2J1U

Structure of a Streptococcus pneumoniae fucose binding module in complex with the blood group A-tetrasaccharide


X-RAY DIFFRACTION

Crystallization

Crystal Properties
Matthews coefficientSolvent content
1.7529.36

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 43.649α = 90
b = 60.372β = 90
c = 99.087γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray113 MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODE

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
11.82094.90.079.63.7236772
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)
11.81.8698.50.3233.4

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (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 REPLACEMENTTHROUGHOUT1.851.322454121794.70.1740.1710.236RANDOM25.16
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]
0.66-0.17-0.49
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg7
r_scangle_it4.216
r_scbond_it2.643
r_angle_refined_deg1.69
r_mcangle_it1.667
r_angle_other_deg1.026
r_mcbond_it1.011
r_symmetry_vdw_other0.299
r_nbd_other0.256
r_symmetry_vdw_refined0.225
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_1_deg7
r_scangle_it4.216
r_scbond_it2.643
r_angle_refined_deg1.69
r_mcangle_it1.667
r_angle_other_deg1.026
r_mcbond_it1.011
r_symmetry_vdw_other0.299
r_nbd_other0.256
r_symmetry_vdw_refined0.225
r_nbd_refined0.19
r_symmetry_hbond_refined0.18
r_xyhbond_nbd_refined0.179
r_chiral_restr0.178
r_nbtor_other0.089
r_bond_refined_d0.018
r_gen_planes_refined0.009
r_gen_planes_other0.009
r_bond_other_d0.002
r_dihedral_angle_2_deg
r_dihedral_angle_3_deg
r_dihedral_angle_4_deg
r_nbtor_refined
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_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 Atoms2193
Nucleic Acid Atoms
Solvent Atoms405
Heterogen Atoms49

Software

Software
Software NamePurpose
REFMACrefinement
MOLREPphasing