1R1Z
The Crystal structure of the Carbohydrate recognition domain of the glycoprotein sorting receptor p58/ERGIC-53 reveals a novel metal binding site and conformational changes associated with calcium ion binding
Summary for 1R1Z
| Entry DOI | 10.2210/pdb1r1z/pdb |
| Related | 1gv9 |
| Descriptor | ERGIC-53 protein, CALCIUM ION (3 entities in total) |
| Functional Keywords | beta-sheet, calcium-binding, lectin, mammalian, endoplasmic reticulum, sugar binding protein |
| Biological source | Rattus norvegicus (Norway rat) |
| Cellular location | Endoplasmic reticulum-Golgi intermediate compartment membrane; Single-pass type I membrane protein (By similarity): Q62902 |
| Total number of polymer chains | 4 |
| Total formula weight | 116429.57 |
| Authors | Velloso, L.M.,Svensson, K.,Pettersson, R.F.,Lindqvist, Y. (deposition date: 2003-09-25, release date: 2003-12-16, Last modification date: 2024-10-30) |
| Primary citation | Velloso, L.M.,Svensson, K.,Pettersson, R.F.,Lindqvist, Y. The Crystal Structure of the Carbohydrate-recognition Domain of the Glycoprotein Sorting Receptor p58/ERGIC-53 Reveals an Unpredicted Metal-binding Site and Conformational Changes Associated with Calcium Ion Binding. J.Mol.Biol., 334:845-851, 2003 Cited by PubMed Abstract: p58/ERGIC-53 is a calcium-dependent animal lectin that acts as a cargo receptor, binding to a set of glycoproteins in the endoplasmic reticulum (ER) and transporting them to the Golgi complex. It is similar in structure to calcium-dependent leguminous lectins. We have determined the structure of the carbohydrate-recognition domain of p58/ERGIC-53 in its calcium-bound form. The structure reveals localized but large conformational changes in relation to the previously determined metal ion-free structure, mapping mostly to the ligand-binding site. It reveals the presence of two calcium ion-binding sites located 6A apart, one of which has no equivalent in the plant lectins. The second metal ion-binding site present in that class of lectins, binding Mn(2+), is absent from p58/ERGIC-53. The absence of a short loop in the ligand-binding site in this protein suggests that it has adapted to optimally bind the high-mannose Man(8)(GlcNAc)(2) glycan common to glycoproteins at the ER exit stage. PubMed: 14643651DOI: 10.1016/j.jmb.2003.10.031 PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (2.4 Å) |
Structure validation
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