8X3G
Crystal structure of metformin hydrolase from Aminobacter
Summary for 8X3G
| Entry DOI | 10.2210/pdb8x3g/pdb |
| Descriptor | Agmatinase family protein, Arginase family protein, GLYCEROL, ... (5 entities in total) |
| Functional Keywords | metformin hydrolase, arginase family, heterohexamer, hydrolase |
| Biological source | Aminobacter sp. NyZ550 More |
| Total number of polymer chains | 6 |
| Total formula weight | 236950.54 |
| Authors | |
| Primary citation | Li, T.,Xu, Z.J.,Zhang, S.T.,Xu, J.,Pan, P.,Zhou, N.Y. Discovery of a Ni 2+ -dependent heterohexameric metformin hydrolase. Nat Commun, 15:6121-6121, 2024 Cited by PubMed Abstract: The biguanide drug metformin is a first-line blood glucose-lowering medication for type 2 diabetes, leading to its presence in the global environment. However, little is known about the fate of metformin by microbial catabolism. Here, we characterize a Ni-dependent heterohexameric enzyme (MetCaCb) from the ureohydrolase superfamily, catalyzing the hydrolysis of metformin into guanylurea and dimethylamine. Either subunit alone is catalytically inactive, but together they work as an active enzyme highly specific for metformin. The crystal structure of the MetCaCb complex shows the coordination of the binuclear metal cluster only in MetCa, with MetCb as a protein binder of its active cognate. An in-silico search and functional assay discover a group of MetCaCb-like protein pairs exhibiting metformin hydrolase activity in the environment. Our findings not only establish the genetic and biochemical foundation for metformin catabolism but also provide additional insights into the adaption of the ancient enzymes toward newly occurred substrate. PubMed: 39033196DOI: 10.1038/s41467-024-50409-7 PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (1.84 Å) |
Structure validation
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