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Structure of anti-EV71 human monoclonal antibody 16-2-9D Fab
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6Z3K
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 295 25% (w/v) PEG 3350, 0.1 M citrate, pH 3.5
Crystal Properties Matthews coefficient Solvent content 2.24 44.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.743 α = 90 b = 80.316 β = 94.937 c = 57.489 γ = 90
Symmetry Space Group P 1 21 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 PIXEL DECTRIS PILATUS3 6M 2018-04-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I03 0.9282 Diamond I03
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.18 57.341 100 1 10.6 6.3 141520
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.18 1.211 0.7
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT FREE R-VALUE 1.18 57.341 140517 7025 99.271 0.147 0.1451 0.1451 0.1758 0.1761 17.268
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] -0.165 0.433 -0.188 0.273
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 18.567 r_lrange_other 18.566 r_dihedral_angle_6_deg 14.883 r_dihedral_angle_3_deg 11.181 r_scangle_it 10.309 r_scangle_other 10.307 r_mcangle_it 7.981 r_mcangle_other 7.981 r_dihedral_angle_2_deg 7.686 r_scbond_it 7.297
RMS Deviations Key Refinement Restraint Deviation r_lrange_it 18.567 r_lrange_other 18.566 r_dihedral_angle_6_deg 14.883 r_dihedral_angle_3_deg 11.181 r_scangle_it 10.309 r_scangle_other 10.307 r_mcangle_it 7.981 r_mcangle_other 7.981 r_dihedral_angle_2_deg 7.686 r_scbond_it 7.297 r_scbond_other 7.295 r_dihedral_angle_1_deg 7.272 r_mcbond_it 5.518 r_mcbond_other 5.513 r_rigid_bond_restr 4.137 r_angle_refined_deg 1.78 r_angle_other_deg 0.663 r_symmetry_nbd_refined 0.263 r_xyhbond_nbd_refined 0.248 r_symmetry_xyhbond_nbd_refined 0.241 r_nbd_other 0.226 r_nbd_refined 0.222 r_symmetry_nbd_other 0.197 r_nbtor_refined 0.163 r_chiral_restr 0.106 r_symmetry_nbtor_other 0.078 r_bond_refined_d 0.013 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3329 Nucleic Acid Atoms Solvent Atoms 606 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement MOLREP phasing