8RRA

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 DROP29360% "Tacsimate" pH 7.0
Crystal Properties
Matthews coefficientSolvent content
1.9637.17

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 35.47α = 90
b = 57.06β = 90
c = 60.75γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 2M2022-04-30MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONSLS BEAMLINE X06DA0.7999SLSX06DA

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
1141.5999.80.0720.9987.923.4252360
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)
111.0699.73.350.1750.4

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-VALUE1.330.6331039155999.9610.1660.16450.17620.19680.207914.986
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]
-1.8942.673-0.779
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg15.981
r_lrange_it13.359
r_lrange_other12.124
r_dihedral_angle_3_deg11.1
r_scangle_it8.058
r_scangle_other8.022
r_dihedral_angle_1_deg7.87
r_dihedral_angle_2_deg7.077
r_mcangle_it6.255
r_mcangle_other6.255
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg15.981
r_lrange_it13.359
r_lrange_other12.124
r_dihedral_angle_3_deg11.1
r_scangle_it8.058
r_scangle_other8.022
r_dihedral_angle_1_deg7.87
r_dihedral_angle_2_deg7.077
r_mcangle_it6.255
r_mcangle_other6.255
r_rigid_bond_restr5.899
r_scbond_it5.789
r_scbond_other5.758
r_mcbond_it4.748
r_mcbond_other4.693
r_angle_refined_deg1.864
r_chiral_restr_other1.61
r_angle_other_deg1.005
r_nbd_refined0.239
r_symmetry_xyhbond_nbd_refined0.218
r_symmetry_nbd_other0.195
r_xyhbond_nbd_refined0.182
r_nbtor_refined0.172
r_nbd_other0.171
r_symmetry_nbd_refined0.161
r_chiral_restr0.103
r_symmetry_nbtor_other0.086
r_bond_refined_d0.012
r_gen_planes_refined0.01
r_bond_other_d0.002
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1108
Nucleic Acid Atoms
Solvent Atoms146
Heterogen Atoms44

Software

Software
Software NamePurpose
REFMACrefinement
autoPROCdata reduction
XSCALEdata scaling
PHASERphasing