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crystal structure of the mid, cap-binding, mid-link and 627 domains from avian influenza a virus polymerase PB2 subunit bound to M7GTP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4WSB PDB ENTRIES 4WSB, 4CB4, 3KC6 experimental model PDB 4CB4 PDB ENTRIES 4WSB, 4CB4, 3KC6 experimental model PDB 3KC6 PDB ENTRIES 4WSB, 4CB4, 3KC6
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 5 0.1 M TRI-SODIUM CITRATE PH 5 10 % POLYETHYLENE GLYCOL MONOMETHYL ETHER 5000
Crystal Properties Matthews coefficient Solvent content 3.1 60.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.27 α = 90 b = 97.27 β = 90 c = 126.22 γ = 120
Symmetry Space Group P 32 2 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 2015-01-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 ESRF ID29
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 2.4 50 100 0.15 12.2 10.5 26542
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 2.4 2.48 100 1.31 2.04 10.5
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 ENTRIES 4WSB, 4CB4, 3KC6 2.4 84.24 26430 1145 99.96 0.21329 0.21242 0.23368 0.2251 RANDOM 75.89
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] 0.77 0.39 0.77 -2.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.552 r_dihedral_angle_4_deg 13.627 r_dihedral_angle_3_deg 12.914 r_dihedral_angle_1_deg 5.139 r_mcangle_it 3.93 r_mcbond_it 2.257 r_mcbond_other 2.256 r_scbond_it 2.215 r_angle_refined_deg 1.23 r_angle_other_deg 0.851
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.552 r_dihedral_angle_4_deg 13.627 r_dihedral_angle_3_deg 12.914 r_dihedral_angle_1_deg 5.139 r_mcangle_it 3.93 r_mcbond_it 2.257 r_mcbond_other 2.256 r_scbond_it 2.215 r_angle_refined_deg 1.23 r_angle_other_deg 0.851 r_chiral_restr 0.061 r_bond_refined_d 0.007 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 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_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 3352 Nucleic Acid Atoms Solvent Atoms 125 Heterogen Atoms 46
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling PHASER phasing