AI-ACCELERATED DRUG DISCOVERY
Available from Reaxense
This protein is integrated into the Receptor.AI ecosystem as a prospective target with high therapeutic potential. We performed a comprehensive characterization of Deoxyribonuclease gamma including:
1. LLM-powered literature research
Our custom-tailored LLM extracted and formalized all relevant information about the protein from a large set of structured and unstructured data sources and stored it in the form of a Knowledge Graph. This comprehensive analysis allowed us to gain insight into Deoxyribonuclease gamma therapeutic significance, existing small molecule ligands, relevant off-targets, and protein-protein interactions.
Fig. 1. Preliminary target research workflow
2. AI-Driven Conformational Ensemble Generation
Starting from the initial protein structure, we employed advanced AI algorithms to predict alternative functional states of Deoxyribonuclease gamma, including large-scale conformational changes along "soft" collective coordinates. Through molecular simulations with AI-enhanced sampling and trajectory clustering, we explored the broad conformational space of the protein and identified its representative structures. Utilizing diffusion-based AI models and active learning AutoML, we generated a statistically robust ensemble of equilibrium protein conformations that capture the receptor's full dynamic behavior, providing a robust foundation for accurate structure-based drug design.
Fig. 2. AI-powered molecular dynamics simulations workflow
3. Binding pockets identification and characterization
We employed the AI-based pocket prediction module to discover orthosteric, allosteric, hidden, and cryptic binding pockets on the protein’s surface. Our technique integrates the LLM-driven literature search and structure-aware ensemble-based pocket detection algorithm that utilizes previously established protein dynamics. Tentative pockets are then subject to AI scoring and ranking with simultaneous detection of false positives. In the final step, the AI model assesses the druggability of each pocket enabling a comprehensive selection of the most promising pockets for further targeting.
Fig. 3. AI-based binding pocket detection workflow
4. AI-Powered Virtual Screening
Our ecosystem is equipped to perform AI-driven virtual screening on Deoxyribonuclease gamma. With access to a vast chemical space and cutting-edge AI docking algorithms, we can rapidly and reliably predict the most promising, novel, diverse, potent, and safe small molecule ligands of Deoxyribonuclease gamma. This approach allows us to achieve an excellent hit rate and to identify compounds ready for advanced lead discovery and optimization.
Fig. 4. The screening workflow of Receptor.AI
Receptor.AI, in partnership with Reaxense, developed a next-generation technology for on-demand focused library design to enable extensive target exploration.
The focused library for Deoxyribonuclease gamma includes a list of the most effective modulators, each annotated with 38 ADME-Tox and 32 physicochemical and drug-likeness parameters. Furthermore, each compound is shown with its optimal docking poses, affinity scores, and activity scores, offering a detailed summary.
Deoxyribonuclease gamma
partner:
Reaxense
upacc:
Q13609
UPID:
DNSL3_HUMAN
Alternative names:
DNase I homolog protein DHP2; Deoxyribonuclease I-like 3; Liver and spleen DNase
Alternative UPACC:
Q13609; B2R8B1; B7Z707; O75803
Background:
Deoxyribonuclease gamma, also known as DNase I homolog protein DHP2, Deoxyribonuclease I-like 3, and Liver and spleen DNase, exhibits DNA hydrolytic activity, cleaving both single- and double-stranded DNA. It plays a crucial role in apoptosis and necrosis by acting in internucleosomal DNA fragmentation and is active in apoptotic cell-derived membrane-coated microparticles, suppressing anti-DNA autoimmunity. Additionally, it collaborates with DNASE1 in degrading neutrophil extracellular traps (NETs), preventing blood vessel obstruction and organ damage following inflammation.
Therapeutic significance:
Given its involvement in Systemic lupus erythematosus 16, a rare form of systemic lupus erythematosus characterized by lupus nephritis and anti-neutrophil cytoplasmic antibodies, Deoxyribonuclease gamma represents a promising target for therapeutic intervention. Understanding its role could lead to novel treatments for autoimmune diseases and conditions associated with excessive NET formation.
