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Crystal structure of ICOS-L in complex with Prezalumab and VNAR domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1I8L 1I8L, 4I0K, 1T6V, internal database experimental model PDB 4I0K 1I8L, 4I0K, 1T6V, internal database experimental model PDB 1T6V 1I8L, 4I0K, 1T6V, internal database
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293.15 0.2 M di-ammonium tartrate and 20% (w/v) PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.48 50.45
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.508 α = 90 b = 151.984 β = 104.101 c = 86.675 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 EIGER X 16M 2018-11-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-B 1.033158 APS 23-ID-B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 3.15 40 99.9 0.17 0.068 0.99 9.4 7 29746 76.67
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.15 3.25 100 0.67 0.27 0.76 1.7 7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1I8L, 4I0K, 1T6V, internal database 3.15 38.88 1.35 29706 1483 99.83 0.2035 0.2006 0.2562 0.2301 81.32
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 20.1147 f_angle_d 0.8075 f_chiral_restr 0.0555 f_plane_restr 0.0051 f_bond_d 0.0037
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11580 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 194
Software Software Software Name Purpose PHENIX refinement XDS data reduction XSCALE data scaling PHASER phasing