About Us
The physicochemical properties and binding modes of protein-ligand complexes are crucial for studying protein functions, predicting protein binding pockets, screening small molecule ligands, and designing drugs. To this end, we have created CpuPDB
CpuPDB is a comprehensive 3D database of protein-ligand binding sites and cavities. CpuPDB aims to provide detailed information on protein-ligand binding cavities, binding sites, and interaction forces by processing data from the Protein Data Bank (PDB)
CpuPDB includes By clicking on the numerical link, a comprehensive scan of the corresponding data within the CpuPDB can be performed.
- 37,864 PDB files and 17,193 biologically relevant ligands
- 67978 Pockets and sites of action based on known ligand assays
- 2352 DynamicPockets
- 122888 PDB entries with lvpocket predicted pockets of high precision
- eight distinct interaction types including hydrogen bonds and salt bridges at each binding site
- detailed annotations of the physicochemical properties of proteins and their ligands
- An informative EXPLORE page for investigating protein families
- Protein dynamics data is used to discover cryptic protein pockets and key binding sites
CpuPDB can significantly advance the fields of structural biology and drug discovery
Services
The homepage search area has been reorganized into a dedicated portal for query submission, result grouping, and post-search refinement. The new page provides a more structured search workflow for navigating CpuPDB content.
Conduct structured queries in a dedicated retrieval interface.
Structure identifiers, ligand descriptors, protein sequences, and molecular dynamics records can now be queried through a dedicated portal. Search controls and returned results are organized separately from the homepage for clearer navigation.
Integrated search workflows for CpuPDB
The dedicated portal consolidates query submission, result grouping, and metadata access within a single interface.
Targeted Queries
Retrieve entries through structure identifiers, ligand descriptors, or molecular structure strings.
Refined Results
Apply dedicated filters for annotation type, ligand information, and linked database references.
Direct Navigation
Move from search results to detail, dynamics, and external reference pages with minimal context switching.
Returned entries are presented with concise metadata summaries, direct access to detailed records, and contextual reference links for rapid inspection.
Supported Query Inputs
The portal supports both identifier-based retrieval and sequence-oriented exploration.
Connected Outputs
Search results lead directly to curated records, detail pages, and external annotations.
What can I do next?
Use these entry points when you are unsure where to start after opening CpuPDB.
Contact
Please contact us through the following way, welcome your visit
Our Address
639 Longmian Avenue, Jiangning District, Nanjing City, Jiangsu Province
Email Us
liaojun@cpu.edu.cn
Call Us
+86 025-86185160