rfd4-proteina-annotated-cif SKILL.md skillA
rfd4-proteina-annotated-cif 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/rfd4-proteina-annotated-cif@git:20261020.65f97c4Pins git:20261020.65f97c4 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/rfd4-proteina-annotated-cif/SKILL.md- Versions recorded
- 1
- Latest version
- git:20261020.65f97c4, committed Oct 20, 2026
- Size
- 4,685 bytes
- Repository stars
- 503
- License
- a license file GitHub does not identify
Use when creating, inspecting, editing, or validating RFD4-Proteina annotated CIF inputs and conditioning with AtomWorks.
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
# RFProteína annotated CIF authoring ## Purpose An annotated CIF is a structure plus AtomWorks `StandardAnnotation` columns that encode the RFProteína design problem. Prefer direct Python manipulation of an `AtomArrayPlus`: parse, derive selection annotations, set conditions, validate, write, and round-trip. Visually inspect chemistry and intent, especially for ligands, metals, PTMs, or PDB sources. This skill defines CIF authoring semantics. Workspace instructions and the active campaign govern shared-input ownership, output locations, length materialization, generation, and database accounting. Authoring a CIF does not by itself authorize a generation run or establish a campaign ledger policy. ## Prerequisites An RFD4-Proteina environment with AtomWorks, NumPy, Biotite, and Python Fire; access to the matching input manual and source structures. Use the user-selected model checkout at `RFPROTEINA_ROOT` for model commands, configs, and upstream manuals. This catalog contains the skills, not that checkout. In helper examples, resolve `open-models-skills/rfd4-proteina/<name>/...` to its absolute installed path when the catalog and model checkout are separate. ## Inputs …
Read the whole file at its exact version.
How to install
mdr add nvidia-bionemo/bionemo-agent-toolkit/rfd4-proteina-annotated-cif@sha256:17d14ac982eda684The line at the top of this page pins the label git:20261020.65f97c4, 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_n34nh3iuyjoi4zzk)
3 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 1 version of this file, committed on Oct 20, 2026.
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 (4685 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_n34nh3iuyjoi4zzk GET https://markdownregistry.com/api/v1/resolve?ref=nvidia-bionemo/bionemo-agent-toolkit/rfd4-proteina-annotated-cif GET https://markdownregistry.com/api/v1/blob/17d14ac982eda684b8cabf2d2be7b49412f822c0ed7672fba024442dcd6b9c80
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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