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Crystal structure of Sudan Ebolavirus Glycoprotein (strain Boniface) bound to 16F6
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3CSY PDB ENTRY 3CSY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.4 300 15% (w/v) PEG 3350, 0.2 M lithium citrate, and 1.5% benzamidine hydrochloride, pH 8.4, VAPOR DIFFUSION, HANGING DROP, temperature 300K
Crystal Properties Matthews coefficient Solvent content 3.1 60.38
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 194.859 α = 90 b = 194.859 β = 90 c = 194.859 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 77 CCD ADSC QUANTUM 315r 2008-06-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.1159 ALS 8.3.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 3.35 50 100 0.049 0.079 13.4 8.4 17818 17818 1 1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.35 3.47 100 0.691 0.777 2.8 8.5
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 (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 3CSY 3.353 45.93 17818 16866 908 99.79 0.22523 0.22173 0.2135 0.28949 0.2759 RANDOM 142.918
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 36.564 r_dihedral_angle_3_deg 22.83 r_dihedral_angle_4_deg 20.288 r_dihedral_angle_1_deg 7.049 r_scangle_it 5.405 r_mcangle_it 4.393 r_scbond_it 3.164 r_mcbond_it 2.428 r_rigid_bond_restr 2.288 r_angle_refined_deg 1.538
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.564 r_dihedral_angle_3_deg 22.83 r_dihedral_angle_4_deg 20.288 r_dihedral_angle_1_deg 7.049 r_scangle_it 5.405 r_mcangle_it 4.393 r_scbond_it 3.164 r_mcbond_it 2.428 r_rigid_bond_restr 2.288 r_angle_refined_deg 1.538 r_chiral_restr 0.103 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 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_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5924 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 78
Software Software Software Name Purpose ADSC data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling