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Crystal structure of the fimbrial adhesin FimH in complex with its high-mannose epitope
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1UWF PDB ENTRY 1UWF
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 8.5 1.0 M LI2SO4, 0.1 M TRIS-HCL PH 8.5, 0.01 M NICL2, 3% GLYCEROL
Crystal Properties Matthews coefficient Solvent content 2.77 55.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.562 α = 90 b = 90.562 β = 90 c = 79.48 γ = 120
Symmetry Space Group P 31 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 CCD MARRESEARCH MIRRORS 2007-02-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X12 EMBL/DESY, HAMBURG X12
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 2.1 78 100 0.1 16 6.4 279479 14.34
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 2.1 2.14 100 0.42 5.8 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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1UWF 2.1 78.33 22312 1135 99.8 0.187 0.184 0.1861 0.241 RANDOM 27.63
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] 0.85 0.43 0.85 -1.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.434 r_dihedral_angle_4_deg 19.532 r_dihedral_angle_3_deg 14.623 r_dihedral_angle_1_deg 8.431 r_scangle_it 3.843 r_scbond_it 2.565 r_mcangle_it 1.637 r_angle_refined_deg 1.178 r_mcbond_it 1.027 r_nbtor_refined 0.322
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.434 r_dihedral_angle_4_deg 19.532 r_dihedral_angle_3_deg 14.623 r_dihedral_angle_1_deg 8.431 r_scangle_it 3.843 r_scbond_it 2.565 r_mcangle_it 1.637 r_angle_refined_deg 1.178 r_mcbond_it 1.027 r_nbtor_refined 0.322 r_symmetry_vdw_refined 0.247 r_nbd_refined 0.218 r_symmetry_hbond_refined 0.191 r_xyhbond_nbd_refined 0.187 r_chiral_restr 0.084 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_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 2388 Nucleic Acid Atoms Solvent Atoms 420 Heterogen Atoms 131
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling MOLREP phasing