☰ Navigation Tabs
Apo Structure of Mu2 Adaptin Subunit (Ap50) Of AP2 Clathrin Adaptor
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BXX
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 289 Protein (10 mg/ml) and peptide (DVDEEGYSIKPETNQNDTKENHFYSS) (2mg/ml) were equilibrated against 1.5M Ammonium Sulphate 0.1M Hepes pH 7.0. Crystals were cryo-protected by soaking in mother liquor supplemented with 20% glycerol and peptide (peptide did not crystallise).
Crystal Properties Matthews coefficient Solvent content 3.81 67.68
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 123.83 α = 90 b = 123.83 β = 90 c = 112.668 γ = 120
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 PILATUS 6M-F 2019-04-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 0.91587 Diamond I04-1
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 1.92 77.68 99.89 0.223 0.23 0.055 0.999 13.1 17.7 74711 30.59
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 1.92 1.95 98 6.379 6.664 1.912 0.44 1 12.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1BXX 1.92 77.68 0.21 74655 7527 99.83 0.1892 0.188 0.2105 0.201 41.41
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]
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 9.8311 f_angle_d 1.2541 f_chiral_restr 0.0854 f_bond_d 0.0183 f_plane_restr 0.0116
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4252 Nucleic Acid Atoms Solvent Atoms 272 Heterogen Atoms 67
Software Software Software Name Purpose REFMAC refinement PHENIX refinement DIALS data reduction DIALS data scaling PHASER phasing STARANISO data processing autoPROC data processing