Fig 1: Modeling TREM2/ApoE3 complex using XL-MS data.(a) Mapping intra-ApoE3 cross-links onto the NMR structure (pdb 2L7B). Red line: incompatible XLs with Cβ-Cβ solvent accessible surface distance (SASD) > 35 Å. Blue line: compatible XLs. (b) Filtering the structure ensemble of ApoE3 (Protein Ensemble Database PED07094) by intra-ApoE3 XLs yielded Model 49 with the highest structural compatibility. (c) The best-scoring model of TREM2/ApoE3 complex generated using Haddock. (d) Zoom-in view of the binding interface. ApoE3: light blue (N-terminal region, residues 1–167), light yellow (hinge region, residues 168–205), and pink (C-terminal region, residues 206–299). TREM2ECD: CDR1(residue 40–42), CDR2(residue 69–72), and CDR3 (residue 88–91).
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