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A blocking anti-CTLA-4 Nanobody (KN044) complexed with CTLA-4
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5JDS 5JDS, 3OSK experimental model PDB 3OSK 5JDS, 3OSK
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 PEG400,
Crystal Properties Matthews coefficient Solvent content 3.08 60.07
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 98.77 α = 90 b = 98.77 β = 90 c = 110.5 γ = 120
Symmetry Space Group P 65 2 2
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 2017-06-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U1 0.97915 SSRF BL17U1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Rpim I (All) 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 68 100 0.11 0.121 0.032 18.8 14 6820
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 3.18 100 1.08 3 13.7
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 5JDS, 3OSK 3 67.73 6452 340 99.9 0.25272 0.24972 0.251 0.31258 0.3123 RANDOM 93.615
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] 2.03 1.02 2.03 -6.59
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.794 r_dihedral_angle_3_deg 13.678 r_dihedral_angle_4_deg 7.884 r_dihedral_angle_1_deg 6.345 r_long_range_B_refined 4.299 r_long_range_B_other 4.298 r_mcangle_it 2.681 r_mcangle_other 2.68 r_scangle_other 2.204 r_mcbond_other 1.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.794 r_dihedral_angle_3_deg 13.678 r_dihedral_angle_4_deg 7.884 r_dihedral_angle_1_deg 6.345 r_long_range_B_refined 4.299 r_long_range_B_other 4.298 r_mcangle_it 2.681 r_mcangle_other 2.68 r_scangle_other 2.204 r_mcbond_other 1.48 r_mcbond_it 1.479 r_angle_refined_deg 1.206 r_scbond_it 1.185 r_scbond_other 1.184 r_angle_other_deg 1.078 r_chiral_restr 0.032 r_bond_refined_d 0.002 r_gen_planes_refined 0.002 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 1781 Nucleic Acid Atoms Solvent Atoms Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing