8RRG

Galectin-3 with a small molecule inhibitor


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelOtherInternal structure

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2931.8 M Ammonium citrate pH 7.0
Crystal Properties
Matthews coefficientSolvent content
1.9737.55

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 34.55α = 90
b = 57.57β = 90
c = 62.19γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 2M2022-12-30MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X06DA1.00SLSX06DA

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)Rrim I (All)CC (Half)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
11.2542.2599.50.0860.9976.793.3866250
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)Rrim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.251.322.480.1710.57

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (All)R-Work (Depositor)R-Work (DCC)R-Free (Depositor)R-Free (DCC)Mean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE1.442.24725105130299.8930.1890.18750.1910.20810.214519.456
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]
2.0090.598-2.607
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg13.084
r_dihedral_angle_3_deg11.804
r_dihedral_angle_1_deg7.37
r_lrange_it7.364
r_lrange_other6.692
r_dihedral_angle_2_deg3.672
r_scangle_it3.58
r_scangle_other3.574
r_mcangle_it3.052
r_mcangle_other3.052
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg13.084
r_dihedral_angle_3_deg11.804
r_dihedral_angle_1_deg7.37
r_lrange_it7.364
r_lrange_other6.692
r_dihedral_angle_2_deg3.672
r_scangle_it3.58
r_scangle_other3.574
r_mcangle_it3.052
r_mcangle_other3.052
r_scbond_it2.218
r_scbond_other2.213
r_mcbond_it1.891
r_mcbond_other1.886
r_angle_refined_deg1.59
r_chiral_restr_other1.457
r_rigid_bond_restr1.067
r_angle_other_deg0.461
r_nbd_refined0.19
r_symmetry_nbd_other0.184
r_nbtor_refined0.163
r_symmetry_nbd_refined0.156
r_nbd_other0.149
r_xyhbond_nbd_refined0.094
r_symmetry_xyhbond_nbd_refined0.085
r_symmetry_nbtor_other0.078
r_chiral_restr0.048
r_bond_refined_d0.004
r_gen_planes_refined0.003
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1103
Nucleic Acid Atoms
Solvent Atoms80
Heterogen Atoms42

Software

Software
Software NamePurpose
REFMACrefinement
autoPROCdata reduction
XSCALEdata scaling
PHASERphasing