complexa-binder-design SKILL.md skillA
This file is byte-identical to the first copy the registry indexed. Same content hash, so the same checks give both the same grade.
complexa-binder-design 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/complexa-binder-design@git:20260818.e853a38Pins git:20260818.e853a38 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
workflows/generative-protein-binder-design/complexa-binder-design/SKILL.md- Versions recorded
- 2
- Latest version
- git:20260818.e853a38, committed Aug 18, 2026
- First version recorded
- Aug 12, 2026
- Size
- 13,018 bytes
- Repository stars
- 503
- License
- a license file GitHub does not identify
Run a complete protein binder design campaign with NVIDIA Proteina-Complexa: resolve a target structure and hotspots from a name/sequence/PDB, co-design binder sequence+structure with reward-guided test-time search (best-of-n, beam search, FK steering, MCTS), select with the internal AF2 reward gate, then INDEPENDENTLY validate each binder by refolding the complex with Boltz2 (default) or OpenFold3 and rank on interface confidence, pLDDT, ipSAE, apo/holo stability, and hotspot contact. Use…
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
# Complexa Binder Design (workflow) From one request — "design binders for `<target>`" — to ranked, **independently validated** binders. Each returned binder is a **co-designed sequence + predicted binder–target complex**, gated by interface confidence, by whether the binder actually contacts the target hotspots, and by **apo/holo stability**. Generation uses **Proteina-Complexa** (co-designs binder sequence + full-atom structure together — no inverse-folding step — with reward-guided test-time search). Validation uses a **different** model family (Boltz2 / OpenFold3), so the headline confidence is an independent check, not the generator grading its own homework. > **Upstream model + code (you provide these):** > - Project page: <https://research.nvidia.com/labs/genair/proteina-complexa/> > - Code: <https://github.com/NVIDIA-Digital-Bio/Proteina-Complexa> (the `complexa` CLI) > - Weights (NGC): `nvidia/clara/proteina_complexa` > - Paper: Didi et al., *Scaling Atomistic Protein Binder Design…*, ICLR 2026. > **First time on a host? → `references/setup.md`** — full standalone setup with **no > NIM**: install Proteina-Complexa + download weights, Python deps (`numpy biotite …
Read the whole file at its exact version.
How to install
mdr add nvidia-bionemo/bionemo-agent-toolkit/complexa-binder-design@sha256:f6d69283fe6287c4The line at the top of this page pins the label git:20260818.e853a38, 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_thfkhzq7o5wlhie6)
3 badge image fetches in 30 days. What the badge shows.
Versions
The registry has recorded 2 versions of this file, between Aug 12, 2026 and Aug 18, 2026, about one every 6 days.
| version | committed | commit | size | audit | |
|---|---|---|---|---|---|
| git:20260818.e853a38 latest | 2026-08-18 | e853a38 | 13,018 B | A | view · diff |
| git:20260812.47315cc | 2026-08-12 | 47315cc | 13,014 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 (13018 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_thfkhzq7o5wlhie6 GET https://markdownregistry.com/api/v1/resolve?ref=nvidia-bionemo/bionemo-agent-toolkit/complexa-binder-design GET https://markdownregistry.com/api/v1/blob/f6d69283fe6287c469c450983242f316f7baf315dc70bf9956ba57e4505c04a0
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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