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Inhibitory immune receptor protein complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4GUP 4GUP, 1TVD, 4LFH, 5D5M experimental model PDB 1TVD 4GUP, 1TVD, 4LFH, 5D5M experimental model PDB 4LFH 4GUP, 1TVD, 4LFH, 5D5M experimental model PDB 5D5M 4GUP, 1TVD, 4LFH, 5D5M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 30-40% PEG 400, 0.1/0.2 HEPES pH 7.5, 0.2M MgCl2
Crystal Properties Matthews coefficient Solvent content 5.37 77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 297.549 α = 90 b = 297.549 β = 90 c = 120.371 γ = 120
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 2020-06-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX2 0.95373 Australian Synchrotron MX2
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 3.15 85.89 100 0.997 9.6 9.4 68693 75.03
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 3.15 3.22 0.713
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-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 4GUP, 1TVD, 4LFH, 5D5M 3.15 75.71 606.25 68662 1993 99.95 0.248 0.2405 0.2369 0.2761 0.2703 100.16
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 4.2639 f_angle_d 0.532 f_chiral_restr 0.0423 f_plane_restr 0.0036 f_bond_d 0.0019
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13158 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 32
Software Software Software Name Purpose PHENIX refinement Coot model building MOSFLM data reduction Aimless data scaling PHENIX phasing