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Updated: Jun 18, 2025

Quantitative Structure-Activity Relationship, Activity Prediction, and Molecular Dynamics of Non-nucleotide Reverse Transcriptase Inhibitors
Published on: May 9, 2025
Inhibition of human DNA alkylation damage repair enzyme ALKBH2 by HIV protease inhibitor ritonavir
Unnikrishnan P Shaji1, Nikhil Tuti1, S K Alim2
1Department of Biotechnology, Indian Institute of Technology Hyderabad (IITH), Kandi, Sanga Reddy, Telangana 502284, India.
Abstract:
The human DNA repair enzyme AlkB homologue-2 (ALKBH2) repairs methyl adducts from genomic DNA and is overexpressed in several cancers. However, there are no known inhibitors available for this crucial DNA repair enzyme. The aim of this study was to examine whether the first-generation HIV protease inhibitors having strong anti-cancer activity can be repurposed as inhibitors of ALKBH2. We selected four such inhibitors and performed in vitro binding analysis against ALKBH2 based on alterations of its intrinsic tryptophan fluorescence and differential scanning fluorimetry. The effect of these HIV protease inhibitors on the DNA repair activity of ALKBH2 was also evaluated. Interestingly, we observed that one of the inhibitors, ritonavir, could inhibit ALKBH2-mediated DNA repair significantly via competitive inhibition and sensitized cancer cells to alkylating agent methylmethane sulfonate (MMS). This work may provide new insights into the possibilities of utilizing HIV protease inhibitor ritonavir as a DNA repair antagonist.
Insights
This study repurposed HIV protease inhibitors to target the DNA repair enzyme ALKBH2, finding that ritonavir inhibits ALKBH2 and sensitizes cancer cells to DNA-damaging agents.
Area of Science:
- Biochemistry
- Molecular Biology
- Cancer Research
Background:
- The human DNA repair enzyme AlkB homologue-2 (ALKBH2) removes methyl adducts from DNA.
- ALKBH2 is overexpressed in various cancers, presenting a potential therapeutic target.
- No specific inhibitors for ALKBH2 are currently available.
Purpose of the Study:
- To investigate the potential of repurposing first-generation HIV protease inhibitors as ALKBH2 inhibitors.
- To evaluate the anti-cancer activity of these repurposed drugs against ALKBH2.
Main Methods:
- In vitro binding assays using tryptophan fluorescence and differential scanning fluorimetry were performed.
- The impact of selected HIV protease inhibitors on ALKBH2's DNA repair activity was assessed.
- Cancer cell sensitization to methylmethane sulfonate (MMS) was evaluated.
Main Results:
- Ritonavir, an HIV protease inhibitor, demonstrated significant inhibition of ALKBH2.
- The inhibition mechanism was identified as competitive.
- Ritonavir sensitized cancer cells to the alkylating agent MMS.
Conclusions:
- HIV protease inhibitor ritonavir can act as a competitive inhibitor of ALKBH2.
- This finding suggests potential for using ritonavir as a DNA repair antagonist in cancer therapy.
- Further research into ritonavir as a DNA repair inhibitor is warranted.
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