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Updated: Jan 22, 2026

Incorporating Target Protein Structure Flexibility and Dynamics in Computational Drug Discovery Using Ensemble-Based Docking Analysis
Published on: June 20, 2025
[Structural Basis of the Multifunctional Hub Protein and Identification of a Small-molecule Compound for Drug
1Department of Physical Biochemistry, School of Pharmaceutical Sciences, University of Shizuoka.
Abstract:
Translesion DNA synthesis (TLS) is an emergency system activated to inhibit cell death caused by DNA damage-induced replication arrest. Thus, TLS enables cancer cells to acquire resistance to alkylate anticancer drugs. REV7 functions as the hub protein that interacts with both the inserter DNA polymerase REV1 and the extender DNA polymerase REV3 in TLS. REV7-mediated protein-protein interactions (PPIs) are essential for the activation of TLS, and are therefore attractive targets for anticancer drug development. To clarify the REV7-REV3 and REV7-REV1 PPIs, we determined the structures of REV7-REV3 and REV7-REV3-REV1 complexes. In the structures of REV7-REV3 and REV7-REV3-REV1 complexes, REV7 wraps around the REV3 fragment, and the REV1-binding interface is distinct from the REV3-binding site of REV7. We also identified a novel REV7 binding protein, transcription factor II-I (TFII-I), which is required for TLS. Of note, TFII-I binds the REV7-REV3-REV1 complex, suggesting that REV7-TFII-I PPIs are independent of other REV7-mediated PPIs. Furthermore, we found a small-molecule compound that inhibits TLS by targeting the REV7-REV3 PPIs. Lastly, we determined the structure of REV7 in complex with chromosome alignment maintaining phosphoprotein (CAMP), a known kinetochore-microtubule attachment protein. The overall structure of the REV7-CAMP complex is similar to that of the REV7-REV3 complex, but the REV7-CAMP PPIs are markedly different from the REV7-REV3 PPIs. These findings improve our understanding of multifunctional hub proteins, and are helpful for designing small-molecule compounds for novel anticancer drug development.
Insights
Translesion DNA synthesis (TLS) relies on the hub protein REV7. Researchers elucidated REV7 interactions, identifying new binding partners and a compound inhibiting TLS, offering new anticancer drug targets.
Area of Science:
- Molecular Biology
- Structural Biology
- Biochemistry
Background:
- Translesion DNA synthesis (TLS) is crucial for cell survival following DNA damage.
- TLS enables cancer cells to develop resistance to alkylating anticancer drugs.
- REV7 is a central hub protein in TLS, mediating interactions with DNA polymerases REV1 and REV3.
Purpose of the Study:
- To elucidate the structural basis of protein-protein interactions (PPIs) involving REV7, REV1, and REV3.
- To identify novel REV7-interacting proteins and their role in TLS.
- To explore REV7 as a target for anticancer drug development.
Main Methods:
- X-ray crystallography to determine the structures of REV7-REV3 and REV7-REV3-REV1 complexes.
- Identification of novel protein interactions using structural data.
- Screening for small-molecule compounds that inhibit REV7-mediated PPIs.
Main Results:
- Structural analysis revealed how REV7 interacts with REV3 and REV1, with distinct binding interfaces.
- A novel TLS-required protein, transcription factor II-I (TFII-I), was identified, interacting independently with the REV7 complex.
- A small-molecule compound was found to inhibit TLS by targeting the REV7-REV3 interaction.
- The structure of the REV7-CAMP complex was determined, showing distinct binding compared to REV7-REV3.
Conclusions:
- REV7's structure and interactions with REV1, REV3, and TFII-I provide insights into TLS regulation.
- Targeting REV7-mediated PPIs, particularly REV7-REV3, is a viable strategy for developing novel anticancer drugs.
- Understanding the multifaceted roles of hub proteins like REV7 is key for advancing cancer therapeutics.
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