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Adenovirus species 26 knob protein, 0.97A
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 293 0.1 M MMT
25% PEG 1500
Crystal Properties Matthews coefficient Solvent content 2.55 51.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 86.012 α = 90 b = 86.012 β = 90 c = 86.012 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 X 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 0.97 60.82 94.9 0.043 0.045 1 27.3 16.7 118603
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 0.97 1 43.9 0.745 0.975 0.427 0.7 1.6
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 0.97 60.82 112612 5879 94.94 0.18279 0.18212 0.1909 0.19478 0.2023 RANDOM 15.776
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 36.516 r_dihedral_angle_4_deg 21.97 r_dihedral_angle_3_deg 14.403 r_dihedral_angle_1_deg 7.283 r_long_range_B_refined 4.32 r_long_range_B_other 4.21 r_angle_refined_deg 1.936 r_mcangle_it 1.624 r_mcangle_other 1.624 r_scangle_other 1.426
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.516 r_dihedral_angle_4_deg 21.97 r_dihedral_angle_3_deg 14.403 r_dihedral_angle_1_deg 7.283 r_long_range_B_refined 4.32 r_long_range_B_other 4.21 r_angle_refined_deg 1.936 r_mcangle_it 1.624 r_mcangle_other 1.624 r_scangle_other 1.426 r_angle_other_deg 1.094 r_mcbond_it 0.926 r_mcbond_other 0.924 r_scbond_it 0.893 r_scbond_other 0.89 r_chiral_restr 0.127 r_bond_refined_d 0.017 r_gen_planes_refined 0.011 r_gen_planes_other 0.003 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 1462 Nucleic Acid Atoms Solvent Atoms 224 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement xia2 data reduction XDS data reduction Aimless data scaling PHASER phasing