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HCV NS5B polymerase in complex with 1,5 benzodiazepine inhibitor 1b
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3CSO PDB ENTRY 3CSO
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.75 293 5-8% PEG 6000, 100mM Mg-Salts, pH 6.75, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.96 58.46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 106.291 α = 90 b = 107.965 β = 90 c = 133.799 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 MARMOSAIC 225 mm CCD 2006-05-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 0.97630 SLS X10SA
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 2.75 83.33 99.99 38684 38684
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.75 2.9 99.99
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 3CSO 2.75 83.33 38684 38684 2037 99.99 0.17713 0.17713 0.17407 0.1982 0.23443 0.248 RANDOM 19.058
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] 1.78 -0.66 -1.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.035 r_dihedral_angle_4_deg 19.43 r_dihedral_angle_3_deg 17.81 r_dihedral_angle_1_deg 6.044 r_scangle_it 5.898 r_scbond_it 4.182 r_mcangle_it 2.721 r_mcbond_it 2.277 r_angle_other_deg 1.942 r_angle_refined_deg 1.301
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.035 r_dihedral_angle_4_deg 19.43 r_dihedral_angle_3_deg 17.81 r_dihedral_angle_1_deg 6.044 r_scangle_it 5.898 r_scbond_it 4.182 r_mcangle_it 2.721 r_mcbond_it 2.277 r_angle_other_deg 1.942 r_angle_refined_deg 1.301 r_nbd_refined 0.214 r_nbd_other 0.205 r_symmetry_vdw_other 0.203 r_nbtor_refined 0.184 r_mcbond_other 0.175 r_xyhbond_nbd_refined 0.155 r_symmetry_hbond_refined 0.144 r_symmetry_vdw_refined 0.135 r_nbtor_other 0.085 r_chiral_restr 0.067 r_bond_refined_d 0.011 r_gen_planes_other 0.005 r_gen_planes_refined 0.004 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8695 Nucleic Acid Atoms Solvent Atoms 176 Heterogen Atoms 86
Software Software Software Name Purpose XDS data scaling REFMAC refinement XDS data reduction XSCALE data scaling