5QY0

PanDDA analysis group deposition -- Crystal Structure of ATAD2 in complex with PC591


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP5.52771.6M Ammonium Sulfate, 0.1M bis-tris pH 5.5
Crystal Properties
Matthews coefficientSolvent content
4.270.68

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 80.384α = 90
b = 80.384β = 90
c = 139.57γ = 120
Symmetry
Space GroupP 65 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2016-04-26SINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I04-10.92819DiamondI04-1

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim 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
11.8927.9199.80.0910.0940.0210.99925.719.222226
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Rrim I (All)Rpim I (All)CC (Half)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.891.9397.51.0131.040.2330.86519.11577

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 DIFFRACTIONFOURIER SYNTHESISTHROUGHOUT3DAI1.8927.8921078109399.730.15810.15670.1852RANDOM31.247
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]
-0.07-0.04-0.070.23
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.353
r_dihedral_angle_4_deg16.959
r_dihedral_angle_3_deg14.441
r_dihedral_angle_1_deg4.558
r_mcangle_it3.598
r_mcbond_other2.139
r_mcbond_it2.116
r_angle_refined_deg1.663
r_angle_other_deg1.396
r_chiral_restr0.094
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.353
r_dihedral_angle_4_deg16.959
r_dihedral_angle_3_deg14.441
r_dihedral_angle_1_deg4.558
r_mcangle_it3.598
r_mcbond_other2.139
r_mcbond_it2.116
r_angle_refined_deg1.663
r_angle_other_deg1.396
r_chiral_restr0.094
r_bond_refined_d0.01
r_gen_planes_refined0.008
r_gen_planes_other0.003
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1084
Nucleic Acid Atoms
Solvent Atoms209
Heterogen Atoms56

Software

Software
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
PDB_EXTRACTdata extraction
XDSdata reduction
REFMACphasing