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Influenza polymerase basic protein 2 (PB2) bound to 7-methyl-GTP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2VQZ PDB ENTRY 2VQZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.7 298 0.7 uL of protein solution (9.7 mg/mL protein, 50 mM Tris buffer pH 8, 200 mM sodium chloride, 2 mM dithiothreitol, 5 mM m7GTP) was mixed with 0.35 uL Hampton Research Silver Bullet screening reagent #36. This mixture was combined with 0.35 uL of well solution (approximately 1.3 M sodium formate, 100 mM sodium citrate buffer pH 4.6, 5 mM dithiothreitol) and suspended over 1 mL of well solution, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.72 54.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.44 α = 90 b = 81.44 β = 90 c = 54.56 γ = 120
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 ADSC QUANTUM 315 2008-08-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.2 1.0 ALS 5.0.2
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 2.3 29.62 100 0.134 8.3 6.45 9272 9272 1 1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 2VQZ 2.3 29.62 9272 8830 442 99.9 0.19625 0.19625 0.1946 0.1996 0.22929 0.2384 RANDOM 25.577
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] 0.85 0.42 0.85 -1.27
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.349 r_dihedral_angle_4_deg 21.365 r_dihedral_angle_3_deg 18.258 r_dihedral_angle_1_deg 6.455 r_scangle_it 2.62 r_scbond_it 1.596 r_angle_refined_deg 1.386 r_mcangle_it 0.893 r_mcbond_it 0.444 r_chiral_restr 0.104
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.349 r_dihedral_angle_4_deg 21.365 r_dihedral_angle_3_deg 18.258 r_dihedral_angle_1_deg 6.455 r_scangle_it 2.62 r_scbond_it 1.596 r_angle_refined_deg 1.386 r_mcangle_it 0.893 r_mcbond_it 0.444 r_chiral_restr 0.104 r_bond_refined_d 0.011 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1290 Nucleic Acid Atoms Solvent Atoms 43 Heterogen Atoms 81
Software Software Software Name Purpose PHASER phasing REFMAC refinement d*TREK data reduction d*TREK data scaling