6L4C
Crystal structure of vicilin from Corylus avellana (Hazelnut)
Summary for 6L4C
| Entry DOI | 10.2210/pdb6l4c/pdb |
| Descriptor | 48-kDa glycoprotein, COPPER (II) ION (2 entities in total) |
| Functional Keywords | plant seed protein, copper binding protein, electrostatic loop, superoxide dismutase activity, plant protein |
| Biological source | Corylus avellana (European hazel) |
| Total number of polymer chains | 3 |
| Total formula weight | 144003.14 |
| Authors | Shikhi, M.,Salunke, D.M. (deposition date: 2019-10-16, release date: 2019-12-04, Last modification date: 2023-11-22) |
| Primary citation | Shikhi, M.,Jain, A.,Salunke, D.M. Comparative study of 7S globulin from Corylus avellana and Solanum lycopersicum revealed importance of salicylic acid and Cu-binding loop in modulating their function. Biochem.Biophys.Res.Commun., 522:127-132, 2020 Cited by PubMed Abstract: The plant seed proteins referred to as vicilins belong to a structurally common superfamily. While some of them are reported to exhibit superoxide dismutase activity, vicilins from other sources do not possess this activity. Vicilin from Corylus avellana (HZ.1) and Solanum lycopersicum (SL80.1) were purified and subjected to structure-function analysis. The superoxide dismutase activity assays were performed to understand the functional differences between them. While SL80.1 has the superoxide dismutase activity, HZ.1 was enzymatically inactive. Crystal structure followed by mass spectrometry analysis of both the proteins revealed that while SL80.1 has bound salicylic acid, HZ.1 does not. Comparison of C-terminal binding pocket of both the structures revealed that a point mutation at residue 321 in HZ.1 (Gly→Cys) leads to obstruction in binding of salicylic acid in the pocket. Similarly, copper-binding loop of HZ.1 was reportedly found to be intact and shorter than the loops reported in SL80.1. The copper-binding loop of SL80.1 is rich in polar residues and the absence of these residues in HZ.1 copper-binding loop possibly indicates deficiency in channeling of oxygen radicals to the active center of the enzyme. Difference in the enzymatic activity of vicilin from two evolutionarily distinct sources is due to mutations in its co-factor binding pocket and copper-binding loop. PubMed: 31753489DOI: 10.1016/j.bbrc.2019.11.072 PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (3.191 Å) |
Structure validation
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