5R4V

XChem fragment screen -- CRYSTAL STRUCTURE OF THE BROMODOMAIN OF THE HUMAN ATAD2 in complex with N13475a


X-RAY DIFFRACTION

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP5.52772.2M ammonium sulfate, 0.1M bis-tris pH 5.5
Crystal Properties
Matthews coefficientSolvent content
4.270.7

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 80.19α = 90
b = 80.19β = 90
c = 140.1γ = 120
Symmetry
Space GroupP 65 2 2

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100PIXELDECTRIS PILATUS 6M2015-11-21SINGLE 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
11.2969.451000.0590.0610.015125.115.967524
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)
11.291.321001.4281.5280.5350.5337.94884

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 SYNTHESISTHROUGHOUT3DAI1.2969.4564030340999.930.13370.13270.1526RANDOM19.496
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]
-0.11-0.05-0.110.36
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.359
r_dihedral_angle_4_deg17.037
r_dihedral_angle_3_deg12.391
r_dihedral_angle_1_deg4.646
r_rigid_bond_restr2.793
r_mcangle_it2.101
r_angle_refined_deg1.902
r_mcbond_it1.552
r_mcbond_other1.551
r_angle_other_deg1.547
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.359
r_dihedral_angle_4_deg17.037
r_dihedral_angle_3_deg12.391
r_dihedral_angle_1_deg4.646
r_rigid_bond_restr2.793
r_mcangle_it2.101
r_angle_refined_deg1.902
r_mcbond_it1.552
r_mcbond_other1.551
r_angle_other_deg1.547
r_chiral_restr0.101
r_bond_refined_d0.014
r_gen_planes_refined0.009
r_gen_planes_other0.002
r_bond_other_d0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1084
Nucleic Acid Atoms
Solvent Atoms237
Heterogen Atoms58

Software

Software
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
PDB_EXTRACTdata extraction
XDSdata reduction
REFMACphasing