☰ Navigation Tabs
Crystal Structure of Fucose binding lectin from Aspergillus Fumigatus (AFL) - apo-form
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4AGI PDB ENTRY 4AGI
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 0.1M CACL2, 20% PEG4K, 0.1M TRIS, PH 8.5
Crystal Properties Matthews coefficient Solvent content 1.9 35.33
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.631 α = 90 b = 140.218 β = 92.15 c = 78.791 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 PILATUS 6M SAGITALLY BENDED SI111- CRYSTAL 2014-05-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 BESSY 14.1
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 2.4 78.74 99.7 0.06 12.9 4.1 40256 -3
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 2.4 2.53 99.5 0.11 8.7 4.2
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 PDB ENTRY 4AGI 2.4 78.74 38050 2008 99.28 0.221 0.217 0.2242 0.279 0.2794 RANDOM 11.3
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] -0.66 -0.62 -1.96 2.66
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.953 r_dihedral_angle_3_deg 15.185 r_dihedral_angle_4_deg 14.872 r_dihedral_angle_1_deg 8.05 r_angle_refined_deg 1.61 r_mcangle_it 1.511 r_angle_other_deg 1.33 r_scangle_it 1.161 r_mcbond_other 0.849 r_mcbond_it 0.848
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.953 r_dihedral_angle_3_deg 15.185 r_dihedral_angle_4_deg 14.872 r_dihedral_angle_1_deg 8.05 r_angle_refined_deg 1.61 r_mcangle_it 1.511 r_angle_other_deg 1.33 r_scangle_it 1.161 r_mcbond_other 0.849 r_mcbond_it 0.848 r_scbond_it 0.666 r_chiral_restr 0.088 r_bond_refined_d 0.014 r_gen_planes_refined 0.007 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_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 9755 Nucleic Acid Atoms Solvent Atoms 526 Heterogen Atoms 14
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling REFMAC phasing