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HCV NS5B polymerase with a fragment of quercetagetin
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2HAI PDB entry 2HAI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.1 291 0.2 M sodium acetate (pH 5.1), 16% (w/v) PEG 4000, 2 mM DTT, 5% glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 3.03 59.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.6 α = 90 b = 108.87 β = 90 c = 134.97 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 CCD ADSC QUANTUM 210 2008-12-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.933400 ESRF ID14-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.57 48.9 94.8 48162 45600 2.3 8.2
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB entry 2HAI 2.57 48.9 45600 2433 94.68 0.22063 0.21572 0.2155 0.27705 0.275 RANDOM 28.051
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] -0.16 -0.26 0.42
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.147 r_dihedral_angle_3_deg 17.941 r_dihedral_angle_4_deg 15.489 r_dihedral_angle_1_deg 6.087 r_long_range_B_refined 2.645 r_long_range_B_other 2.645 r_mcangle_it 1.526 r_mcangle_other 1.526 r_scangle_other 1.328 r_angle_refined_deg 1.289
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.147 r_dihedral_angle_3_deg 17.941 r_dihedral_angle_4_deg 15.489 r_dihedral_angle_1_deg 6.087 r_long_range_B_refined 2.645 r_long_range_B_other 2.645 r_mcangle_it 1.526 r_mcangle_other 1.526 r_scangle_other 1.328 r_angle_refined_deg 1.289 r_mcbond_it 0.863 r_mcbond_other 0.863 r_angle_other_deg 0.77 r_scbond_it 0.752 r_scbond_other 0.752 r_chiral_restr 0.068 r_bond_refined_d 0.008 r_gen_planes_refined 0.005 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8535 Nucleic Acid Atoms Solvent Atoms 226 Heterogen Atoms 8
Software Software Software Name Purpose DNA data collection MOLREP phasing REFMAC refinement MOSFLM data reduction SCALA data scaling