8RRB

Galectin-3 with a small molecule inhibitor


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelOtherIn-house unliganded structure

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP2932.1 M DL-Malic acid pH 7.0
Crystal Properties
Matthews coefficientSolvent content
2.0239.08

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 36.49α = 90
b = 56.9β = 90
c = 61.07γ = 90
Symmetry
Space GroupP 21 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 2M2019-08-21MSINGLE 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
1141.6399.30.0570.99914.495.9568875
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)
111.0696.11.1140.5321.25

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-VALUE1.241.60340506202699.9310.1620.16110.17160.17710.182510.347
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]
-0.753-1.4472.2
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg14.738
r_dihedral_angle_3_deg10.593
r_lrange_other8.13
r_lrange_it8.12
r_dihedral_angle_1_deg7.854
r_dihedral_angle_2_deg3.34
r_scangle_it2.885
r_scangle_other2.876
r_mcangle_other2.084
r_mcangle_it2.083
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_6_deg14.738
r_dihedral_angle_3_deg10.593
r_lrange_other8.13
r_lrange_it8.12
r_dihedral_angle_1_deg7.854
r_dihedral_angle_2_deg3.34
r_scangle_it2.885
r_scangle_other2.876
r_mcangle_other2.084
r_mcangle_it2.083
r_scbond_it1.849
r_scbond_other1.843
r_mcbond_it1.335
r_rigid_bond_restr1.333
r_mcbond_other1.323
r_angle_refined_deg1.22
r_angle_other_deg0.449
r_nbd_refined0.206
r_symmetry_nbd_other0.199
r_nbd_other0.171
r_nbtor_refined0.165
r_xyhbond_nbd_refined0.128
r_symmetry_nbd_refined0.127
r_symmetry_xyhbond_nbd_refined0.11
r_symmetry_nbtor_other0.082
r_chiral_restr0.061
r_chiral_restr_other0.021
r_gen_planes_refined0.005
r_bond_refined_d0.004
r_bond_other_d0.001
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1107
Nucleic Acid Atoms
Solvent Atoms157
Heterogen Atoms62

Software

Software
Software NamePurpose
REFMACrefinement
autoPROCdata reduction
XSCALEdata scaling
PHASERphasing