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Crystal Structure of BRD4(1) bound to Colchiceine
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.5 293 bis tris, PEG 3350, NaCl, pH 6.5, vapor diffusion, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.25 45.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.047 α = 90 b = 108.072 β = 90 c = 30.464 γ = 90
Symmetry Space Group P 21 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD RIGAKU SATURN 944+ 2012-06-28 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU MICROMAX-007 HF 1.54187
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.83 41.047 98.7 0.089 9.6 3 12331 12331
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 1.83 1.93 97.3 0.409 0.409 1.9 2.5 1729
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (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 Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.83 29.34 9566 464 98.33 0.2185 0.2159 0.2306 0.267 0.2767 RANDOM 18.6806
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] 0.52 -0.24 -0.28
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.113 r_dihedral_angle_4_deg 22.835 r_dihedral_angle_3_deg 17.125 r_dihedral_angle_1_deg 4.696 r_angle_other_deg 1.974 r_angle_refined_deg 1.314 r_mcangle_it 0.234 r_scbond_it 0.192 r_mcbond_it 0.132 r_chiral_restr 0.074
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.113 r_dihedral_angle_4_deg 22.835 r_dihedral_angle_3_deg 17.125 r_dihedral_angle_1_deg 4.696 r_angle_other_deg 1.974 r_angle_refined_deg 1.314 r_mcangle_it 0.234 r_scbond_it 0.192 r_mcbond_it 0.132 r_chiral_restr 0.074 r_bond_refined_d 0.007 r_gen_planes_refined 0.007 r_gen_planes_other 0.007 r_bond_other_d 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1037 Nucleic Acid Atoms Solvent Atoms 121 Heterogen Atoms 30
Software Software Software Name Purpose SCALA data scaling AMoRE phasing REFMAC refinement PDB_EXTRACT data extraction XSCALE data scaling