☰ Navigation Tabs
Crystal structure of monoclonal antibody against neuroblastoma associated antigen.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1F8T
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 Hepes, PEG 4000, isopropanol
Crystal Properties Matthews coefficient Solvent content 2.07 40.71
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 41.583 α = 86.01 b = 42.539 β = 73.92 c = 59.523 γ = 87.39
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 80 PIXEL DECTRIS PILATUS 6M 2013-12-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) 1.0 PETRA III, EMBL c/o DESY P13 (MX1)
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 1.6 57.09 90.68 0.056 17.38 3.8 46752
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 1.6 1.657 90.66 0.26 3.76 3.8
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 1F8T 1.6 57.09 44364 2388 90.62 0.16441 0.16217 0.172 0.20598 0.2133 RANDOM 17.091
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] 0.35 0.21 0.06 0.3 -0.21 -0.53
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.257 r_dihedral_angle_4_deg 21.38 r_dihedral_angle_3_deg 12.76 r_dihedral_angle_1_deg 6.786 r_long_range_B_refined 5.119 r_long_range_B_other 5.011 r_scangle_other 3.548 r_mcangle_it 2.658 r_mcangle_other 2.658 r_scbond_it 2.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.257 r_dihedral_angle_4_deg 21.38 r_dihedral_angle_3_deg 12.76 r_dihedral_angle_1_deg 6.786 r_long_range_B_refined 5.119 r_long_range_B_other 5.011 r_scangle_other 3.548 r_mcangle_it 2.658 r_mcangle_other 2.658 r_scbond_it 2.38 r_scbond_other 2.36 r_angle_refined_deg 2.11 r_mcbond_it 1.811 r_mcbond_other 1.809 r_angle_other_deg 0.933 r_chiral_restr 0.129 r_bond_refined_d 0.021 r_gen_planes_refined 0.011 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3284 Nucleic Acid Atoms Solvent Atoms 348 Heterogen Atoms 1
Software Software Software Name Purpose XDS data reduction SCALA data scaling Coot model building PHASER phasing REFMAC refinement