4CO8

Structure of the DNA binding ETS domain of human ETV4


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 4BNCPDB ENTRY 4BNC

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
10.8 M SODIUM CITRATE TRIBASIC, 0.1 M CACODYLATE PH 6.5.
Crystal Properties
Matthews coefficientSolvent content
1.6123.57

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 50.801α = 90
b = 50.801β = 90
c = 67.66γ = 120
Symmetry
Space GroupP 31 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2014-01-18MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I03DiamondI03

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
11.0526.896.50.0421.18.846056-3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.051.0767.50.672.14.7

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-Work (Depositor)R-Work (DCC)R-Free (Depositor)R-Free (DCC)R-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTPDB ENTRY 4BNC1.0543.9943771224596.460.117270.116540.130.132010.14RANDOM15.559
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]
0.220.110.22-0.7
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg34.056
r_sphericity_free32.534
r_dihedral_angle_4_deg19.917
r_dihedral_angle_3_deg12.117
r_sphericity_bonded8.663
r_dihedral_angle_1_deg5.462
r_long_range_B_refined3.545
r_long_range_B_other3.544
r_scangle_other2.257
r_mcangle_other1.933
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms800
Nucleic Acid Atoms
Solvent Atoms117
Heterogen Atoms12

Software

Software
Software NamePurpose
REFMACrefinement
XDSdata reduction
XDSdata scaling
PHASERphasing