Dynamics of Bacteriorhodopsin in the Dark-Adapted State from Solution Nuclear Magnetic Resonance Spectroscopy

To achieve efficient proton pumping in the light-driven proton pump bacteriorhodopsin (bR), the protein must be tightly coupled to the retinal to rapidly convert retinal isomerization into protein structural rearrangements. Methyl group dynamics of bR embedded in lipid nanodiscs were determined in the dark-adapted state, and were found to be mostly well ordered at the cytosolic side. Methyl groups in the M145A mutant of bR, which displays only 10 % residual proton pumping activity, are less well ordered, suggesting a link between side-chain dynamics on the cytosolic side of the bR cavity and proton pumping activity. In addition, slow conformational exchange, attributed to low frequency motions of aromatic rings, was indirectly observed for residues on the extracellular side of the bR cavity. This may be related to reorganization of the water network. These observations provide a detailed picture of previously undescribed equilibrium dynamics on different time scales for ground-state bR.     

Enantiodiscrimination of racemic electrophiles by diketopiperazine enolates: asymmetric synthesis of methyl 2-amino-3-aryl-butanoates and 3-methyl-aspartates

Enolates of (S)-N,N′-bis-(p-methoxybenzyl)-3-iso-propylpiperazine-2,5-dione exhibit high levels of enantiodiscrimination in alkylations with (RS)-1-aryl-1-bromoethanes and (RS)-2-bromoesters, affording substituted diketopiperazines containing two new stereogenic centres in high de. Deprotection and hydrolysis of the resultant substituted diketopiperazines provides a route to the asymmetric synthesis of homochiral methyl 2-amino-3-aryl-butanoates and 3-methyl-aspartates in high de and ee.     

Host–guest inter­action in a thio­urea–dimethyl oxalate (2/1) complex at 300 and 100 K

The title complex, 2CH₄N₂S·C₄H₆O₄, is a host–guest system. The asymmetric unit consists of one complete thio­urea mol­ecule and one‐half of a dimethyl oxalate mol­ecule lying on an inversion centre. The host thio­urea mol­ecules are connected to form zigzag chains by N—H⋯S hydrogen bonds. The guest dimethyl oxalate mol­ecules provide O‐atom acceptors for N—H⋯O hydrogen bonds, thus inter­connecting the chains of thio­urea mol­ecules to form completely connected sheets. The reduction in temperature from 300 to 100 K leaves the structure unchanged and still isostructural with that previously determined for the analogous thio­urea–diethyl oxalate (2/1) complex. It does, however, induce closer packing of the mol­ecules, general shrinkage of the unit cell and shortening of the hydrogen bonds, these last two to the extent of 1–2%.     

Optimal mappings with minimum number of connected components in tree-to-tree comparison problems

In this paper we consider the problem of finding a minimum cost mapping between two unordered trees which induces a graph with a minimum number of connected components. The proposed algorithm is based on the generalization of an algorithm for computing an edit distance between trees, and it solves the stated problem in sequential time precisely in O(|T₁|×|T₂|×(degT₁+degT₂)×log₂(degT₁+degT₂)).