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Machupo virus GP1-GP2 heterodimer in complex with Fab of MAC1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 7QU1
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293.65 90 mM Li2SO4, 90 mM Na2SO4,
90 mM K2SO4
12.5 % w/v PEG 4000, 20% w/v 1,2,6-Hexanetriol
0.1 M Gly-Gly/AMPD pH 8.5
Crystal Properties Matthews coefficient Solvent content 3.31 62.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.682 α = 90 b = 73.585 β = 91.003 c = 184.958 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 XE 9M 2021-11-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.9179 Diamond I04-1
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 2.41 184.93 99.9 0.989 6.5 7 48718 53.84
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 2.41 2.45 0.314
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 2.41 47.25 1.33 48641 2449 99.76 0.232 0.2302 0.2302 0.2678 0.2684 66.74
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 15.1702 f_angle_d 0.5329 f_chiral_restr 0.0425 f_plane_restr 0.0038 f_bond_d 0.0026
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6063 Nucleic Acid Atoms Solvent Atoms 115 Heterogen Atoms 233
Software Software Software Name Purpose PHENIX refinement xia2 data reduction xia2 data scaling PHASER phasing