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Galectin domain of porcine adenovirus type 4 NADC-1 isolate fibre complexed with N-acetyl-lactosamine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2WSU PDB ENTRY 2WSU, CHAIN A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8 35% (W/V) PEG 3350, 500 MM SODIUM NITRATE, 5 MM DITHIOTHREITOL, 40 MM N-ACETYL-LACTOSAMINE, 10 MM TRIS-HCL 8.0
Crystal Properties Matthews coefficient Solvent content 1.92 36
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 108.45 α = 90 b = 43.65 β = 105.82 c = 63.9 γ = 90
Symmetry Space Group C 1 2 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 IMAGE PLATE MAR555 FLAT PANEL BENT, VERTICALLY FOCUSSING MIRROR 2009-02-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 EMBL/DESY, HAMBURG X11
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.91 35 98 0.1 5.9 2.7 22025 2 25.423
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.91 2.01 98.5 0.31 2.7 2.7
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 PDB ENTRY 2WSU, CHAIN A 1.91 35 20895 1126 97.45 0.18443 0.18163 0.1842 0.23799 0.2377 RANDOM 26.591
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] -1.09 0.31 2.13 -0.87
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.303 r_dihedral_angle_4_deg 20.04 r_dihedral_angle_3_deg 13.064 r_dihedral_angle_1_deg 6.897 r_scangle_it 5.351 r_scbond_it 3.843 r_mcangle_it 3.443 r_mcbond_it 2.536 r_angle_refined_deg 1.345 r_mcbond_other 0.928
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.303 r_dihedral_angle_4_deg 20.04 r_dihedral_angle_3_deg 13.064 r_dihedral_angle_1_deg 6.897 r_scangle_it 5.351 r_scbond_it 3.843 r_mcangle_it 3.443 r_mcbond_it 2.536 r_angle_refined_deg 1.345 r_mcbond_other 0.928 r_angle_other_deg 0.857 r_symmetry_vdw_other 0.231 r_nbd_refined 0.193 r_nbd_other 0.186 r_nbtor_refined 0.168 r_symmetry_vdw_refined 0.164 r_xyhbond_nbd_refined 0.137 r_chiral_restr 0.091 r_symmetry_hbond_refined 0.09 r_nbtor_other 0.081 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2354 Nucleic Acid Atoms Solvent Atoms 163 Heterogen Atoms 42
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing