☰ Navigation Tabs
Crystal structure of CBP bromodomain liganded with 9c
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5XXH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.6 277 0.2 M NH4H2PO4, 20% PEG 3350, pH 4.6, and 20% Gly
Crystal Properties Matthews coefficient Solvent content 2.24 45.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 79.45 α = 90 b = 79.45 β = 90 c = 45.11 γ = 90
Symmetry Space Group P 4 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 80 PIXEL DECTRIS PILATUS 6M 2020-04-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL19U1 0.97852 SSRF BL19U1
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) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.57 79.45 100 0.107 0.112 0.032 0.998 18.3 11.9 4962
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) Redundancy Number Unique Reflections (All) 1 2.57 2.68 100 0.542 0.566 0.161 0.938 12.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 5XXH 2.57 56.18 4674 272 99.94 0.1882 0.1869 0.1946 0.2093 0.2175 RANDOM 41.498
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] -0.95 -0.95 1.89
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.385 r_dihedral_angle_4_deg 22.625 r_dihedral_angle_3_deg 16.879 r_dihedral_angle_1_deg 7.118 r_angle_refined_deg 1.864 r_angle_other_deg 1.13 r_chiral_restr 0.091 r_bond_refined_d 0.014 r_gen_planes_refined 0.01 r_bond_other_d 0.004
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.385 r_dihedral_angle_4_deg 22.625 r_dihedral_angle_3_deg 16.879 r_dihedral_angle_1_deg 7.118 r_angle_refined_deg 1.864 r_angle_other_deg 1.13 r_chiral_restr 0.091 r_bond_refined_d 0.014 r_gen_planes_refined 0.01 r_bond_other_d 0.004 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 944 Nucleic Acid Atoms Solvent Atoms 35 Heterogen Atoms 49
Software Software Software Name Purpose REFMAC refinement Aimless data scaling PDB_EXTRACT data extraction iMOSFLM data reduction MOLREP phasing