5OAX

Galectin-3c in complex with thiogalactoside derivate


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION29819.2 mg/mL GALECTIN-3C, 100mM NaCl, 0.1 M TRIS/HCL, pH 7.5, 30 % PEG 4000, 0.4 M NaSCN, 0.1M MgCl2, 10 mM BETA-MERCAPTOETHANOL, 4.9 mM INHIBITOR COMPOUND
Crystal Properties
Matthews coefficientSolvent content
2.141.43

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 36.19α = 90
b = 58.15β = 90
c = 62.81γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDMARMOSAIC 225 mm CCD2013-08-12MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONMAX II BEAMLINE I911-21.000MAX III911-2

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
11.23099.70.05719.35.5423179.2

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 REPLACEMENTTHROUGHOUT1.229.0740200211699.780.104120.102640.13195RANDOM12.979
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]
-0.230.39-0.16
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free44.796
r_dihedral_angle_2_deg34.833
r_sphericity_bonded17.38
r_dihedral_angle_4_deg13.641
r_long_range_B_other13.479
r_long_range_B_refined13.471
r_dihedral_angle_3_deg13.073
r_dihedral_angle_1_deg7.822
r_rigid_bond_restr5.376
r_scangle_other3.327
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free44.796
r_dihedral_angle_2_deg34.833
r_sphericity_bonded17.38
r_dihedral_angle_4_deg13.641
r_long_range_B_other13.479
r_long_range_B_refined13.471
r_dihedral_angle_3_deg13.073
r_dihedral_angle_1_deg7.822
r_rigid_bond_restr5.376
r_scangle_other3.327
r_scbond_it3.216
r_scbond_other3.205
r_angle_refined_deg2.522
r_mcangle_it1.859
r_mcangle_other1.859
r_mcbond_other1.431
r_mcbond_it1.429
r_angle_other_deg1.318
r_chiral_restr0.152
r_bond_refined_d0.026
r_gen_planes_refined0.015
r_gen_planes_other0.007
r_bond_other_d0.003
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_scangle_it
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1106
Nucleic Acid Atoms
Solvent Atoms229
Heterogen Atoms48

Software

Software
Software NamePurpose
REFMACrefinement