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Crystal structure of the bromodomain of human CREBBP in complex with a hydroquinazolin ligand
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3DWY
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277 0.15M KSCN
20% PEG3350
10% EtGly, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.35 47.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 110.27 α = 90 b = 38.62 β = 127.67 c = 79.46 γ = 90
Symmetry Space Group C 1 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS IV 2010-09-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU FR-E SUPERBRIGHT 1.542
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.63 28.594 99.7 0.054 0.054 13 3.5 33352 33252 22.6
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.63 1.72 98.9 0.517 0.517 1.5 3.1 4765
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3DWY 1.63 28.59 33336 33249 1685 99.74 0.1836 0.1836 0.1817 0.2183 0.2165 RANDOM 23.2319
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] -0.71 -0.66 -0.2 0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.751 r_dihedral_angle_4_deg 17.053 r_dihedral_angle_3_deg 12.439 r_scangle_it 8.487 r_scbond_it 6.312 r_dihedral_angle_1_deg 5.268 r_mcangle_it 4.17 r_mcbond_it 2.776 r_angle_refined_deg 1.593 r_angle_other_deg 0.957
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.751 r_dihedral_angle_4_deg 17.053 r_dihedral_angle_3_deg 12.439 r_scangle_it 8.487 r_scbond_it 6.312 r_dihedral_angle_1_deg 5.268 r_mcangle_it 4.17 r_mcbond_it 2.776 r_angle_refined_deg 1.593 r_angle_other_deg 0.957 r_mcbond_other 0.877 r_chiral_restr 0.098 r_bond_refined_d 0.016 r_gen_planes_refined 0.011 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1930 Nucleic Acid Atoms Solvent Atoms 262 Heterogen Atoms 58
Software Software Software Name Purpose SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection MOSFLM data reduction