openfold3-nim SKILL.md skillA
This file is byte-identical to the first copy the registry indexed, one of 3 indexed copies. Same content hash, so the same checks give both the same grade.
openfold3-nim from nvidia-bionemo/bionemo-agent-toolkit is an agent skill: a SKILL.md folder an AI agent loads when a task calls for it.
mdr add nvidia-bionemo/bionemo-agent-toolkit/openfold3-nim@git:20260930.243b1edPins git:20260930.243b1ed in mdr.lock. Pin the fingerprint instead.
- Audit grade
- A, 17 of 17 checks passed
- Kind
- SKILL.md skill
- Repository
- nvidia-bionemo/bionemo-agent-toolkit
- Path
skills/bionemo-agent-toolkit/skills/openfold3-nim/SKILL.md- Versions recorded
- 3
- Latest version
- git:20260930.243b1ed, committed Sep 30, 2026
- First version recorded
- Aug 25, 2026
- Size
- 7,585 bytes
- Repository stars
- 503
- License
- a license file GitHub does not identify
Use this skill for OpenFold3, NVIDIA's BioNeMo NIM microservice for biomolecular structure prediction. Invoke whenever the user mentions OpenFold3 or needs protein, protein-ligand, protein-DNA/RNA, or multi-chain complex prediction with the hosted NVIDIA API or local Docker NIM. Covers endpoint choice, auth, request payloads, output artifacts, confidence scores, and local container setup.
Collected from public GitHub. Every version is saved exactly as it was and never changes. Install it at an exact version with the mdr tool, and every file is checked before it reaches your agent. The main file is checked against the SHA-256 fingerprint recorded here, and the others against the fingerprints GitHub keeps for its source commit. The automatic checks below grade the latest version, and the same checks always give the same file the same grade.
What the file says
# OpenFold3 NIM Predict biomolecular structures with OpenFold3. It supports proteins, DNA, RNA, small-molecule ligands, and multi-entity assemblies. Use this guide for basic hosted and local NIM use; load supplemental files only when the task needs deeper context: - `references/api.md`: exact endpoints, schemas, Docker flags, response fields. - `references/science.md`: purpose, strengths, limitations, and model handoffs. - `references/parameters.md`: molecule fields, MSAs, templates, samples, tuning. - `references/validation.md`: artifact checks and scientific sanity checks. - `references/examples.md`: compact hosted and local request patterns. ## Choose Mode Ask only when context is unclear: > Hosted NVIDIA API or local Docker NIM? - Hosted URL: `https://health.api.nvidia.com/v1/biology/openfold/openfold3/predict` - Local URL: `http://localhost:8000/biology/openfold/openfold3/predict` - Local readiness: `http://localhost:8000/v1/health/ready` Mode difference: the local prediction path has no `/v1/` prefix. Hosted requests use `Authorization: Bearer $NGC_API_KEY`. Supported local Docker startup uses `NGC_API_KEY` (or `NVIDIA_API_KEY` via the preflight) for …
Read the whole file at its exact version.
How to install
mdr add nvidia-bionemo/bionemo-agent-toolkit/openfold3-nim@sha256:a40a840c8542331eThe line at the top of this page pins the label git:20260930.243b1ed, which is what most people want. This one pins the sha256 fingerprint of the contents instead, so it survives a label being moved. Either way the exact version is written to mdr.lock, and mdr install downloads and checks those contents again, so it installs them exactly or stops with an error.
[](https://markdownregistry.com/a/art_ewp3pqzru24uj3ah)
3 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 3 versions of this file, between Aug 25, 2026 and Sep 30, 2026, about one every 18 days.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20260930.243b1ed latest | 2026-09-30 | 243b1ed | 7,585 B | A | view · diff |
| git:20260930.11b5ace | 2026-09-30 | 11b5ace | 7,242 B | A | view · diff |
| git:20260825.0e67a61 | 2026-08-25 | 0e67a61 | 7,247 B | A | view |
Audit of the latest version
- pass: Frontmatter block present
- pass: Frontmatter declares a name
- pass: Frontmatter declares a description
- pass: Size between 200 bytes and 200 KB (7585 bytes)
- pass: No zero-width or bidi control characters
- pass: No instruction hidden inside an HTML comment
- pass: No link to an exfiltration or paste host
- pass: No credential-shaped string
- pass: No instruction to send local credentials anywhere
- pass: No text hidden with inline styles
- pass: No prompt-injection phrasing
- pass: No curl or wget piped into a shell
- pass: No recursive delete of root, home or parent
- pass: No instruction to read or print local credentials
- pass: No base64 blob over 200 characters
- pass: No link to a raw IP address
- pass: No script tag
Source
nvidia-bionemo/bionemo-agent-toolkit · 503 stars · license a license file GitHub does not identify · pushed 2026-11-05 · branch main
API
GET https://markdownregistry.com/api/v1/artifacts/art_ewp3pqzru24uj3ah GET https://markdownregistry.com/api/v1/resolve?ref=nvidia-bionemo/bionemo-agent-toolkit/openfold3-nim GET https://markdownregistry.com/api/v1/blob/a40a840c8542331ed3e9e08d9390bf9b88e6f9d3c46426cc2d07be67a899c2a6
Your AI assistant does the legwork. You hear about the deals worth your word. Hand yours the standing instructions at modelranch.com and it joins the network that reads files like this one.
Guides: the SKILL.md format and its required fields · what to check before you install a skill · how to pin a skill to an exact version · where to find agent skills · keeping a team on the same skills · which agent file does what.
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