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Structure of the distal domain of mouse adenovirus 2 fibre, P21 native
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5N83
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 294 10 mM Tris-HCl, 4.0 M ammonium formate, 0.1 M HEPES-NaOH
Crystal Properties Matthews coefficient Solvent content 2.61 52.88
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 93.88 α = 90 b = 100.6 β = 116.28 c = 95.47 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 2014-01-31 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALBA BEAMLINE XALOC 1.0023 ALBA XALOC
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 1.8 29.66 98.2 0.078 0.989 7.1 2.8 144435 16.5
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 1.8 1.83 97.8 0.334 0.857 2.1 2.9
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 5N83 1.8 29.66 140696 3644 98.09 0.16889 0.16803 0.1774 0.20082 0.208 THIN SHELLS 24.019
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] -1.23 0.44 -0.19 0.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.294 r_dihedral_angle_4_deg 19.871 r_dihedral_angle_3_deg 11.997 r_dihedral_angle_1_deg 6.752 r_long_range_B_refined 6.583 r_long_range_B_other 6.247 r_scangle_other 3.86 r_mcangle_it 2.884 r_mcangle_other 2.884 r_scbond_it 2.406
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.294 r_dihedral_angle_4_deg 19.871 r_dihedral_angle_3_deg 11.997 r_dihedral_angle_1_deg 6.752 r_long_range_B_refined 6.583 r_long_range_B_other 6.247 r_scangle_other 3.86 r_mcangle_it 2.884 r_mcangle_other 2.884 r_scbond_it 2.406 r_scbond_other 2.405 r_mcbond_it 1.809 r_mcbond_other 1.808 r_angle_refined_deg 1.588 r_angle_other_deg 0.887 r_chiral_restr 0.092 r_bond_refined_d 0.013 r_gen_planes_refined 0.008 r_bond_other_d 0.002 r_gen_planes_other 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 9040 Nucleic Acid Atoms Solvent Atoms 1664 Heterogen Atoms 50
Software Software Software Name Purpose MOSFLM data reduction Aimless data scaling Coot model building REFMAC refinement