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Foot and Mouth Disease Virus RNA-dependent RNA polymerase in complex with uridylylated VPg protein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1WNE Foot and Mouth disease Virus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 293 33% PEG4K, 0.2M ammonium acetate, 0.1M sodium citrate pH 5.6, 4% butyrolactone, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.3 46.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 94.381 α = 90 b = 94.381 β = 90 c = 99.726 γ = 120
Symmetry Space Group P 32 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 ADSC QUANTUM 4 2004-02-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 0.98 ESRF ID14-4
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 2.9 81.65 99.9 0.095 7.5 11795 11795 2 2
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) 2.9 3 99.9 0.455 2.8
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT Foot and Mouth disease Virus 2.9 30 2 11795 11125 555 99.03 0.285 0.2369 0.23414 0.28426 RANDOM 60.83
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] 1.02 0.51 1.02 -1.53
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.271 r_dihedral_angle_3_deg 18.547 r_dihedral_angle_4_deg 15.874 r_dihedral_angle_1_deg 4.976 r_angle_refined_deg 0.998 r_scangle_it 0.858 r_scbond_it 0.5 r_mcangle_it 0.496 r_nbtor_refined 0.303 r_mcbond_it 0.275
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.271 r_dihedral_angle_3_deg 18.547 r_dihedral_angle_4_deg 15.874 r_dihedral_angle_1_deg 4.976 r_angle_refined_deg 0.998 r_scangle_it 0.858 r_scbond_it 0.5 r_mcangle_it 0.496 r_nbtor_refined 0.303 r_mcbond_it 0.275 r_symmetry_hbond_refined 0.273 r_nbd_refined 0.201 r_symmetry_vdw_refined 0.163 r_xyhbond_nbd_refined 0.138 r_chiral_restr 0.071 r_bond_refined_d 0.007 r_gen_planes_refined 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3859 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 22
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling CNS phasing