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 Very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 1 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 Very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 1 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 Very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 1, 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 Very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 1. 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 Very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 1. 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 Very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 1 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.
Very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 1
partner:
Reaxense
upacc:
B0YJ81
UPID:
HACD1_HUMAN
Alternative names:
3-hydroxyacyl-CoA dehydratase 1; Cementum-attachment protein; Protein-tyrosine phosphatase-like member A
Alternative UPACC:
B0YJ81; B0YJ80; Q6JIC5; Q96FW7; Q9HB93; Q9UHX2
Background:
Very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 1, also known as 3-hydroxyacyl-CoA dehydratase 1 and Cementum-attachment protein, plays a pivotal role in the elongation of long-chain and very long-chain fatty acids. These fatty acids are crucial for various biological processes, including membrane lipid formation and lipid mediator production. Additionally, this protein contributes to tooth development by influencing cementum formation.
Therapeutic significance:
Congenital myopathy 11, a skeletal muscle disorder marked by severe hypotonia and motor delay, is linked to mutations in the gene encoding this protein. Understanding the role of Very-long-chain (3R)-3-hydroxyacyl-CoA dehydratase 1 could pave the way for novel therapeutic strategies targeting this and potentially other related disorders.
