4HS2

Crystal Structure of the Human SPOP C-terminal Domain


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, HANGING DROP6.529126% PEG 1500, 7% isopropanol, 0.1M CaCl2, 0.1M imidazole pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
2.0740.44

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 57.65α = 90
b = 57.65β = 90
c = 102.81γ = 120
Symmetry
Space GroupP 61 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELPSI PILATUS 6M2011-07-15SINGLE WAVELENGTH
21x-ray100SINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I04-10.9173DiamondI04-1
2SYNCHROTRONDIAMOND BEAMLINE I020.9795DiamondI02

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym 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
1,21.52851.40599.80.05624.211.61600416004
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
1,21.531.5799.90.6470.6471.28.31143

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodResolution (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 DIFFRACTIONSADTHROUGHOUT1.5327.751515379499.730.13290.1320.1512RANDOM21.2669
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]
-0.1-0.05-0.10.14
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free30.104
r_dihedral_angle_2_deg27.925
r_sphericity_bonded14.281
r_dihedral_angle_3_deg10.967
r_dihedral_angle_4_deg10.714
r_rigid_bond_restr6.373
r_dihedral_angle_1_deg4.196
r_angle_refined_deg1.169
r_angle_other_deg0.957
r_chiral_restr0.072
RMS Deviations
KeyRefinement Restraint Deviation
r_sphericity_free30.104
r_dihedral_angle_2_deg27.925
r_sphericity_bonded14.281
r_dihedral_angle_3_deg10.967
r_dihedral_angle_4_deg10.714
r_rigid_bond_restr6.373
r_dihedral_angle_1_deg4.196
r_angle_refined_deg1.169
r_angle_other_deg0.957
r_chiral_restr0.072
r_bond_refined_d0.011
r_gen_planes_refined0.005
r_gen_planes_other0.002
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms489
Nucleic Acid Atoms
Solvent Atoms62
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata scaling
XDSdata reduction
SCALAdata scaling
SHELXSphasing