1POY
SPERMIDINE/PUTRESCINE-BINDING PROTEIN COMPLEXED WITH SPERMIDINE (DIMER FORM)
Summary for 1POY
| Entry DOI | 10.2210/pdb1poy/pdb |
| Related | 1POT |
| Descriptor | SPERMIDINE/PUTRESCINE-BINDING PROTEIN, SPERMIDINE (3 entities in total) |
| Functional Keywords | transport protein, binding protein |
| Biological source | Escherichia coli |
| Cellular location | Periplasm: P23861 |
| Total number of polymer chains | 4 |
| Total formula weight | 145772.50 |
| Authors | Sugiyama, S.,Vassylyev, D.G.,Matsushima, M.,Morikawa, K. (deposition date: 1996-02-02, release date: 1996-07-11, Last modification date: 2024-02-14) |
| Primary citation | Sugiyama, S.,Vassylyev, D.G.,Matsushima, M.,Kashiwagi, K.,Igarashi, K.,Morikawa, K. Crystal structure of PotD, the primary receptor of the polyamine transport system in Escherichia coli. J.Biol.Chem., 271:9519-9525, 1996 Cited by PubMed Abstract: PotD protein is a periplasmic binding protein and the primary receptor of the polyamine transport system, which regulates the polyamine content in Escherichia coli. The crystal structure of PotD in complex with spermidine has been solved at 2.5-A resolution. The PotD protein consists of two domains with an alternating beta-alpha-beta topology. The polyamine binding site is in a central cleft lying in the interface between the domains. In the cleft, four acidic residues recognize the three positively charged nitrogen atoms of spermidine, while five aromatic side chains anchor the methylene backbone by van der Waals interactions. The overall fold of PotD is similar to that of other periplasmic binding proteins, and in particular to the maltodextrin-binding protein from E. coli, despite the fact that sequence identity is as low as 20%. The comparison of the PotD structure with the two maltodextrin-binding protein structures, determined in the presence and absence of the substrate, suggests that spermidine binding rearranges the relative orientation of the PotD domains to create a more compact structure. PubMed: 8621624DOI: 10.1074/jbc.271.16.9519 PDB entries with the same primary citation |
| Experimental method | X-RAY DIFFRACTION (2.5 Å) |
Structure validation
Download full validation report
