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Co-complex structure of the F4 fimbrial adhesin FaeG variant ad with llama single domain antibody V3
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3HLR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 0.12 M Ethylene Glycols (Di-Ethyleneglycol; Tri-Ethyleneglycol; TetraEthyleneglycol; Penta-Ethyleneglycol); 0.1 M Tris (base); Bicine pH 8.5; 37.50% % v/v MPD (racemic); PEG 1K; PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.44 49.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.8 α = 90 b = 95.2 β = 90 c = 113 γ = 90
Symmetry Space Group P 2 21 21
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 2013-02-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.98 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.61 29.52 98.3 16.1 10.6 26553
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.61 2.67 79.6 1.1 3.8
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 3HLR 2.61 29.54 25194 1326 98.32 0.20643 0.20449 0.2077 0.24296 0.2457 RANDOM 61.337
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] -0.1 0.75 -0.65
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.481 r_dihedral_angle_4_deg 19.393 r_dihedral_angle_3_deg 16.939 r_dihedral_angle_1_deg 7.265 r_long_range_B_refined 5.244 r_long_range_B_other 5.243 r_scangle_other 3.93 r_mcangle_it 3.078 r_mcangle_other 3.078 r_scbond_it 2.495
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.481 r_dihedral_angle_4_deg 19.393 r_dihedral_angle_3_deg 16.939 r_dihedral_angle_1_deg 7.265 r_long_range_B_refined 5.244 r_long_range_B_other 5.243 r_scangle_other 3.93 r_mcangle_it 3.078 r_mcangle_other 3.078 r_scbond_it 2.495 r_scbond_other 2.49 r_mcbond_it 1.988 r_mcbond_other 1.987 r_angle_refined_deg 1.601 r_angle_other_deg 1 r_chiral_restr 0.094 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d 0.004 r_gen_planes_other 0.003 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 5287 Nucleic Acid Atoms Solvent Atoms 29 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling PHASER phasing