The Protein Data Bank in India (PDBi) is a national bioinformatics platform dedicated to the collection, organization, visualization, and distribution of three-dimensional structural data of biological macromolecules. It is an integrated web portal and toolkit developed to provide seamless access, advanced searching, and analysis capabilities for biomolecular structures available in the worldwide Protein Data Bank (PDB) archive, with a special focus on contributions from Indian institutions and researchers.

The Protein Data Bank (PDB) is the single global archive of 3D structural data of proteins, nucleic acids, and complex assemblies, managed by the wwPDB consortium (RCSB PDB, PDBe, PDBj). As of now, it contains over 249,000 experimentally determined structures that drive advances in structural biology, drug discovery, bioinformatics, and AI-based prediction tools such as AlphaFold.

Why PDBi?

PDBi aims to serve as a centralized structural biology resource for the scientific community by integrating molecular structure data with functional and biological annotations in a user-friendly environment.

While global PDB resources are comprehensive, PDBi adds India-centric value by providing:

• Easy browsing of structures deposited by Indian laboratories and institutions.
• Integration of community-developed structural bioinformatics tools from NII and other Indian institutes.

Integrated Platforms & Tools

• ProModEv – A benchmarking portal for evaluating protein structure prediction methods (AlphaFold, ESMFold, etc.).
• SG-ML-PLAP – Structure-guided machine learning-based scoring function for protein–ligand binding affinity prediction.
• SMMPPI – Predicting small-molecule modulators of protein–protein interactions.
• TF-DNA SAP – Structural Analysis Platform for transcription factor–DNA complexes.
• RNABPDB – Database and tools for RNA base-pair analysis.

India-Focused Structural Dashboard

PDBi also hosts a dedicated web interface titled "Biomolecular Structures in PDB from India", which provides a curated dashboard of macromolecular structures solved by scientists and researchers from India.

Additionally, PDBi integrates platforms such as MutMapTB and other computational resources to strengthen the structural bioinformatics ecosystem in India.