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Crystal structure of the endonuclease from the PA subunit of influenza B virus bound to the PB2 subunit NLS peptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4WRT PDB ENTRY 4WRT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 0.1 M MES PH 6.5, 25% PEG6000
Crystal Properties Matthews coefficient Solvent content 2.7 54.3
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.38 α = 90 b = 80.85 β = 97.15 c = 37.91 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 PILATUS 2M 2015-05-04 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE MASSIF-1 ESRF MASSIF-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 1.7 50 98.2 0.03 12.68 2.72 22279
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.7 1.76 93 0.56 1.84 2.71
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 PDB ENTRY 4WRT 1.7 40.42 21181 1098 95.6 0.22677 0.22435 0.27556 0.2906 RANDOM 32.895
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] -0.52 -0.27 0.48 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.444 r_dihedral_angle_3_deg 15.267 r_dihedral_angle_4_deg 15.068 r_dihedral_angle_1_deg 6.006 r_mcangle_it 3.448 r_scbond_it 3.235 r_mcbond_it 2.35 r_mcbond_other 2.35 r_angle_refined_deg 1.504 r_angle_other_deg 0.969
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.444 r_dihedral_angle_3_deg 15.267 r_dihedral_angle_4_deg 15.068 r_dihedral_angle_1_deg 6.006 r_mcangle_it 3.448 r_scbond_it 3.235 r_mcbond_it 2.35 r_mcbond_other 2.35 r_angle_refined_deg 1.504 r_angle_other_deg 0.969 r_chiral_restr 0.094 r_bond_refined_d 0.012 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.002 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1741 Nucleic Acid Atoms Solvent Atoms 101 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing