4C1Y

Crystal Structure of Fucose binding lectin from Aspergillus Fumigatus (AFL) in complex with b-methylfucoside


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4AGIPDB ENTRY 4AGI

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
10.2M CACL2, 25% PEG4K, 0.1M TRIS, PH 8.0
Crystal Properties
Matthews coefficientSolvent content
2.244.24

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 71.211α = 90
b = 90.335β = 90
c = 189.168γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCHMIRRORS2011-09-21MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONBESSY BEAMLINE 14.2BESSY14.2

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
12.2347.29990.136.148.256864-3
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)
12.232.2997.80.35

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 4AGI2.2348.1456864299399.010.246110.242550.31339RANDOM26.964
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]
-0.73-1.92.63
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.04
r_dihedral_angle_3_deg15.163
r_dihedral_angle_4_deg14.272
r_dihedral_angle_1_deg8.308
r_mcangle_it2.682
r_mcbond_it1.68
r_mcbond_other1.68
r_scbond_it1.541
r_angle_refined_deg1.495
r_angle_other_deg0.791
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg35.04
r_dihedral_angle_3_deg15.163
r_dihedral_angle_4_deg14.272
r_dihedral_angle_1_deg8.308
r_mcangle_it2.682
r_mcbond_it1.68
r_mcbond_other1.68
r_scbond_it1.541
r_angle_refined_deg1.495
r_angle_other_deg0.791
r_chiral_restr0.085
r_bond_refined_d0.012
r_gen_planes_refined0.007
r_bond_other_d0.002
r_gen_planes_other0.001
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_it
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 Atoms9754
Nucleic Acid Atoms
Solvent Atoms136
Heterogen Atoms203

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing