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 NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial 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 NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial 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 NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial, 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 NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial. 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 NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial. 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 NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial 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.
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial
partner:
Reaxense
upacc:
Q16795
UPID:
NDUA9_HUMAN
Alternative names:
Complex I-39kD; NADH-ubiquinone oxidoreductase 39 kDa subunit
Alternative UPACC:
Q16795; Q14076; Q2NKX0
Background:
NADH dehydrogenase [ubiquinone] 1 alpha subcomplex subunit 9, mitochondrial, also known as Complex I-39kD or NADH-ubiquinone oxidoreductase 39 kDa subunit, plays a crucial role in cellular energy production. It serves as an accessory subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I), essential for proper complex I assembly and electron transfer from NADH to the respiratory chain, with ubiquinone as the immediate electron acceptor.
Therapeutic significance:
The protein is implicated in Mitochondrial complex I deficiency, nuclear type 26, a condition with autosomal recessive inheritance affecting 1 in 5-10000 live births, leading to a spectrum of disorders from lethal neonatal disease to adult-onset neurodegenerative disorders. Understanding the role of this protein could open doors to potential therapeutic strategies for these conditions.
