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type-I interferons autoantibody pmab15 in complex with Interferon alpha-2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3S9D in silico model AlphaFold
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.6 291 0.2 M (NH4)2SO4
0.1 M NaAcetate pH 4.6
30 %w/w PEG 2000 MME
Crystal Properties Matthews coefficient Solvent content 1.78 31
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 66.159 α = 90 b = 83.719 β = 113.8 c = 70.264 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 EIGER2 X 9M Cryogenically cooled channel cut crystal monochromator, a convex prefocussing mirror and a Kirkpatrick-Baez pair of focussing mirrors 2024-06-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 2 0.953721 SOLEIL PROXIMA 2
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 2 65 100 0.202 0.225 0.098 0.991 3.6 5 46986
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 2.006 2.041 99.7 2.611 2.902 1.667 0.373 0.6 5.1
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 (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 2.006 14.97 46627 2428 99.5 0.217 0.2143 0.2088 0.2696 0.2634 RANDOM 46.83
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] 6.0191 -0.9795 -0.9393 -5.0798
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 16.25 t_omega_torsion 3.51 t_angle_deg 0.91 t_bond_d 0.008 t_dihedral_angle_d t_gen_planes t_it t_chiral_improper_torsion t_ideal_dist_contact
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5645 Nucleic Acid Atoms Solvent Atoms 287 Heterogen Atoms 21
Software Software Software Name Purpose BUSTER refinement XDS data reduction autoPROC data reduction Aimless data scaling PHASER phasing