4 research outputs found
Changeover from (3,4) ene cyclization to (3,5) mode under the influence of Lewis acid catalyst: A quantum mechanical study
1637-1644Transition
structures (TSs) for the Lewis acid catalyzed ene cyclization reaction have
been optimized quantum mechanically and the selectivity for the (3,5) ene
cyclized product have been compared with that of (3,4) product. Analysis of the
result shows that the geometric deformation of the TS produced due to the
presence of Lewis acid in the environment plays a significant role in
determining the selectivity of (3,5) ene product. This geometric deformation
originates from the enlarged dihedral angle around the forming carbon-carbon
bond in the Lewis acid catalyzed TS
Theoretical studies on the pyridoxal-5'-phosphate dependent enzyme dopa decarboxylase: Effect of Thr 246 residue on the co-factor-enzyme binding and reaction mechanism
155-164Decarboxylation of amino acid is a key
step for biosynthesis of several important cellular metabolites in the
biological systems. This process is catalyzed by amino acid decarboxylases and
most of them use pyridoxal-5'-phosphate (PLP) as a
co-factor. PLP is bound to the active site of the enzyme by various
interactions with the neighboring amino acid residues. In the present
investigation, density functional theory (DFT) and real-time dynamics studies
on both ligand-free and ligand-bound dopa decarboxylases (DDC) have been
carried out in order to elucidate the factors responsible for facile
decarboxylation and also for proper binding of PLP in the active site of the
enzyme. It has been found that in the crystal structure Asp271 interacts with
the pyridine nitrogen atom of PLP through H-bonding in both native and
substrate-bound DDC. On the contrary, Thr246 is in close proximity to the
oxygen of 3-OH of PLP pyridine ring only in the substrate-bound DDC. In the
ligand-free enzyme, the distance between the oxygen atom of 3-OH group of PLP
pyridine ring and oxygen atom of Thr246 hydroxyl group is not favorable for hydrogen bonding. Thus, present study reveals that
hydrogen bonding with O3 of PLP with a hydrogen bond donor residue provided by
the enzyme plays an important role in the decarboxylation process