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Influenza A/H17N10 polymerase with bound promoter and 3' end of template in active site
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6EVJ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 5 mg/ml polymerase with 5.1 mg/ml (19.5 microM) with 1.14 x molar excess of each RNA (v5' 1-16, v3' 1-18+3 and 15-mer capped primer), mixed in 1:1 ratio of 100 mM amino acids, 100 mM Tris/Bicine pH8.5, 8% ethylene glycol (v/v), 4% PEG 8000 (w/v) by hanging drop at room temperature
Crystal Properties Matthews coefficient Solvent content 2.47 50.27
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.08 α = 90 b = 119.267 β = 90 c = 251.555 γ = 90
Symmetry Space Group P 21 21 21
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 6M 2019-12-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9795 Diamond I04
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 1.959 125.799 69.7 0.159 0.166 0.997 9.7 13.3 135837
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 1.965 2.189 68.4 1.227 1.29 0.736 1.8 10.7
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.959 125.799 135837 6693 69.07 0.192 0.1892 0.1972 0.2455 0.2498 45.222
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] -0.06 0.204 -0.144
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.967 r_dihedral_angle_6_deg 13.801 r_lrange_it 8.108 r_lrange_other 8.086 r_dihedral_angle_1_deg 6.778 r_dihedral_angle_2_deg 6.635 r_scangle_it 5.635 r_scangle_other 5.635 r_mcangle_it 5.147 r_mcangle_other 5.147
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 14.967 r_dihedral_angle_6_deg 13.801 r_lrange_it 8.108 r_lrange_other 8.086 r_dihedral_angle_1_deg 6.778 r_dihedral_angle_2_deg 6.635 r_scangle_it 5.635 r_scangle_other 5.635 r_mcangle_it 5.147 r_mcangle_other 5.147 r_scbond_it 3.453 r_scbond_other 3.453 r_mcbond_it 3.27 r_mcbond_other 3.27 r_angle_refined_deg 1.407 r_angle_other_deg 0.487 r_dihedral_angle_other_2_deg 0.257 r_nbd_refined 0.217 r_symmetry_nbd_other 0.19 r_nbtor_refined 0.183 r_xyhbond_nbd_refined 0.16 r_symmetry_xyhbond_nbd_refined 0.153 r_nbd_other 0.152 r_symmetry_nbd_refined 0.143 r_symmetry_nbtor_other 0.078 r_chiral_restr 0.069 r_symmetry_xyhbond_nbd_other 0.053 r_bond_refined_d 0.005 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 17427 Nucleic Acid Atoms 631 Solvent Atoms 1093 Heterogen Atoms 52
Software Software Software Name Purpose REFMAC refinement autoPROC data reduction autoPROC data scaling