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Influenza A PB2 (F404Y mutation) in complex with VX-787
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4P1U
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 291.15 Magnesium chloride, Calcium chloride, Tris (base), BICINE, PEG 500, PEG 20000
Crystal Properties Matthews coefficient Solvent content 1.95 36.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 29.5 α = 71.89 b = 37.25 β = 69.8 c = 38.39 γ = 75.17
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 PILATUS 300K 2019-03-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.541870
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim 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 1.5 34.93 98 0.035 0.042 0.998 18.27 2.538 22637 21.017
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.5 1.54 91.2 0.093 0.131 0.976 4.05 1.29
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4P1U 1.5 34.93 21508 1129 98.24 0.1516 0.1499 0.185 0.2018 RANDOM 16.849
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] 0.18 -0.62 0.13 0.53 -0.19 -0.81
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.461 r_dihedral_angle_4_deg 16.712 r_dihedral_angle_3_deg 11.359 r_dihedral_angle_1_deg 7.056 r_angle_refined_deg 1.877 r_angle_other_deg 1.575 r_chiral_restr 0.095 r_bond_refined_d 0.013 r_gen_planes_refined 0.011 r_gen_planes_other 0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.461 r_dihedral_angle_4_deg 16.712 r_dihedral_angle_3_deg 11.359 r_dihedral_angle_1_deg 7.056 r_angle_refined_deg 1.877 r_angle_other_deg 1.575 r_chiral_restr 0.095 r_bond_refined_d 0.013 r_gen_planes_refined 0.011 r_gen_planes_other 0.003 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1271 Nucleic Acid Atoms Solvent Atoms 236 Heterogen Atoms 30
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PDB_EXTRACT data extraction MOLREP phasing