8SDJ

Hydrophobic Interactions Drive the Tetrameric Assembly of the TRIM20 Coiled-Coil Domain


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 8SDEone chain of TRIM29 structure

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION82980.1M HEPES pH8.0, 35% 1,2-Propanediol, 10% PEG400
Crystal Properties
Matthews coefficientSolvent content
2.3848.35

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 38.6α = 90
b = 38.83β = 89.94
c = 164.3γ = 90
Symmetry
Space GroupP 1 21 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS EIGER X 16M2020-02-09MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONAPS BEAMLINE 24-ID-E0.97918APS24-ID-E

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)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
12.4995.70.0330.99913.62.918553
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.42.5394.30.1690.99142.7

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-WorkR-FreeMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTFREE R-VALUE2.491854883895.0940.2610.2590.29475.81
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]
5.1410.1545.94-11.08
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.54
r_dihedral_angle_3_deg21.703
r_dihedral_angle_4_deg17.439
r_lrange_it16.773
r_scangle_it15.12
r_mcangle_it10.727
r_scbond_it10.67
r_mcbond_it7.763
r_dihedral_angle_1_deg5.592
r_angle_refined_deg1.702
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg39.54
r_dihedral_angle_3_deg21.703
r_dihedral_angle_4_deg17.439
r_lrange_it16.773
r_scangle_it15.12
r_mcangle_it10.727
r_scbond_it10.67
r_mcbond_it7.763
r_dihedral_angle_1_deg5.592
r_angle_refined_deg1.702
r_nbtor_refined0.312
r_symmetry_nbd_refined0.293
r_nbd_refined0.255
r_symmetry_xyhbond_nbd_refined0.198
r_xyhbond_nbd_refined0.166
r_chiral_restr0.135
r_bond_refined_d0.007
r_gen_planes_refined0.007
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3636
Nucleic Acid Atoms
Solvent Atoms
Heterogen Atoms

Software

Software
Software NamePurpose
REFMACrefinement
MOSFLMdata reduction
SCALAdata scaling
PHASERphasing