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Adenovirus species 26 knob protein, high resolution, High pH
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1KNB
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 293 PACT Premier A04: 0.1 M SPG, 25% PEG 1500
Crystal Properties Matthews coefficient Solvent content 2.53 51.31
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.717 α = 90 b = 85.717 β = 90 c = 85.717 γ = 90
Symmetry Space Group P 21 3
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 2017-05-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9795 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.09 60.61 100 0.068 0.069 1 21.7 21 88303 9.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.09 1.14 100 0.921 0.951 0.874 2.6 16.5
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 1KNB 1.09 60.61 83978 4287 99.98 0.16787 0.16743 0.1753 0.17664 0.1841 RANDOM 16.327
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 37.487 r_dihedral_angle_4_deg 16.947 r_dihedral_angle_3_deg 13.828 r_dihedral_angle_1_deg 7.166 r_long_range_B_refined 4.974 r_long_range_B_other 4.861 r_angle_refined_deg 1.891 r_scangle_other 1.691 r_mcangle_it 1.32 r_mcangle_other 1.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.487 r_dihedral_angle_4_deg 16.947 r_dihedral_angle_3_deg 13.828 r_dihedral_angle_1_deg 7.166 r_long_range_B_refined 4.974 r_long_range_B_other 4.861 r_angle_refined_deg 1.891 r_scangle_other 1.691 r_mcangle_it 1.32 r_mcangle_other 1.32 r_scbond_it 1.136 r_scbond_other 1.127 r_angle_other_deg 1.072 r_mcbond_it 0.795 r_mcbond_other 0.793 r_chiral_restr 0.12 r_bond_refined_d 0.017 r_gen_planes_refined 0.011 r_bond_other_d 0.004 r_gen_planes_other 0.003 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 1462 Nucleic Acid Atoms Solvent Atoms 211 Heterogen Atoms 22
Software Software Software Name Purpose REFMAC refinement xia2 data reduction XDS data reduction Aimless data scaling PHASER phasing