AbstractBackground Cytochrome {P450} sterol 14α-demethylase (CYP51) is an essential enzyme for sterol biosynthesis and a target for anti-parasitic drug design. However, the design of parasite-specific drugs that inhibit parasitic {CYP51} without severe side effects remains challenging. The active site of {CYP51} is situated in the interior of the protein. Here, we characterize the potential ligand egress routes and mechanisms in Trypanosoma brucei and human {CYP51} enzymes. Methods We performed Random Acceleration Molecular Dynamics simulations of the egress of four different ligands from the active site of models of soluble and membrane-bound T. brucei {CYP51} and of soluble human CYP51. Results In the simulations, tunnel 2 f, which leads to the membrane, was found to be the predominant ligand egress tunnel for all the ligands studied. Tunnels S, 1 and W, which lead to the cytosol, were also used in T. brucei CYP51, whereas tunnel 1 was the only other tunnel used significantly in human CYP51. The common tunnels found previously in other {CYPs} were barely used. The ligand egress times were shorter for human than T. brucei CYP51, suggesting lower barriers to ligand passage. Two gating residues, {F105} and M460, in T. brucei {CYP51} that modulate the opening of tunnels 2 f and S were identified. Conclusions Although the main egress tunnel was the same, differences in the tunnel-lining residues, ligand passage and tunnel usage were found between T. brucei and human CYP51s. General Significance The results provide a basis for the design of selective anti-parasitic agents targeting the ligand tunnels.
SEEK ID: https://publications.h-its.org/publications/188
DOI: 10.1016/j.bbagen.2015.10.015
Research Groups: Molecular and Cellular Modeling
Publication type: Journal
Journal: Biochimica et Biophysica Acta (BBA) - General Subjects
Citation: Biochimica et Biophysica Acta (BBA) - General Subjects 1860(1):67-78
Date Published: 2016
Registered Mode: imported from a bibtex file
Views: 5469
Created: 7th Sep 2019 at 08:19
Last updated: 5th Mar 2024 at 21:23
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