4ASL

Structure of Epa1A in complex with the T-antigen (Gal-b1-3- GalNAc)


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
otherEPA1A WILD TYPE, COMPLEXED WITH LACTOSE CONTAMINANT

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
160.1M MES PH6.5 0.2M AMMOMIUM SULFATE 25% PEG 5000 MME 0.025 M LACTOSE
Crystal Properties
Matthews coefficientSolvent content
2.3146.72

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 74.6α = 89.9
b = 103.9β = 90
c = 69.4γ = 89.9
Symmetry
Space GroupC 2 2 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARRESEARCHMIRRORS2012-03-06MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONBESSY BEAMLINE 14.1BESSY14.1

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
11.241098.70.0322.74.175251-3
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)
11.241.3197.50.552.74.1

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 REPLACEMENTTHROUGHOUTEPA1A WILD TYPE, COMPLEXED WITH LACTOSE CONTAMINANT1.241072672257998.490.118640.117330.15521RANDOM14.974
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]
-0.580.96-0.38
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.63
r_dihedral_angle_3_deg13.991
r_dihedral_angle_4_deg12.496
r_dihedral_angle_1_deg7.082
r_scangle_it5.506
r_mcangle_it4.564
r_scbond_it3.886
r_mcbond_it3.081
r_rigid_bond_restr1.746
r_angle_refined_deg1.524
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg32.63
r_dihedral_angle_3_deg13.991
r_dihedral_angle_4_deg12.496
r_dihedral_angle_1_deg7.082
r_scangle_it5.506
r_mcangle_it4.564
r_scbond_it3.886
r_mcbond_it3.081
r_rigid_bond_restr1.746
r_angle_refined_deg1.524
r_mcbond_other0.906
r_angle_other_deg0.845
r_chiral_restr0.054
r_bond_refined_d0.013
r_gen_planes_refined0.009
r_gen_planes_other0.003
r_bond_other_d0.001
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_other
r_long_range_B_refined
r_long_range_B_other
r_sphericity_free
r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1820
Nucleic Acid Atoms
Solvent Atoms402
Heterogen Atoms44

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
SCALAdata scaling
XSCALEdata scaling
REFMACphasing