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Crystal Structure of the RNA-dependent RNA Polymerase 3D from human rhinovirus serotype 14
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 286 sodium formate, glycerol, pH 7.00, VAPOR DIFFUSION, HANGING DROP, temperature 286K
Crystal Properties Matthews coefficient Solvent content 3.94 70
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.326 α = 90 b = 97.326 β = 90 c = 153.113 γ = 120
Symmetry Space Group P 31 2 1
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 MARRESEARCH M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 1.844 APS 17-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 2.8 99 0.102 0.102 15 5.3 36073 36073
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2.8 2.9 32 0.41 0.41 1.3 1.5
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 2.8 20 18615 18615 1008 92.67 0.2665 0.26508 0.29275 RANDOM 57.69
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] 2.05 1.03 2.05 -3.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.804 r_dihedral_angle_4_deg 18.663 r_dihedral_angle_1_deg 6.102 r_scangle_it 1.782 r_angle_other_deg 1.229 r_angle_refined_deg 1.223 r_mcangle_it 0.976 r_scbond_it 0.963 r_mcbond_it 0.512 r_nbtor_refined 0.322
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.804 r_dihedral_angle_4_deg 18.663 r_dihedral_angle_1_deg 6.102 r_scangle_it 1.782 r_angle_other_deg 1.229 r_angle_refined_deg 1.223 r_mcangle_it 0.976 r_scbond_it 0.963 r_mcbond_it 0.512 r_nbtor_refined 0.322 r_nbd_other 0.221 r_nbd_refined 0.209 r_symmetry_vdw_other 0.193 r_xyhbond_nbd_refined 0.161 r_symmetry_vdw_refined 0.147 r_nbtor_other 0.087 r_metal_ion_refined 0.08 r_chiral_restr 0.064 r_bond_refined_d 0.009 r_gen_planes_refined 0.003 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_dihedral_angle_3_deg r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_refined r_symmetry_hbond_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 3678 Nucleic Acid Atoms Solvent Atoms 2 Heterogen Atoms 1
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling SHARP phasing REFMAC refinement