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Crystal structure of the HopQ-CEACAM1 complex
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5LP2 5lp2 2gk2 experimental model PDB 2GK2 5lp2 2gk2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 20% PEG 6000, 0.1M HEPES , pH 7.5, 0.2M NaCl
Crystal Properties Matthews coefficient Solvent content 1.95 36.97
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.67 α = 90 b = 103.077 β = 90 c = 112.881 γ = 90
Symmetry Space Group P 2 2 21
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 PILATUS 6M Rh coated 2017-01-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL12-2 0.979460 SSRL BL12-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) 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 2.68 103.08 98 0.1 0.079 10.2 4.2 13386
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.68 2.81 94.3 0.818 0.664 1.5 4 1673
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 5lp2 2gk2 2.68 103.08 12702 660 97.45 0.23657 0.23447 0.2378 0.27682 0.2871 RANDOM 60.376
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] -0.25 4.61 -4.36
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.3 r_dihedral_angle_4_deg 14.161 r_dihedral_angle_3_deg 13.096 r_dihedral_angle_1_deg 5.745 r_long_range_B_refined 3.786 r_long_range_B_other 3.785 r_mcangle_it 2.292 r_mcangle_other 2.292 r_scangle_other 2.089 r_mcbond_it 1.322
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.3 r_dihedral_angle_4_deg 14.161 r_dihedral_angle_3_deg 13.096 r_dihedral_angle_1_deg 5.745 r_long_range_B_refined 3.786 r_long_range_B_other 3.785 r_mcangle_it 2.292 r_mcangle_other 2.292 r_scangle_other 2.089 r_mcbond_it 1.322 r_mcbond_other 1.318 r_scbond_it 1.203 r_scbond_other 1.202 r_angle_refined_deg 1.028 r_angle_other_deg 0.861 r_chiral_restr 0.057 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 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 3433 Nucleic Acid Atoms Solvent Atoms 2 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling