☰ Navigation Tabs
FKBP12 in complex with bifunctional ligand 1ad and the first bromodomain of BRD4
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2PPN experimental model PDB 7C2Z
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 22% PEG3350, 0.2 M NaCl, 0.1 M Tris-HCl pH 8.5
Crystal Properties Matthews coefficient Solvent content 2.26 45.52
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 35.648 α = 86.458 b = 35.65 β = 84.218 c = 100.919 γ = 72.475
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS EIGER2 X CdTe 16M 2023-09-08 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-1 0.885603 ESRF ID23-1
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) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.8 100.35 97 0.078 0.111 0.078 0.977 8.4 3.3 42398
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) 1.8 1.84 94.6 0.577 0.816 0.577 0.563 1.7 3.1
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-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 1.8 100.35 42396 2063 97.02 0.215 0.2133 0.2137 0.2428 0.238 24.851
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] -0.703 0.398 -0.78 -0.27 -0.216 1.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 22.876 r_dihedral_angle_6_deg 15.179 r_dihedral_angle_3_deg 14.471 r_dihedral_angle_1_deg 7.204 r_lrange_it 4.252 r_lrange_other 4.221 r_scangle_it 2.526 r_scangle_other 2.526 r_angle_refined_deg 2.163 r_mcangle_it 1.759
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 22.876 r_dihedral_angle_6_deg 15.179 r_dihedral_angle_3_deg 14.471 r_dihedral_angle_1_deg 7.204 r_lrange_it 4.252 r_lrange_other 4.221 r_scangle_it 2.526 r_scangle_other 2.526 r_angle_refined_deg 2.163 r_mcangle_it 1.759 r_mcangle_other 1.759 r_scbond_other 1.672 r_scbond_it 1.67 r_mcbond_it 1.23 r_mcbond_other 1.228 r_angle_other_deg 0.724 r_dihedral_angle_other_2_deg 0.646 r_symmetry_nbd_refined 0.234 r_nbd_other 0.233 r_nbd_refined 0.224 r_symmetry_nbd_other 0.202 r_nbtor_refined 0.194 r_xyhbond_nbd_refined 0.171 r_chiral_restr 0.112 r_symmetry_xyhbond_nbd_other 0.107 r_symmetry_xyhbond_nbd_refined 0.102 r_symmetry_nbtor_other 0.093 r_bond_refined_d 0.012 r_gen_planes_refined 0.011 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3652 Nucleic Acid Atoms Solvent Atoms 256 Heterogen Atoms 138
Software Software Software Name Purpose REFMAC refinement autoXDS data reduction Aimless data scaling PHASER phasing