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Crystal structure of Zaire Ebola VP35 interferon inhibitory domain bound to 8 bp dsRNA
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3FKE PDB ENTRY 3FKE
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.2 293 3M SODIUM FORMATE, 0.1M SODIUM CITRATE, 5% GLYCEROL, pH 5.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.41 48.91
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.947 α = 90 b = 84.571 β = 90 c = 89.316 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 ADSC QUANTUM 315r 2009-03-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.979 APS 19-ID
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 50 100 0.121 15.9 4.8 41135 41135
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 2.03 100 0.758 2.2 4.7
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 3FKE 2 44.68 39012 39012 2038 99.7 0.17129 0.17129 0.16938 0.1803 0.20744 0.2176 RANDOM 17.138
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.192 r_dihedral_angle_4_deg 18.88 r_dihedral_angle_3_deg 13.732 r_dihedral_angle_1_deg 4.773 r_scangle_it 2.474 r_scbond_it 1.577 r_angle_other_deg 1.241 r_angle_refined_deg 1.226 r_mcangle_it 0.875 r_mcbond_it 0.471
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.192 r_dihedral_angle_4_deg 18.88 r_dihedral_angle_3_deg 13.732 r_dihedral_angle_1_deg 4.773 r_scangle_it 2.474 r_scbond_it 1.577 r_angle_other_deg 1.241 r_angle_refined_deg 1.226 r_mcangle_it 0.875 r_mcbond_it 0.471 r_symmetry_vdw_other 0.299 r_nbtor_refined 0.297 r_symmetry_vdw_refined 0.211 r_nbd_other 0.204 r_nbd_refined 0.191 r_symmetry_hbond_refined 0.142 r_xyhbond_nbd_refined 0.136 r_metal_ion_refined 0.097 r_chiral_restr 0.078 r_nbtor_other 0.069 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3862 Nucleic Acid Atoms 336 Solvent Atoms 335 Heterogen Atoms 94
Software Software Software Name Purpose HKL-3000 data collection PHASER phasing REFMAC refinement HKL-3000 data reduction SCALEPACK data scaling