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Protocadherin gammaB7 EC3-6 cis-dimer structure
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5SZR
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 BATCH MODE 7.5 295 20% ethylene glycol, 10% PEG8000, 10% Morpheus amino acids additive (Molecular Dimensions), and 0.1M Morpheus Buffer System 2 (HEPES/MOPS buffer, Molecular Dimensions) pH 7.5.
Crystal Properties Matthews coefficient Solvent content 3.69 66.63
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.242 α = 90 b = 91.762 β = 90 c = 452.991 γ = 90
Symmetry Space Group P 21 21 21
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 2016-10-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-C 0.97910 APS 24-ID-C
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 3.5 20 98.02 0.161 0.99 6.8 3.2 36143 75.62
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 5SZR 3.5 19.962 1.34 36143 1781 98.02 0.2103 0.2079 0.2086 0.2567 0.2573
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 13.598 f_angle_d 0.553 f_chiral_restr 0.042 f_bond_d 0.003 f_plane_restr 0.003
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12611 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 485
Software Software Software Name Purpose PHENIX refinement XDS data reduction Aimless data scaling PHASER phasing