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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 4.7 293 2.9M SODIUM FORMATE, 0.1M SODIUM CITRATE, pH 4.7, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.39 48.58
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.025 α = 90 b = 81.025 β = 90 c = 90.249 γ = 90
Symmetry Space Group P 43 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 NOIR-1 2009-02-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 4.2.2 0.979 ALS 4.2.2
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 2.4 50 100 0.15 21.3 14 12297 12297
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 2.4 2.42 100 0.876 3.8 13.6
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 2.4 48.39 11623 11623 582 99.63 0.1826 0.1826 0.17906 0.1847 0.25407 0.2532 RANDOM 4.678
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] -0.12 -0.12 0.25
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.678 r_dihedral_angle_4_deg 18.302 r_dihedral_angle_3_deg 14.584 r_dihedral_angle_1_deg 5.472 r_angle_refined_deg 1.215 r_mcangle_it 0.308 r_nbtor_refined 0.291 r_scangle_it 0.186 r_nbd_refined 0.177 r_mcbond_it 0.177
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.678 r_dihedral_angle_4_deg 18.302 r_dihedral_angle_3_deg 14.584 r_dihedral_angle_1_deg 5.472 r_angle_refined_deg 1.215 r_mcangle_it 0.308 r_nbtor_refined 0.291 r_scangle_it 0.186 r_nbd_refined 0.177 r_mcbond_it 0.177 r_symmetry_hbond_refined 0.175 r_symmetry_vdw_refined 0.14 r_xyhbond_nbd_refined 0.132 r_scbond_it 0.121 r_chiral_restr 0.076 r_bond_refined_d 0.01 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1910 Nucleic Acid Atoms 168 Solvent Atoms 233 Heterogen Atoms 10
Software Software Software Name Purpose CrystalClear data collection PHASER phasing REFMAC refinement d*TREK data reduction d*TREK data scaling