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Adenovirus species 26 knob protein, very high resolution
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 4 293 PACT premier A01: 0.1 M SPG buffer, 25% PEG 1500
Crystal Properties Matthews coefficient Solvent content 2.55 51.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 85.776 α = 90 b = 85.776 β = 90 c = 85.776 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 1.17 85.78 100 0.065 0.066 1 24.8 21.8 71878 12.2
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 1.17 1.23 100 1.37 1.404 0.825 2.3 21.2
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 1.17 60.65 68283 3558 100 0.16992 0.16886 0.1755 0.19018 0.1933 RANDOM 19.89
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 36.542 r_dihedral_angle_4_deg 23.297 r_dihedral_angle_3_deg 13.279 r_dihedral_angle_1_deg 7.101 r_long_range_B_refined 5.654 r_long_range_B_other 5.516 r_scangle_other 2.208 r_angle_refined_deg 2.08 r_mcangle_other 1.982 r_mcangle_it 1.981
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.542 r_dihedral_angle_4_deg 23.297 r_dihedral_angle_3_deg 13.279 r_dihedral_angle_1_deg 7.101 r_long_range_B_refined 5.654 r_long_range_B_other 5.516 r_scangle_other 2.208 r_angle_refined_deg 2.08 r_mcangle_other 1.982 r_mcangle_it 1.981 r_scbond_it 1.453 r_scbond_other 1.45 r_mcbond_it 1.149 r_mcbond_other 1.147 r_angle_other_deg 1.096 r_chiral_restr 0.122 r_bond_refined_d 0.021 r_gen_planes_refined 0.012 r_gen_planes_other 0.004 r_bond_other_d 0.002 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 1452 Nucleic Acid Atoms Solvent Atoms 171 Heterogen Atoms 21
Software Software Software Name Purpose REFMAC refinement xia2 data reduction XDS data reduction Aimless data scaling PHASER phasing