alphafold-database

alphafold-database is a skill for Claude Code, Codex from ovachiever/droid-tings. It costs 55 tokens per session (3,898 once invoked), scanned A, original, no licence file.

A guide for retrieving AI-predicted protein structures from AlphaFold, a database of predicted 3D protein shapes.

In plain words
What is it for?
It helps retrieve structures by UniProt ID, download PDB or mmCIF files, and examine pLDDT and PAE confidence metrics for drug discovery or structural biology.
Why use it?
It provides structure files and confidence measurements without requiring a structure to be determined experimentally first.

Skill for Claude CodeCodex

Which agent this was written for is unclear — body not stored (licence); the path alone says nothing.

Good fit It helps retrieve structures by UniProt ID, download PDB or mmCIF files…

Compare 6 skills from other repositories ↓
Install with agentmods
npx agentmods add skills/ovachiever/droid-tings/alphafold-database
Install

Getting it into your agent

One page per mod, every tool's command on it. A separate URL per tool would split the same page into five that compete with each other.

Any agent
npx skills add ovachiever/droid-tings --skill alphafold-database
Clone the repo
git clone --depth 1 https://github.com/ovachiever/droid-tings

Made for: Claude Code, Codex.

Wrote this? Show the measurements

A badge with what this costs and how it scanned, read live from this page, so it follows the numbers instead of freezing them. Markdown for a README, HTML for a documentation site or a project page.

agentmods badge for alphafold-database

README.md
[![agentmods](https://agentmods.dev/badge/skills/ovachiever/droid-tings/alphafold-database.svg)](https://agentmods.dev/skills/ovachiever/droid-tings/alphafold-database)
Your own site
<a href="https://agentmods.dev/skills/ovachiever/droid-tings/alphafold-database"><img src="https://agentmods.dev/badge/skills/ovachiever/droid-tings/alphafold-database.svg" alt="Measured on agentmods" height="20"></a>
Per session 55 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 3,898 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 2 findings. A grade says what 26 rules found in the file — not that it is safe.
Origin unknown No closer match found in the catalogue.
Token cost

What it costs to keep this loaded

Counted locally with the o200k_base tokenizer, which is exact for GPT models; Claude uses its own tokenizer and its counts differ. Treat this as one consistent yardstick across the catalogue rather than a bill. Prices are per million input tokens.

ModelPer sessionOnce invoked
Fable 5.1 $0.00055 $0.03898
Opus 5 $0.00028 $0.01949
Sonnet 5 $0.00011 $0.00780
Haiku 4.5 $0.00006 $0.00390

Measured 7d ago against content hash 9c9f982059f6, method: parsed. Prices are Anthropic first-party input rates as of 2026-09-06, from the pricing page.

Security

Grade A, and why

alphafold-database scanned grade A with 2 findings against 26 rules in 11 categories — prompt injection, anti-refusal, data exfiltration, privilege escalation, supply chain, agent snooping, system-prompt leakage, SSRF and excessive agency — measured 7d ago.

A static scan of the body, not an audit. Every finding is printed with the line that produced it so you can judge whether it matters here. A mod is markdown that instructs an agent; that is exactly why what it instructs is worth reading.

Makes network callslowCapability

Not a fault in itself. Listed so you know the mod talks to something, and to what.

response = requests.get(api_url)

Runs shell commandslowCapability

Expected in a hook, worth knowing in a rule or an instructions file.

subprocess.run(cmd, shell=True, check=True)
skills/alphafold-database/SKILL.md · 501 lines

The source is not reproduced here

A licence we could not identify

The repository carries a LICENSE file, but it is custom or dual enough that GitHub cannot name it and neither can this catalogue. Unknown terms are not permission, so the body is not copied here. Read the licence at the source and decide for yourself.

Read it on GitHub

Files

What ships with it

1 file beside SKILL.md in the same directory: the scripts, references and assets a skill reads on demand. Not counted in the per-session cost; read them before you install if any of them is executable.

Changes

What this file has done since we first saw it

Hashed on every crawl. A supply-chain change to an agent config is a question of when, not whether, so the history is kept rather than the latest state alone.

  1. 7d ago First seen · 501 lines · 55 tokens per session scan A 9c9f982059f6

Subscribe to this mod's changes

alphafold-database is a skill published in the GitHub repository ovachiever/droid-tings (52 stars, last pushed 9mo ago), with no licence file. It adds 55 tokens to every session and 3,898 once invoked, about $0.0003 per session on Opus 5. A static security scan graded it A with 2 findings (makes network calls, runs shell commands). No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-30.

Related

Other skills, from other repositories

instrument-data-to-allotrope

Convert laboratory instrument output files (PDF, CSV, Excel, TXT) to Allotrope Simple Model (ASM) JSON format or flattened 2D CSV. Use this skill when scientists need to standardize instrument data for LIMS systems, data lakes, or downstream analysis. Supports auto-detection of instrument types. Outputs include full…

anthropics/knowledge-work-plugins · 123 tokens

matlab

Build, review, migrate, and safely plan MATLAB or GNU Octave numerical workflows, including arrays, tabular/time data, tests, projects, graphics, MAT files, and explicit Python interoperability.

K-Dense-AI/scientific-agent-skills · 42 tokens

exploratory-data-analysis

Perform bounded, local exploratory analysis of explicitly supported scientific files. Use for redacted CSV/TSV/JSON profiles; optional NumPy, HDF5, FASTA/FASTQ, and basic image metadata inspection; missingness/leakage audits; outlier and transformation sensitivity; and rigorous EDA report scaffolds. Other domain…

K-Dense-AI/scientific-agent-skills · 83 tokens

phylogenetics

Build and analyze phylogenetic trees using MAFFT (multiple alignment), IQ-TREE 2 (maximum likelihood), and FastTree (fast NJ/ML). Visualize with ETE3 or FigTree. For evolutionary analysis, microbial genomics, viral phylodynamics, protein family analysis, and molecular clock studies.

K-Dense-AI/scientific-agent-skills · 68 tokens

research-engineer

An uncompromising Academic Research Engineer. Operates with absolute scientific rigor, objective criticism, and zero flair. Focuses on theoretical correctness, formal verification, and optimal implementation across any required technology.

davila7/claude-code-templates · 43 tokens

mapping-to-snomed

Maps clinical concept spans extracted by OpenMed to SNOMED CT concepts through a USER-SUPPLIED terminology server (the user's own Ontoserver, Snowstorm, or UMLS/UTS), never a bundled vocabulary. Use when the user wants to code findings, disorders, procedures, body structures, or substances to SNOMED CT, run an ECL…

maziyarpanahi/openmed · 205 tokens