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Crystal structure of the putative cap-binding domain of the PB2 subunit of Thogoto virus polymerase
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6 293 THE PROTEIN WAS CONCENTRATED TO 9 MG/ML IN A BUFFER CONTAINING 20 MM TRIS PH 7.0, 200 MM NACL AND 5 MM BETA-MERCAPTOETHANOL. THE BEST-DIFFRACTING CRYSTALS GREW WITHIN 2 DAYS AT 20 C IN A SOLUTION CONTAINING 100 MM BIS-TRIS PH 6.0, 100 MM MGCL2 AND 22 % PEG3350.
Crystal Properties Matthews coefficient Solvent content 3.1 60.4
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 109.62 α = 90 b = 109.62 β = 90 c = 39.06 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARMOSAIC 225 mm CCD 2008-02-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 ESRF ID23-2
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 1.8 50 99.7 0.06 16.5 5.2 21746
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 1.8 1.85 99.6 0.64 2.4 3.7
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 SAD THROUGHOUT NONE 1.8 77.62 20631 1115 99.67 0.17268 0.17161 0.19215 0.2041 RANDOM 25.115
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] -0.65 -0.65 1.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.395 r_dihedral_angle_4_deg 16.232 r_dihedral_angle_3_deg 10.836 r_dihedral_angle_1_deg 5.861 r_angle_refined_deg 1.204 r_angle_other_deg 0.803 r_chiral_restr 0.081 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 r_bond_other_d 0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.395 r_dihedral_angle_4_deg 16.232 r_dihedral_angle_3_deg 10.836 r_dihedral_angle_1_deg 5.861 r_angle_refined_deg 1.204 r_angle_other_deg 0.803 r_chiral_restr 0.081 r_bond_refined_d 0.007 r_gen_planes_refined 0.006 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_mcbond_it r_mcbond_other r_mcangle_it r_mcangle_other r_scbond_it 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 1305 Nucleic Acid Atoms Solvent Atoms 188 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction XSCALE data scaling autoSHARP phasing