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Ebola virus VP30 CTD bound to nucleoprotein
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2I8B
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.9 298 0.3 uL of 20 mg/mL protein mixed with 0.3 uL of 2.2 M ammonium sulfate, 100 mM sodium acetate pH 4.9
Crystal Properties Matthews coefficient Solvent content 2.07 40.58
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.875 α = 90 b = 116.784 β = 108.52 c = 95.038 γ = 90
Symmetry Space Group P 1 21 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 PIXEL DECTRIS PILATUS3 6M 2014-11-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 23-ID-D 1.033 APS 23-ID-D
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 2.2 90.12 98.6 0.12 0.99 7.3 3 89012 28.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.2 2.24 93 0.95 0.57 1.4 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 2I8B 2.2 90.12 84507 4477 98.56 0.21593 0.21416 0.2124 0.24925 0.2502 RANDOM 43.261
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] -0.19 -0.62 -3.41 3.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.663 r_dihedral_angle_4_deg 14.637 r_dihedral_angle_3_deg 13.818 r_long_range_B_refined 7.017 r_long_range_B_other 7.012 r_scangle_other 6.502 r_scbond_it 5.332 r_scbond_other 5.232 r_mcangle_other 3.989 r_mcangle_it 3.983
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.663 r_dihedral_angle_4_deg 14.637 r_dihedral_angle_3_deg 13.818 r_long_range_B_refined 7.017 r_long_range_B_other 7.012 r_scangle_other 6.502 r_scbond_it 5.332 r_scbond_other 5.232 r_mcangle_other 3.989 r_mcangle_it 3.983 r_angle_other_deg 3.884 r_mcbond_it 3.337 r_mcbond_other 3.326 r_dihedral_angle_1_deg 2.707 r_angle_refined_deg 1.578 r_chiral_restr 0.099 r_bond_refined_d 0.013 r_gen_planes_other 0.01 r_gen_planes_refined 0.007 r_bond_other_d 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 10805 Nucleic Acid Atoms Solvent Atoms 855 Heterogen Atoms 135
Software Software Software Name Purpose REFMAC refinement XDS data reduction XDS data scaling PHASER phasing