☰ Navigation Tabs
Crystal Structure of viral RdRp in complex with GTP
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2HFZ PDB ENTRY 2HFZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8 298 pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 298.0K
Crystal Properties Matthews coefficient Solvent content 2.4 48.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 144.574 α = 90 b = 86.554 β = 90 c = 112.65 γ = 90
Symmetry Space Group P 21 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 100 CCD MARMOSAIC 225 mm CCD 2010-11-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 ESRF BM14
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 2.38 50 99.7 0.084 17 5.3 57470
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.38 2.44 99.5 0.473 2.7 5.3
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 2HFZ 2.38 50 53264 4037 99.7 0.224 0.22 0.2159 0.276 0.2714 RANDOM 35.65
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] 3.07 -2.56 -0.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.617 r_dihedral_angle_4_deg 17.158 r_dihedral_angle_3_deg 16.975 r_dihedral_angle_1_deg 6.993 r_scangle_it 5.889 r_scbond_it 3.865 r_mcangle_it 2.255 r_angle_refined_deg 1.587 r_mcbond_it 1.291 r_chiral_restr 0.108
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.617 r_dihedral_angle_4_deg 17.158 r_dihedral_angle_3_deg 16.975 r_dihedral_angle_1_deg 6.993 r_scangle_it 5.889 r_scbond_it 3.865 r_mcangle_it 2.255 r_angle_refined_deg 1.587 r_mcbond_it 1.291 r_chiral_restr 0.108 r_bond_refined_d 0.017 r_gen_planes_refined 0.007 r_bond_other_d r_angle_other_deg r_gen_planes_other 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_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9838 Nucleic Acid Atoms Solvent Atoms 455 Heterogen Atoms 68
Software Software Software Name Purpose MxCuBE data collection MOLREP phasing PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling