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Crystal structure of the pre-reactive state of porcine OAS1 in complex with dsRNA, two ApCpp substrate analogs, three catalytic Mn2+ ions.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4RWN
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.6 291 100 mM Tris HCl pH 7.6, 33% (v / v) PEG200
Crystal Properties Matthews coefficient Solvent content 2.51 50.94
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.03 α = 90 b = 72.03 β = 90 c = 206.32 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 Si-111 and Si-113 reflection 2024-06-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, DESY BEAMLINE P11 1.0332 PETRA III, DESY P11
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.6 45.712 99.9 0.056 0.019 1 23.42 26.38 72726 35.688
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.6 1.7 0.803 0.415 0.952 2.15
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 1.6 45.712 72613 3679 99.933 0.155 0.1525 0.1666 0.2114 0.2169 41.61
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] 0.2 0.2 -0.4
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.315 r_dihedral_angle_4_deg 24.051 r_rigid_bond_restr 11.949 r_dihedral_angle_3_deg 11.941 r_dihedral_angle_1_deg 6.332 r_lrange_it 5.823 r_lrange_other 4.897 r_scangle_it 4.216 r_scangle_other 4.216 r_mcangle_other 3.453
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.315 r_dihedral_angle_4_deg 24.051 r_rigid_bond_restr 11.949 r_dihedral_angle_3_deg 11.941 r_dihedral_angle_1_deg 6.332 r_lrange_it 5.823 r_lrange_other 4.897 r_scangle_it 4.216 r_scangle_other 4.216 r_mcangle_other 3.453 r_mcangle_it 3.449 r_scbond_other 3.044 r_scbond_it 3.043 r_mcbond_it 2.452 r_mcbond_other 2.449 r_angle_other_deg 2.135 r_angle_refined_deg 2.033 r_symmetry_xyhbond_nbd_refined 0.25 r_xyhbond_nbd_refined 0.238 r_nbd_refined 0.232 r_symmetry_nbd_other 0.223 r_nbd_other 0.198 r_nbtor_refined 0.196 r_symmetry_nbd_refined 0.153 r_chiral_restr 0.15 r_symmetry_nbtor_other 0.076 r_symmetry_xyhbond_nbd_other 0.043 r_bond_refined_d 0.04 r_bond_other_d 0.031 r_gen_planes_other 0.023 r_gen_planes_refined 0.013
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2835 Nucleic Acid Atoms 799 Solvent Atoms 874 Heterogen Atoms 72
Software Software Software Name Purpose REFMAC refinement XDS data reduction SADABS data scaling PHASER phasing