WITHDRAWN: Neural Network and Random Forest Algorithms as Catalysts in QSAR/QSAAR Modeling: Targeting Carbonic Anhydrase for Antituberculosis Drug Design

Abstract

Mycobacterium tuberculosis beta-carbonic anhydrases (MtbCAs) are metalloenzymes responsible for catalyzing the conversion of CO2 to HCO3- by hydration. The pH regulation of Mycobacterium is considered crucial for Mtb survival in acidic environments. Through the inhibition of MtbCAs, we can identify novel targets for antituberculosis medications that operate differently from currently approved treatments. In the present study, we developed a novel cheminformatics pipeline by generating two diverse molecular feature-based machine learning-assisted quantitative structural activity relationship (ML-QSAR) models concerning the individual inhibition mechanisms of MtbCA1 and MtbCA2. Random forest algorithm-based ML-QSAR prediction models were implemented using a combination of molecular fingerprints and descriptors to investigate the individual chemical spaces of inhibitors for each MtbCA subtype. The final ML-QSAR predictive models were further developed as a web application, MtbCA-Selec-Pred (https://mtbca-selec-pred.streamlit.app/), to allow users to predict the bioactivity of molecules against MtbCA1 and MtbCA2. Additionally, the molecular signatures of MtbCA1 MtbCA2 dual inhibitors were investigated using a neural network-based machine learning-assisted quantitative structural activity-activity relationship (ML-QSAAR) model. We concluded that molecules with conserved molecular signatures, SubFP1, SubFP179, SubFP287, SubFP143, SubFP100, nHBint8, SHBint8, naasC, and SHssNH, selectively inhibited MtbCA1. In contrast, the molecules with conserved molecular signatures SubFP275, SubFP28, SubFP1, SubFP183, SubFP184, minHBa, nHeteroRing, and n5Ring selectively inhibited MtbCA2. The presented models have the potential to serve as tools for identifying crucial molecular characteristics in the rational design of MtbCA inhibitors and might be employed for developing effective drugs against tuberculosis.

WITHDRAWN: Mechanistic modeling of Mycobacterium tuberculosis β-carbonic anhydrase inhibitors using integrated systems biology and the QSAR approach

“…Mtb possesses three β-CA genes in its genome: Rv1284 (which encodes a protein referred to as Mtb β-CA1), Rv3588c (which encodes Mtb β-CA2), and Rv3273 (which encodes a third enzyme known as Mtb β-CA3) [19]. Mycobacterial β-CAs are targets for developing antimycobacterial agents that are devoid of antimycobacterial resistance [20,21]. Inhibiting mycobacterial β-CAs presents an opportunity to identify novel drug targets within the anti-infective categories (such as antifungal and antibacterial agents) that operate through distinct mechanisms of action compared to those of conventional pharmacological agents currently in clinical use.…”