Summary for 7OYZ
| Entry DOI | 10.2210/pdb7oyz/pdb |
| Descriptor | Putrescine-binding periplasmic protein PotF, SPERMIDINE, 1,2-ETHANEDIOL, ... (5 entities in total) |
| Functional Keywords | e.coli, periplasmic binding protein, potf, spermidine, transport protein |
| Biological source | Escherichia coli (strain K12) |
| Total number of polymer chains | 1 |
| Total formula weight | 39787.46 |
| Authors | Shanmugaratnam, S.,Kroeger, P.,Hocker, B. (deposition date: 2021-06-25, release date: 2021-12-01, Last modification date: 2024-10-23) |
| Primary citation | Kroger, P.,Shanmugaratnam, S.,Scheib, U.,Hocker, B. Fine-tuning spermidine binding modes in the putrescine binding protein PotF. J.Biol.Chem., 297:101419-101419, 2021 Cited by PubMed Abstract: A profound understanding of the molecular interactions between receptors and ligands is important throughout diverse research, such as protein design, drug discovery, or neuroscience. What determines specificity and how do proteins discriminate against similar ligands? In this study, we analyzed factors that determine binding in two homologs belonging to the well-known superfamily of periplasmic binding proteins, PotF and PotD. Building on a previously designed construct, modes of polyamine binding were swapped. This change of specificity was approached by analyzing local differences in the binding pocket as well as overall conformational changes in the protein. Throughout the study, protein variants were generated and characterized structurally and thermodynamically, leading to a specificity swap and improvement in affinity. This dataset not only enriches our knowledge applicable to rational protein design but also our results can further lay groundwork for engineering of specific biosensors as well as help to explain the adaptability of pathogenic bacteria. PubMed: 34801550DOI: 10.1016/j.jbc.2021.101419 PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (1.49 Å) |
Structure validation
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