2VCO

Crystal structure of the fimbrial adhesin FimH in complex with its high-mannose epitope


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 1UWFPDB ENTRY 1UWF

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
18.51.0 M LI2SO4, 0.1 M TRIS-HCL PH 8.5, 0.01 M NICL2, 3% GLYCEROL
Crystal Properties
Matthews coefficientSolvent content
2.7755.6

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 90.562α = 90
b = 90.562β = 90
c = 79.48γ = 120
Symmetry
Space GroupP 31 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCHMIRRORS2007-02-24MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONEMBL/DESY, HAMBURG BEAMLINE X12EMBL/DESY, HAMBURGX12

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
12.1781000.1166.427947914.34
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.12.141000.425.86

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 1UWF2.178.3322312113599.80.1870.1840.241RANDOM27.63
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]
0.850.430.85-1.28
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.434
r_dihedral_angle_4_deg19.532
r_dihedral_angle_3_deg14.623
r_dihedral_angle_1_deg8.431
r_scangle_it3.843
r_scbond_it2.565
r_mcangle_it1.637
r_angle_refined_deg1.178
r_mcbond_it1.027
r_nbtor_refined0.322
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.434
r_dihedral_angle_4_deg19.532
r_dihedral_angle_3_deg14.623
r_dihedral_angle_1_deg8.431
r_scangle_it3.843
r_scbond_it2.565
r_mcangle_it1.637
r_angle_refined_deg1.178
r_mcbond_it1.027
r_nbtor_refined0.322
r_symmetry_vdw_refined0.247
r_nbd_refined0.218
r_symmetry_hbond_refined0.191
r_xyhbond_nbd_refined0.187
r_chiral_restr0.084
r_bond_refined_d0.01
r_gen_planes_refined0.008
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 AtomsNumber
Protein Atoms2388
Nucleic Acid Atoms
Solvent Atoms420
Heterogen Atoms131

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
SCALEPACKdata scaling
MOLREPphasing