Protein Data Bank

Provider

Augmented Nature

Classification

Community classification icon community

Est. Downloads

Info icon
This is our estimate of how many downloads occurred of this server across the MCP ecosystem (not specific to any single platform). We use a mix of publicly available data, social signals, and more to feed an algorithm that drives this estimation.
2.4k

Released On

Aug 20, 2025

Popularity Ranking

Info icon
Our estimate as to where this MCP server implementation ranks on the global leaderboard of usage.
#2,557 (#2,927 this week)

Integrates with the Protein Data Bank (PDB) to provide search, retrieval, and analysis capabilities for protein structures, coordinates, quality metrics, and validation data for structural biology research.

Related Servers

UniProt

TakumiY235

Integrates with UniProt API to provide cached protein information for bioinformatics applications and protein research.

Classification

Community icon

community

Est Downloads (All Time)

1.3k

Release Date

Dec 8, 2024

PubMed

Guillaume Raille

Integrates PubMed data for searching and fetching biomedical literature, enabling dynamic querying and analysis of...

Classification

Community icon

community

Est Downloads (All Time)

13.5k

Release Date

Jan 8, 2025

DBLP

Stefan Szeider

Integrates with the DBLP computer science bibliography database to enable searching publications, processing...

Classification

Community icon

community

Est Downloads (All Time)

2.2k

Release Date

Feb 28, 2025

BioMCP

Aakaash Meduri

Enabling agent-based biomedical R&D via protein structure analysis capabilities

Classification

Community icon

community

Est Downloads (All Time)

2.7k

Release Date

Mar 4, 2025

PyMOL

GDAmitha

Integrates with PyMOL molecular visualization software to enable interactive protein structure analysis,...

Classification

Community icon

community

Est Downloads (All Time)

Release Date

Mar 12, 2025

BioMCP (Biomedical Database Integration)

GenomOncology

Integrates with biomedical databases including ClinicalTrials.gov, PubMed, and MyVariant.info to provide structured...

Classification

Official repository icon

official

Est Downloads (All Time)

67.9k

Release Date

Apr 5, 2025

UniProt

Augmented Nature

Integrates with UniProt's protein database through 26 specialized bioinformatics tools for protein searches, sequence...

Classification

Community icon

community

Est Downloads (All Time)

Release Date

May 27, 2025

PubChem

Augmented Nature

Integrates with PubChem chemical database to provide compound search, structure analysis, property calculation,...

Classification

Community icon

community

Est Downloads (All Time)

4.5k

Release Date

May 30, 2025

BioContext Knowledgebase

BioContextAI Team

Provides unified access to over 20 biomedical databases and research tools including protein databases (UniProt,...

Classification

Community icon

community

Est Visitors (All Time)

12.8k

Release Date

Jul 15, 2025

AlphaFold

Augmented Nature

Integrates with DeepMind's AlphaFold Protein Structure Database to retrieve protein structures, analyze confidence...

Classification

Community icon

community

Est Downloads (All Time)

4.3k

Release Date

Jul 24, 2025

STRING Database

Moudather Chelbi

Integrates with STRING protein interaction database to enable protein network analysis, functional enrichment,...

Classification

Community icon

community

Est Downloads (All Time)

593

Release Date

Aug 2, 2025

BioPortal

Augmented Nature

Integrates with BioPortal's API to search, annotate, and explore over 1,200 biological ontologies including medical...

Classification

Community icon

community

Est Downloads (All Time)

1.2k

Release Date

Aug 14, 2025

Reactome

Augmented Nature

Integrates with Reactome's curated biological pathway database to search pathways by keywords, genes, or diseases,...

Classification

Community icon

community

Est Downloads (All Time)

1.2k

Release Date

Aug 14, 2025

UniProt

Jose Duarte

Integrates with UniProtKB protein database to provide complete protein entries, sequences, filtered searches, and ID...

Classification

Community icon

community

Est Downloads (All Time)

495

Release Date

Oct 28, 2025