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Crystal structure of the human IgE-Fc bound to its B cell receptor derCD23
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4EZM 4EZM, 2WQR and 4J6J experimental model PDB 2WQR 4EZM, 2WQR and 4J6J experimental model PDB 4J6J 4EZM, 2WQR and 4J6J
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 294 15% (w/v) PEG 8,000, 0.1 M sodium citrate, 0.05 M ammonium sulfate
Crystal Properties Matthews coefficient Solvent content 2.92 57.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 80.52 α = 117.87 b = 85.32 β = 90.32 c = 88.23 γ = 112.62
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 PILATUS3 6M 2012-04-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9763 Diamond I03
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 3.5 76 89.3 0.319 2.1 1.7 21032
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 3.5 3.69 0.758
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 4EZM, 2WQR and 4J6J 3.5 75.96 20922 1087 88.83 0.2665 0.2659 0.3229 0.2784 0.3493 RANDOM 36.63
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] 10.8689 7.9391 7.5666 -13.3133 -8.9135 2.4444
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 20.23 t_omega_torsion 1.11 t_angle_deg 0.84 t_bond_d 0.007 t_dihedral_angle_d t_trig_c_planes t_gen_planes t_it t_nbd t_improper_torsion
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 20.23 t_omega_torsion 1.11 t_angle_deg 0.84 t_bond_d 0.007 t_dihedral_angle_d t_trig_c_planes t_gen_planes t_it t_nbd t_improper_torsion t_pseud_angle t_chiral_improper_torsion t_sum_occupancies t_utility_distance t_utility_angle t_utility_torsion t_ideal_dist_contact
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 11314 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms 106
Software Software Software Name Purpose Aimless data scaling PHASER phasing BUSTER-TNT refinement PDB_EXTRACT data extraction iMOSFLM data reduction PHASER phasing