openfold2-nim

openfold2-nim is a skill for Claude Code from NVIDIA-BioNeMo/bionemo-agent-toolkit. It costs 75 tokens per session (1,819 once invoked), scanned A, original, no licence file.

A tool for predicting the three-dimensional structure of a single protein from its amino-acid sequence using NVIDIA's OpenFold2 service. It can use sequence alignments and structure templates as supporting information.

In plain words
What is it for?
Use it for AlphaFold2-like monomer folding, including preparing A3M multiple-sequence alignments and mmCIF structure templates.
Why use it?
It provides a ready-to-use way to turn a protein sequence into a predicted structure without setting up the full folding system yourself. NVIDIA's hosted service or a local Docker deployment can be used.

Skill for Claude Code

Written for Claude Code: allowed-tools in frontmatter.

Good fit Use it for AlphaFold2-like monomer folding, including preparing A3M multiple-sequence alignments and mmCIF structure templates.

Compare 6 skills from other repositories ↓
Install with agentmods
npx agentmods add skills/nvidia-bionemo/bionemo-agent-toolkit/openfold2-nim
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 NVIDIA-BioNeMo/bionemo-agent-toolkit --skill openfold2-nim
Clone the repo
git clone --depth 1 https://github.com/NVIDIA-BioNeMo/bionemo-agent-toolkit

Made for: Claude Code.

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 openfold2-nim

README.md
[![agentmods](https://agentmods.dev/badge/skills/nvidia-bionemo/bionemo-agent-toolkit/openfold2-nim.svg)](https://agentmods.dev/skills/nvidia-bionemo/bionemo-agent-toolkit/openfold2-nim)
Your own site
<a href="https://agentmods.dev/skills/nvidia-bionemo/bionemo-agent-toolkit/openfold2-nim"><img src="https://agentmods.dev/badge/skills/nvidia-bionemo/bionemo-agent-toolkit/openfold2-nim.svg" alt="Measured on agentmods" height="20"></a>
Per session 75 Skills are progressive disclosure: only the name and description are preloaded; the body loads when the skill is used.
When invoked 1,819 The whole file, excluding the scripts and references it only reads on demand.
Security scan A 1 finding. 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 $0.00075 $0.01819
Opus 5 $0.00037 $0.00910
Sonnet 5 $0.00015 $0.00364
Haiku 4.5 $0.00007 $0.00182

Measured 8d ago against content hash 3b0094a0e32a, method: parsed. Prices are Anthropic first-party input rates as of 2026-09-07, from the pricing page.

Security

Grade A, and why

openfold2-nim scanned grade A with 1 finding 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 8d 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.

until curl -sf http://localhost:8000/v1/health/ready; do sleep 5; done
nim-skills/openfold2-nim/SKILL.md · 178 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

9 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.

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. 8d ago First seen · 178 lines · 75 tokens per session scan A 3b0094a0e32a

Subscribe to this mod's changes

openfold2-nim is a skill published in the GitHub repository NVIDIA-BioNeMo/bionemo-agent-toolkit (447 stars, last pushed 2d ago), with no licence file. It adds 75 tokens to every session and 1,819 once invoked, about $0.0004 per session on Opus 5. A static security scan graded it A with 1 finding (makes network calls). No closer match exists in the catalogue, so it is treated as the original; first seen 2026-08-30.

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