4UZQ

STRUCTURE OF THE WNT DEACYLASE NOTUM IN COMPLEX WITH O-PALMITOLEOYL SERINE - CRYSTAL FORM IX - 1.5A


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
153.0M NACL, 0.1 M CITRATE PH 5.0
Crystal Properties
Matthews coefficientSolvent content
2.449

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 50.513α = 90
b = 69.35β = 92.28
c = 120.967γ = 90
Symmetry
Space GroupI 1 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2014-07-13MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I041.00,1.07DiamondI04

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
11.56096.40.111.63.464352-3

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (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 DIFFRACTIONOTHERTHROUGHOUTNONE1.560.4462998125596.240.128880.127890.17775RANDOM17.448
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]
-1.51-0.460.670.88
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free38.727
r_dihedral_angle_2_deg31.774
r_dihedral_angle_4_deg19.359
r_sphericity_bonded18.012
r_dihedral_angle_3_deg12.221
r_scangle_other7.582
r_scbond_it6.608
r_scbond_other6.606
r_long_range_B_refined6.321
r_long_range_B_other6.32
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free38.727
r_dihedral_angle_2_deg31.774
r_dihedral_angle_4_deg19.359
r_sphericity_bonded18.012
r_dihedral_angle_3_deg12.221
r_scangle_other7.582
r_scbond_it6.608
r_scbond_other6.606
r_long_range_B_refined6.321
r_long_range_B_other6.32
r_dihedral_angle_1_deg6.067
r_rigid_bond_restr4.387
r_mcangle_other3.205
r_mcangle_it3.194
r_mcbond_it2.828
r_mcbond_other2.812
r_angle_refined_deg1.882
r_angle_other_deg0.944
r_chiral_restr0.127
r_bond_refined_d0.018
r_gen_planes_refined0.01
r_bond_other_d0.001
r_gen_planes_other0.001
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 Atoms2849
Nucleic Acid Atoms
Solvent Atoms305
Heterogen Atoms36

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
Aimlessdata scaling