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Crystal structure analysis of the N-terminal bromodomain of human Brd2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6.5 298 PEGMME 5K, AS, pH 6.5, VAPOR DIFFUSION, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.3 47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 114.397 α = 90 b = 55.363 β = 94.07 c = 67.584 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 120 CCD ADSC QUANTUM 4 2004-06-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE AR-NW12A 0.9793 Photon Factory AR-NW12A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.8 20 91.9 0.062 3.4 36172 36172
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.8 1.86 48.3 0.46
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 (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.8 20 34340 1806 92.1 0.18 0.1797 0.17785 0.21273 RANDOM 30.298
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] 1.04 -0.69 -0.18 -0.96
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 7.002 r_dihedral_angle_1_deg 5.26 r_scbond_it 4.732 r_angle_refined_deg 2.848 r_mcangle_it 2.748 r_mcbond_it 1.469 r_angle_other_deg 1.319 r_symmetry_vdw_other 0.29 r_symmetry_vdw_refined 0.278 r_nbd_other 0.236
RMS Deviations Key Refinement Restraint Deviation r_scangle_it 7.002 r_dihedral_angle_1_deg 5.26 r_scbond_it 4.732 r_angle_refined_deg 2.848 r_mcangle_it 2.748 r_mcbond_it 1.469 r_angle_other_deg 1.319 r_symmetry_vdw_other 0.29 r_symmetry_vdw_refined 0.278 r_nbd_other 0.236 r_nbd_refined 0.22 r_chiral_restr 0.198 r_xyhbond_nbd_refined 0.189 r_symmetry_hbond_refined 0.17 r_nbtor_other 0.105 r_bond_refined_d 0.027 r_gen_planes_refined 0.011 r_gen_planes_other 0.009 r_bond_other_d 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2783 Nucleic Acid Atoms Solvent Atoms 352 Heterogen Atoms 36
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction SCALEPACK data scaling SOLVE phasing CNS refinement