5R4W

XChem fragment screen -- CRYSTAL STRUCTURE OF THE BROMODOMAIN OF THE HUMAN ATAD2 in complex with N13501a


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 = 80.47α = 90
b = 80.47β = 90
c = 139.31γ = 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
11.4769.651000.0920.0950.022120.918.246087
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)
11.471.511001.8851.9540.5080.55414.73313

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 SYNTHESISTHROUGHOUT3DAI1.4762.443667234499.970.12930.12770.1612RANDOM25.049
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]
-0.23-0.11-0.230.74
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.309
r_dihedral_angle_4_deg15.58
r_dihedral_angle_3_deg12.628
r_dihedral_angle_1_deg4.709
r_mcangle_it3.77
r_rigid_bond_restr3.473
r_mcbond_other2.902
r_mcbond_it2.901
r_angle_refined_deg1.814
r_angle_other_deg1.529
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg30.309
r_dihedral_angle_4_deg15.58
r_dihedral_angle_3_deg12.628
r_dihedral_angle_1_deg4.709
r_mcangle_it3.77
r_rigid_bond_restr3.473
r_mcbond_other2.902
r_mcbond_it2.901
r_angle_refined_deg1.814
r_angle_other_deg1.529
r_chiral_restr0.1
r_bond_refined_d0.016
r_gen_planes_refined0.009
r_bond_other_d0.005
r_gen_planes_other0.001
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1084
Nucleic Acid Atoms
Solvent Atoms223
Heterogen Atoms43

Software

Software
Software NamePurpose
REFMACrefinement
Aimlessdata scaling
PDB_EXTRACTdata extraction
XDSdata reduction
REFMACphasing