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3B4 in complex with CXCL13 - 3B4-CXCL13
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3GV3 3B4 and 3GV3/2R3Z/4HSV/3IL8 experimental model PDB 2R3Z 3B4 and 3GV3/2R3Z/4HSV/3IL8 experimental model PDB 4HSV 3B4 and 3GV3/2R3Z/4HSV/3IL8 experimental model PDB 3IL8 3B4 and 3GV3/2R3Z/4HSV/3IL8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 291 100 mM Tris pH 8, 100 mM NaCl, 8 % PEG 20000
Crystal Properties Matthews coefficient Solvent content 2.14 42.5
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 119.35 α = 90 b = 55.68 β = 120.56 c = 112.77 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 193 PIXEL PSI PILATUS 6M 2013-10-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 17-ID 1.0 APS 17-ID
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 2.5 48.7 99.6 0.085 12.3 4.6 22217 59.79
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 2.5 2.511 87 0.67 1.9 4.3
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 3B4 and 3GV3/2R3Z/4HSV/3IL8 2.5 48.7 22212 1129 99.34 0.1994 0.1973 0.2079 0.2371 0.239 RANDOM 58.01
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] -0.6711 10.6255 0.5913 0.0798
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 19.34 t_omega_torsion 2.77 t_angle_deg 1.05 t_bond_d 0.007 t_dihedral_angle_d t_incorr_chiral_ct t_pseud_angle t_trig_c_planes t_gen_planes t_it
RMS Deviations Key Refinement Restraint Deviation t_other_torsion 19.34 t_omega_torsion 2.77 t_angle_deg 1.05 t_bond_d 0.007 t_dihedral_angle_d t_incorr_chiral_ct t_pseud_angle t_trig_c_planes t_gen_planes t_it t_nbd t_improper_torsion 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 4607 Nucleic Acid Atoms Solvent Atoms 118 Heterogen Atoms 23
Software Software Software Name Purpose BUSTER refinement SCALA data scaling PHASER phasing