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 Germ cell nuclear acidic protein 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 Germ cell nuclear acidic protein 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 Germ cell nuclear acidic protein, 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 Germ cell nuclear acidic protein. 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 Germ cell nuclear acidic protein. 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 Germ cell nuclear acidic protein 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.
Germ cell nuclear acidic protein
partner:
Reaxense
upacc:
Q96QF7
UPID:
GCNA_HUMAN
Alternative names:
Acidic repeat-containing protein; Germ cell nuclear acidic peptidase; Germ cell nuclear antigen
Alternative UPACC:
Q96QF7; B9EG62
Background:
The Germ cell nuclear acidic protein, also known as Acidic repeat-containing protein, Germ cell nuclear acidic peptidase, and Germ cell nuclear antigen, plays a crucial role in maintaining genomic stability. It is instrumental in the clearance of DNA-protein cross-links (DPCs) through a SUMO-dependent recruitment to sites of DPCs, safeguarding germ cells and early embryos from damage. This protein is particularly adept at resolving topoisomerase II (TOP2A) DPCs, highlighting its significance in cellular repair mechanisms.
Therapeutic significance:
Linked to Spermatogenic failure, X-linked, 4, a male infertility disorder characterized by non-obstructive azoospermia or oligoasthenoteratozoospermia, the Germ cell nuclear acidic protein's understanding could pave the way for innovative therapeutic strategies. Its role in ensuring genomic stability by protecting germ cells suggests potential in treating infertility issues.
