1poy | pdb_00001poy
SPERMIDINE/PUTRESCINE-BINDING PROTEIN COMPLEXED WITH SPERMIDINE (DIMER FORM)
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Overview
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.
About this Structure
1POY is a Single protein structure of sequence from Escherichia coli with SPD as ligand. Full crystallographic information is available from OCA.
Reference
Crystal structure of PotD, the primary receptor of the polyamine transport system in Escherichia coli., Sugiyama S, Vassylyev DG, Matsushima M, Kashiwagi K, Igarashi K, Morikawa K, J Biol Chem. 1996 Apr 19;271(16):9519-25. PMID:8621624
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