pdb

Name: pdb
Availability: InStock
Author: omar-a-hassan

Retrieves protein structure entries and metadata from the RCSB PDB via APIs.

18|2|Updated Feb 21, 2026

Search Tags:#api #bioinformatics #pdb #structure-search #protein-structure #rcsb

Ready to run

npx skills add https://github.com/omar-A-hassan/medsci-agent --skill pdb-omar-a-hassan

💬 Prompt for ChatGPT / Claude Chat▼

Please help me install this Agent Skill.
Skill: pdb
Source: https://github.com/omar-A-hassan/medsci-agent/tree/main/.opencode/skills/pdb
Command: npx skills add https://github.com/omar-A-hassan/medsci-agent --skill pdb-omar-a-hassan

SYSTEM DOCUMENTATION & REQUIREMENTS

What problem does it solve?

This skill enables programmatic access to the RCSB PDB data, allowing researchers to search, fetch, and summarize protein structure information without leaving their environment.

Core Features & Use Cases

Search by text on structure titles, authors, and keywords.
Retrieve entry summaries, PDB IDs, resolution, experimental method, and related metadata.
Use Case: When studying a kinase, fetch all matching PDB entries and compare resolutions.

Quick Start

Query the RCSB PDB API to fetch kinase-related structures.

Frequently Asked Questions about pdb

High-intent search queries and answers about installing and using this skill.

FAQPage Schema

How do I search for protein structure entries in the RCSB PDB?▼

You can search for protein structure entries by querying the RCSB PDB API using text matches on structure titles, authors, and keywords to retrieve relevant PDB IDs and metadata.

What protein structure metadata can I retrieve from the RCSB PDB API?▼

The RCSB PDB API allows you to retrieve entry summaries, PDB IDs, resolution details, experimental methods, and related metadata for protein structures via the Data API or GraphQL API.

Can I fetch RCSB PDB data as JSON using API endpoints?▼

Yes, you can fetch RCSB PDB data as JSON by making requests to the Search API and Data API endpoints, then parsing the results while handling basic API response errors.

How do I find all PDB structures for a specific protein like a kinase?▼

To find PDB structures for a kinase, perform a text search against the RCSB PDB API to fetch all matching entries, allowing you to compare structural resolutions and experimental methods.

Does retrieving protein structure data via the RCSB PDB API require external dependencies?▼

No, retrieving protein structure data via the RCSB PDB API requires no external dependencies, as the skill handles API requests, JSON parsing, and basic error handling natively.

When should I use the GraphQL API instead of the Search API for RCSB PDB data?▼

Use the GraphQL API for fetching complex structural data and entry summaries, while the Search API is suited for querying protein structure entries based on text matches across titles and keywords.