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Crystal Structure of HCV NS5B RNA polymerase in complex with PF868554
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.5 298 Stock crystals generated from 2uL Protein:AG9322(1:5)+ 2uL precipitant equilibrated against reservoir 18.0% PEG 3K, 0.1M Citrate pH 5.5, 14% Glycerol, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 83.2 α = 90 b = 83.2 β = 90 c = 180.263 γ = 90
Symmetry Space Group P 41 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 101 IMAGE PLATE MAR scanner 345 mm plate OSMIC CONFOCAL OPTICS 2004-08-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-D 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.86 10 97.4 0.033 11.98 52311 52311
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.86 1.93 95.3 0.205 13.4 11.9 5021
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 FOURIER SYNTHESIS THROUGHOUT 1.86 10 52311 49603 2662 97.47 0.17726 0.17487 0.1872 0.2214 0.2309 RANDOM 26.046
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] -0.11 -0.11 0.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.516 r_scangle_it 4.035 r_scbond_it 2.617 r_mcangle_it 1.661 r_angle_refined_deg 1.482 r_mcbond_it 0.913 r_angle_other_deg 0.857 r_nbd_other 0.25 r_symmetry_vdw_other 0.235 r_nbd_refined 0.212
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 5.516 r_scangle_it 4.035 r_scbond_it 2.617 r_mcangle_it 1.661 r_angle_refined_deg 1.482 r_mcbond_it 0.913 r_angle_other_deg 0.857 r_nbd_other 0.25 r_symmetry_vdw_other 0.235 r_nbd_refined 0.212 r_symmetry_hbond_refined 0.197 r_symmetry_vdw_refined 0.158 r_xyhbond_nbd_refined 0.148 r_chiral_restr 0.095 r_nbtor_other 0.085 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4325 Nucleic Acid Atoms Solvent Atoms 660 Heterogen Atoms 69
Software Software Software Name Purpose MAR345dtb data collection ARP/wARP model building REFMAC refinement DENZO data reduction SCALEPACK data scaling