RNA polymerase II subunit A C-terminal domain phosphatase SSU72

RNA polymerase II subunit A C-terminal domain phosphatase SSU72 - Focused Library Design

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 RNA polymerase II subunit A C-terminal domain phosphatase SSU72 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 RNA polymerase II subunit A C-terminal domain phosphatase SSU72 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 RNA polymerase II subunit A C-terminal domain phosphatase SSU72, 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 RNA polymerase II subunit A C-terminal domain phosphatase SSU72. 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 RNA polymerase II subunit A C-terminal domain phosphatase SSU72. 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 RNA polymerase II subunit A C-terminal domain phosphatase SSU72 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.

RNA polymerase II subunit A C-terminal domain phosphatase SSU72

partner:

Reaxense

upacc:

Q9NP77

UPID:

SSU72_HUMAN

Alternative names:

Alternative UPACC:

Q9NP77; Q9BZS6; Q9H933

Background:

RNA polymerase II subunit A C-terminal domain phosphatase SSU72 is a pivotal enzyme that catalyzes the dephosphorylation of the C-terminal domain of RNA polymerase II. This process is crucial for RNA processing and termination, as well as pre-mRNA polyadenylation, facilitated through its interaction with SYMPK. The enzyme's role underscores its importance in the regulation of gene expression.

Therapeutic significance:

Understanding the role of RNA polymerase II subunit A C-terminal domain phosphatase SSU72 could open doors to potential therapeutic strategies. Its critical function in RNA processing and gene expression regulation presents a unique opportunity for the development of novel treatments targeting a range of diseases.