angle_1_deg 8.499 r_lrange_it 5.164 r_lrange_other 5.148 r_mcangle_it 3.329 r_mcangle_other 3.329 r_scangle_it 3.204 r_scangle_other 3.203
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.797 r_dihedral_angle_3_deg 18.546 r_dihedral_angle_4_deg 16.848 r_dihedral_angle_1_deg 8.499 r_lrange_it 5.164 r_lrange_other 5.148 r_mcangle_it 3.329 r_mcangle_other 3.329 r_scangle_it 3.204 r_scangle_other 3.203 r_mcbond_it 2.059 r_mcbond_other 2.054 r_scbond_it 1.971 r_scbond_other 1.97 r_angle_refined_deg 1.445 r_angle_other_deg 1.156 r_symmetry_xyhbond_nbd_refined 0.384 r_xyhbond_nbd_refined 0.253 r_nbd_other 0.235 r_symmetry_nbd_refined 0.211 r_nbd_refined 0.205 r_symmetry_nbd_other 0.19 r_nbtor_refined 0.176 r_symmetry_xyhbond_nbd_other 0.095 r_symmetry_nbtor_other 0.079 r_chiral_restr 0.055 r_bond_refined_d 0.006 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1485 Nucleic Acid Atoms Solvent Atoms 31 Heterogen Atoms 39
Software Software Software Name Purpose REFMAC refinement xia2.multiplex data reduction xia2.multiplex data scaling PHASER phasing