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Crystal structure of N97A mutant of human CEACAM1
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4QXW
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 298 6% Tascimate with 25% polyethylene glycol 400 in 0.1 M MES monohydrate pH 6.0
Crystal Properties Matthews coefficient Solvent content 2.09 41.11
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.934 α = 90 b = 56.879 β = 90 c = 124.541 γ = 90
Symmetry Space Group C 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 EIGER X 9M 2018-02-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSLS-II BEAMLINE 17-ID-1 0.920 NSLS-II 17-ID-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.758 28.76 96.1 0.086 0.998 19.5 11.9 19429
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 1.758 1.8 0.794 2
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 (All) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 4QXW 1.758 28.76 19398 980 96.111 0.194 0.1918 0.2399 0.2415 RANDOM 15.631
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] 0.521 0.28 -0.801
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.424 r_dihedral_angle_4_deg 20.183 r_dihedral_angle_3_deg 13.195 r_dihedral_angle_1_deg 6.119 r_lrange_it 5.114 r_lrange_other 5.077 r_scangle_it 3.804 r_scangle_other 3.804 r_scbond_it 2.504 r_scbond_other 2.484
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.424 r_dihedral_angle_4_deg 20.183 r_dihedral_angle_3_deg 13.195 r_dihedral_angle_1_deg 6.119 r_lrange_it 5.114 r_lrange_other 5.077 r_scangle_it 3.804 r_scangle_other 3.804 r_scbond_it 2.504 r_scbond_other 2.484 r_angle_refined_deg 1.916 r_mcangle_it 1.542 r_mcangle_other 1.542 r_mcbond_it 1.122 r_mcbond_other 1.121 r_angle_other_deg 1.044 r_nbd_refined 0.256 r_symmetry_nbd_refined 0.251 r_nbd_other 0.238 r_nbtor_refined 0.173 r_symmetry_nbd_other 0.17 r_xyhbond_nbd_refined 0.132 r_symmetry_xyhbond_nbd_refined 0.129 r_chiral_restr 0.121 r_symmetry_nbtor_other 0.081 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1676 Nucleic Acid Atoms Solvent Atoms 181 Heterogen Atoms 14
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction Aimless data scaling MOLREP phasing