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TRIM21 PRYSPRY bound to compound 36
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 291.15 20% PEG 4000, 5% iso-Propanol, 0.1 M Na Citrate
Crystal Properties Matthews coefficient Solvent content 2.26 45.62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 60.685 α = 90 b = 74.38 β = 90.103 c = 90.109 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 PILATUS 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 2.46 50.427 83.6 0.978 3 3.1 24473
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 2.46 2.56 0.5
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 2.462 50.427 24450 1243 83.496 0.305 0.3017 0.2762 0.368 0.3459 34.201
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] -2.923 -0.364 6.421 -3.496
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.004 r_dihedral_angle_3_deg 20.772 r_dihedral_angle_4_deg 15.473 r_lrange_it 10.049 r_lrange_other 10.049 r_dihedral_angle_1_deg 9.052 r_mcangle_it 5.097 r_mcangle_other 5.096 r_scangle_it 4.846 r_scangle_other 4.846
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.004 r_dihedral_angle_3_deg 20.772 r_dihedral_angle_4_deg 15.473 r_lrange_it 10.049 r_lrange_other 10.049 r_dihedral_angle_1_deg 9.052 r_mcangle_it 5.097 r_mcangle_other 5.096 r_scangle_it 4.846 r_scangle_other 4.846 r_mcbond_it 3.085 r_mcbond_other 3.084 r_scbond_it 2.84 r_scbond_other 2.84 r_angle_refined_deg 1.693 r_angle_other_deg 1.227 r_nbd_other 0.256 r_symmetry_nbd_refined 0.253 r_nbd_refined 0.217 r_symmetry_nbd_other 0.196 r_xyhbond_nbd_refined 0.184 r_nbtor_refined 0.18 r_symmetry_nbtor_other 0.08 r_chiral_restr 0.072 r_symmetry_xyhbond_nbd_other 0.025 r_chiral_restr_other 0.014 r_bond_refined_d 0.009 r_gen_planes_refined 0.008 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5908 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 156
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction autoPROC data scaling PHASER phasing