proteinmpnn-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.
proteinmpnn-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/proteinmpnn-nim@git:20260930.bde73eePins git:20260930.bde73ee 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
nim-skills/proteinmpnn-nim/SKILL.md- Versions recorded
- 5
- Latest version
- git:20260930.bde73ee, committed Sep 30, 2026
- First version recorded
- Aug 12, 2026
- Size
- 7,992 bytes
- Repository stars
- 503
- License
- a license file GitHub does not identify
Run ProteinMPNN inverse folding via NVIDIA NIM to design protein sequences for a target backbone. Sends user-provided PDB files and design parameters to NVIDIA's hosted API, authenticated with an environment API key, or to a user-selected local NIM. Use for sequence design, backbone redesign, fixed chains and residues, omit_AAs, sampling temperature, soluble model, local Docker, and multi-FASTA output.
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
# ProteinMPNN NIM <!-- nv-carps: dummy edit to trigger NIM skill validation. --> Design protein sequences for a supplied backbone PDB. Use this guide for first-pass hosted/local usage; load supplemental files only when needed: - `references/api.md`: exact endpoints, schemas, Docker flags, response fields. - `references/science.md`: inverse-folding uses, limits, and validation. - `references/parameters.md`: design controls, fixed positions, sampling. - `references/validation.md`: FASTA, score, and structure checks. - `references/examples.md`: compact hosted/local request patterns. ## Choose Mode Honor the user's explicit mode; otherwise use the configured runtime. `NIM_API_MODE=local` selects the local service at `PROTEINMPNN_NIM_URL`; the URL defaults to `http://localhost:8000` for a NIM running in the same host or container. Ask only when neither the environment nor the user's request makes the mode clear: > Hosted NVIDIA API or local Docker NIM? - Hosted: `https://health.api.nvidia.com/v1/biology/ipd/proteinmpnn/predict` - Local: append `/biology/ipd/proteinmpnn/predict` to `PROTEINMPNN_NIM_URL` (default base URL: `http://localhost:8000`). …
Read the whole file at its exact version.
How to install
mdr add nvidia-bionemo/bionemo-agent-toolkit/proteinmpnn-nim@sha256:1729e862f5cee9b7The line at the top of this page pins the label git:20260930.bde73ee, 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_idiqvh2yiswyw5kf)
3 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 5 versions of this file, between Aug 12, 2026 and Sep 30, 2026, about one every 12 days.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20260930.bde73ee latest | 2026-09-30 | bde73ee | 7,992 B | A | view · diff |
| git:20260930.543a22c | 2026-09-30 | 543a22c | 6,641 B | A | view · diff |
| git:20260930.cac3adf | 2026-09-30 | cac3adf | 4,888 B | A | view · diff |
| git:20260817.ca3f3d0 | 2026-08-17 | ca3f3d0 | 4,795 B | A | view · diff |
| git:20260812.47315cc | 2026-08-12 | 47315cc | 4,163 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 (7992 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_idiqvh2yiswyw5kf GET https://markdownregistry.com/api/v1/resolve?ref=nvidia-bionemo/bionemo-agent-toolkit/proteinmpnn-nim GET https://markdownregistry.com/api/v1/blob/1729e862f5cee9b7084160e0b3da9ddd38f5263532a5dd165cd2f342a669e5a5
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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