☰ Navigation Tabs
Protocadherin gamma A9 extracellular cadherin domains 1-5
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5SZM PCDHGA8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 BATCH MODE 6.5 295 10% (w/v) PEG4000, 20% (v/v) glycerol, 30 mM magnesium chloride, 30 mM calcium chloride, 0.1 M Morpheus Buffer System 1 (Mes/Imidazole buffer; Molecular Dimensions) pH 6.5
Crystal Properties Matthews coefficient Solvent content 4.28 71.25
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 191.68 α = 90 b = 107.61 β = 97.14 c = 49.87 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 100 CCD ADSC QUANTUM 315 2015-06-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-E 0.97918 APS 24-ID-E
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 2.94 40 98.9 0.229 4.5 3.7 13469 53.84
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 2.94 3.12 98.8 3.156 0.6 3.8
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-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE PCDHGA8 2.944 19.996 1.37 13469 667 63.31 0.2436 0.2411 0.2437 0.2954 0.3102
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 11.107 f_angle_d 0.667 f_chiral_restr 0.045 f_plane_restr 0.004 f_bond_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3902 Nucleic Acid Atoms Solvent Atoms 37 Heterogen Atoms 113
Software Software Software Name Purpose PHENIX refinement XDS data reduction Aimless data scaling PHASER phasing