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The N-terminal domain of PA endonuclease from the influenza H1N1 virus in complex with 6-(3-carboxyphenyl)-3-hydroxy-4-oxo-1,4-dihydropyridine-2-carboxylic acid
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.8 306 30% PEG4000, 100 mM Tris, pH 8.35, 200-220 mM sodium acetate
Crystal Properties Matthews coefficient Solvent content 2.21 44.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 75.459 α = 90 b = 75.459 β = 90 c = 120.567 γ = 120
Symmetry Space Group P 62 2 2
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 PILATUS3 6M 2018-06-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.1 0.97 ALS 5.0.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 44.35 99.8 0.058 0.06 0.018 40 20.4 6352
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.65 2.78 98.9 0.665 0.696 0.205 4.9 20.3
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 THROUGHOUT 2.65 44.35 5800 523 99.86 0.19831 0.19226 0.2023 0.26436 0.2754 RANDOM 60.327
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] -0.28 -0.14 -0.28 0.91
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.499 r_dihedral_angle_4_deg 23.517 r_dihedral_angle_3_deg 18.894 r_long_range_B_refined 10.55 r_long_range_B_other 10.485 r_scangle_other 8.659 r_dihedral_angle_1_deg 6.29 r_mcangle_it 6.272 r_mcangle_other 6.27 r_scbond_it 5.721
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.499 r_dihedral_angle_4_deg 23.517 r_dihedral_angle_3_deg 18.894 r_long_range_B_refined 10.55 r_long_range_B_other 10.485 r_scangle_other 8.659 r_dihedral_angle_1_deg 6.29 r_mcangle_it 6.272 r_mcangle_other 6.27 r_scbond_it 5.721 r_scbond_other 5.687 r_mcbond_it 4.516 r_mcbond_other 4.505 r_angle_refined_deg 1.416 r_angle_other_deg 0.936 r_chiral_restr 0.069 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_gen_planes_other 0.002 r_bond_other_d 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1476 Nucleic Acid Atoms Solvent Atoms 25 Heterogen Atoms 26
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing