Science Skills is a collection of add-ons that give AI agents structured instructions, scripts, and references for scientific research, including genomics, structural biology, cheminformatics, and literature search. Researchers use it to guide agents through specialized scientific tasks with information from databases and tools such as AlphaGenome, AFDB, and UniProt. The catalogue entries are individual skills from this collection.
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.
npx skills add google-deepmind/science-skills --skill protein_sequence_similarity_searchgit clone --depth 1 https://github.com/google-deepmind/science-skillsWrote 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.
[](https://agentmods.dev/skills/google-deepmind/science-skills/protein_sequence_similarity_search)<a href="https://agentmods.dev/skills/google-deepmind/science-skills/protein_sequence_similarity_search"><img src="https://agentmods.dev/badge/skills/google-deepmind/science-skills/protein_sequence_similarity_search/github.svg" alt="Measured on agentmods" height="20"></a>Or the 80×15 button, for a site that already has a row of RSS and ATOM ones. Only the verdict fits; the numbers stay here.
<a href="https://agentmods.dev/skills/google-deepmind/science-skills/protein_sequence_similarity_search"><img src="https://agentmods.dev/badge/skills/google-deepmind/science-skills/protein_sequence_similarity_search.svg" alt="Reviewed on agentmods" width="80" height="20"></a>- NVIDIA SkillSpector pass
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.
| Model | Per session | Once invoked |
|---|---|---|
| Fable 5.1 | $0.00083 | $0.02786 |
| Opus 5 | $0.00042 | $0.01393 |
| Sonnet 5 | $0.00017 | $0.00557 |
| Haiku 4.5 | $0.00008 | $0.00279 |
Grade A, and why
protein-sequence-similarity-search scanned grade A with 0 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 11d 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.
Nothing flagged
None of the 26 patterns this scan looks for appear in this file: no shell pipes, no recursive deletes, no credential paths, no hidden text, no instruction-override or anti-refusal phrasing, no agent-config snooping. That is not a guarantee, it is the absence of the things that are checkable.
How it starts
The opening of the file, as written. The whole thing — 220 lines — stays where its author put it; the contents beside it link to each section on GitHub.
Prerequisites
uv: Read theuvskill and follow its Setup instructions to ensureuvis installed and on PATH.- User Notification: If .licenses/protein_sequence_similarity_search_LICENSE.txt does not already exist in the workspace root directory then (1) prominently notify the user to check the terms at https://www.ebi.ac.uk/jdispatcher/sss/ncbiblast and https://colabfold.com, then (2) create the file recording the notification text and timestamp.
.envfile: Make sure the.envfile exists in your home directory. Create one if it does not exist.USER_EMAIL(optional but recommended): Recommended by the EBI for BLAST job tracking, but the skill works without it. You MUST use the safe credentials protocol in thecredentialsskill to check for and request this credential if this skill looks relevant to the user's request.
Goal
Take a user-provided amino acid sequence (or a path to a .fasta file), search
for sequence homologues using the fastest available method, generate a
Markdown-formatted table of the top hits, interpret key alignment metrics,
summarize the inferred protein functions, and save results locally for future
programmatic analysis.
Core Rules
- Strict Validation: For BLAST, only use database codes listed in the table below.
- No Hallucinations: If a script throws an error or returns no hits, inform the user clearly. Do NOT invent sequence homologues.
- Do Not Parse Output Files: Do not parse the JSON, a3m, or any other raw
output files. Rely on the generated
.mdfile for your summary. The JSON and other outputs are for subsequent tool use only. - Always State the Method: Every report must clearly state whether the search used the quick MMseqs2 (ColabFold API) or the slower EBI BLAST method.
- Notification: If this skill is used, ensure this is mentioned in the output. Explicitly state that the corresponding program (MMSEQS2 or EBI BLAST) and Sequence Databases were used.
What ships with it
3 files 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.
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.
- 11d ago First seen · 220 lines · 83 tokens per session scan A 489005b99c42
protein-sequence-similarity-search is a skill published in the GitHub repository google-deepmind/science-skills (2,990 stars, last pushed 2d ago), licensed Apache-2.0. It adds 83 tokens to every session and 2,786 once invoked, about $0.0004 per session on Opus 5. A static security scan graded it A with 0 findings. No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-30.
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