Team:RUM-UPRM/Parts
Parts
New Parts Submission
The xplA/B are involved in the reductive denitrification and ring cleavage of explosive organic contaminant, hexahydro-1,3,5-trinitro-1,3,5-triazine (RDX). The xplA/B system are normally located adjacent to each other in a plasmid-borne gene operon from Rhodococcus rhodochrous strain 11Y.
First, the xplB gene encodes for a partner flavodoxin reductase, while the xplA encodes for flavodoxin domain fused (at the N-terminus) of a P450 cytochrome. Flavodoxins are small electron transfer proteins containing one molecule of non-covalently, but tightly bound flavin mononucleotide (FMN) as its redox center. The partner flavodoxin reductase, encoded by the xplB gene, is required to complete the system and it's related to the redox partner of xplA . The reductase xplB facilitates the electron transfer from NADPH to the flavodoxin domain of the xplA cytochrome , which will ultimately result in the degradation of RDX by xplA . Depending on anaerobic or aerobic conditions, RDX in the form of MEDINA and 4-nitro-2,4, diazabutana (NDAB) respectively, produce nitrite and formaldehyde as byproducts. On the other hand, under aerobic condition, 4-nitro-2,4, diazabutanal (NDAB), nitrite and formaldehyde are produced.
Modelling
To model the reactions that take place during the transcription of xplA/B, Team iGEM RUM-UPRM2020 used the Law of Mass Action kinetics to determine how the concentrations of the species changes with respect to time. In Figure 1, provides the ODE diagram representation in SimBiology and Concentration (mM) versus time (hr) plots to describe the system’s behavior. An overall analysis for all devices shows similar behaviors of the concentration as a function of time, as can be observed, the time is directly proportional to the concentration of translated proteins. As the time increases, the concentration of translated proteins increases.
