8RRF

Galectin-3 with a small molecule inhibitor


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelOtherInternal unliganded structure

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2931.8 M Ammonium citrate pH 7.0
Crystal Properties
Matthews coefficientSolvent content
1.9436.59

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 34.48α = 90
b = 57.32β = 90
c = 61.64γ = 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
11.1530.09298.80.0610.9999.733.3782842
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)
11.151.2295.91.70.260.77

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-VALUE1.2530.09234480172099.7480.1760.17450.18530.19790.203915.699
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]
2.733-2.705-0.027
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg13.761
r_dihedral_angle_3_deg13.003
r_lrange_it8.525
r_lrange_other7.893
r_dihedral_angle_1_deg7.476
r_dihedral_angle_2_deg5.304
r_scangle_it3.504
r_scangle_other3.501
r_mcangle_it2.857
r_mcangle_other2.857
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg13.761
r_dihedral_angle_3_deg13.003
r_lrange_it8.525
r_lrange_other7.893
r_dihedral_angle_1_deg7.476
r_dihedral_angle_2_deg5.304
r_scangle_it3.504
r_scangle_other3.501
r_mcangle_it2.857
r_mcangle_other2.857
r_scbond_it2.185
r_scbond_other2.181
r_mcbond_it1.809
r_mcbond_other1.801
r_angle_refined_deg1.625
r_chiral_restr_other1.466
r_rigid_bond_restr1.409
r_angle_other_deg0.5
r_symmetry_nbd_other0.193
r_nbd_refined0.183
r_symmetry_xyhbond_nbd_refined0.165
r_nbtor_refined0.161
r_nbd_other0.15
r_symmetry_nbd_refined0.102
r_xyhbond_nbd_refined0.095
r_symmetry_nbtor_other0.078
r_chiral_restr0.059
r_bond_refined_d0.004
r_gen_planes_refined0.004
r_gen_planes_other0.002
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1103
Nucleic Acid Atoms
Solvent Atoms102
Heterogen Atoms44

Software

Software
Software NamePurpose
REFMACrefinement
autoPROCdata reduction
XSCALEdata scaling
PHASERphasing