esmfold2

esmfold2 is a Bioinformatics & life sciences skill for AI agents, published by PKU-YuanGroup in the OpenAI4S repository on GitHub. Skillspace rates esmfold2 F (45/100) and the safety scan rated it risky; the rating is based on static analysis only.

Biohub ESMFold2 / ESMFold2-Fast all-atom co-folding (Candido et al. 2026, github.com/Biohub/esm). Single-sequence and MSA modes; protein, DNA, RNA, ligand (CCD/SMILES), modified residues. FoldBench Ab-Ag 50-55%, PPI 70-77% DockQ-pass. Also covers the ESMC-{300M,600M,6B} protein language models from the same release: masked-LM logits, hidden states, mutation scoring, contact prediction, and the SAE interpretability head. MIT-licensed weights on HuggingFace org `biohub`. Use this skill when: (1) Predicting complex structures with single-sequence input, (2) Validating designed binders with ESMFold2-Fast, (3) Running ESMFold2 with MSA input, (4) Getting ESMC embeddings or per-residue mutation scores, (5) Choosing kernel backend and sampling-step settings for paper-faithful throughput.

Grade
F
Quality
45 / 100
Safety
Risky
GitHub stars
111

Unproven: rated by static analysis only, not yet compared head-to-head.

This rating describes the version of the repository we crawled; it may have changed since.

View source on GitHubPKU-YuanGroup/OpenAI4S

Our review

Architecture
84 / 100
Maturity
Packaged: licensed, with a version or references
Security scan
High-risk patterns
License
MIT
Adoption
Adopted by 0 other repositories, in 0 collections

What the scanner flagged

  • dynamic code execution (eval/exec)
  • mentions secrets in text

Not checked yet

  • Category is a classifier prediction; no model has read this skill yet
  • Not judged on the rubric yet (not a contender in its category)
  • No blind task eval yet
  • Scope (portable / vendor / repo-internal) not assessed; only the top of each category is read for scope
  • Sibling files (scripts, references) not fetched; security scan covers SKILL.md only

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