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CD ligandmpnn

Inverse-fold a backbone with ligand, nucleic-acid, and metal context using LigandMPNN (Dauparas et al. 2023, github.com/dauparas/LigandMPNN). Reach for this skill to redesign the residues lining a binding pocket around a bound small molecule or cofactor, to design metal-coordinating sites where the geometry must be respected, or to get threaded designed-sequence PDBs out of any MPNN run.

aipoch/open-science Agent Skills author: aipoch Apache-2.0 1 file body ≈ 1 502 tokens Open the sourcegithub.com↗ analyzed 2 d ago

Inverse-fold a backbone with ligand, nucleic-acid, and metal context using LigandMPNN (Dauparas et al.

As a process D 39/100 · Unfinished process — weak spots: steps, result and completion, inputs and preconditions

ReferenceGitHubSoftware developmenttype and topics are labelled automatically from the skill text
Runs in: Claude / Claude Code ChatGPT / Codex Gemini CLI Cursor GitHub Copilot / VS Code Qwen Code Kimi Code CLI Z.ai (GLM) DeepSeek (Deep Code) Mistral Vibe LangChain (deepagents) OpenClaw Goose OpenCode
JSON
Technical rating
C
88/100
safety, quality, tests
Safety 60%
100
Quality 40%
70
Run on models
none yet
Process rating
D
39/100
Unfinished process
Steps w 15
0
Result and completion w 14
0
Inputs and preconditions w 11
0
the three weakest of ten parameters · all ten

How to improve

  1. Say in the description WHEN to use the skill ("use when…", example requests): that is the agent's main cue.
For the model run — optional
  • Your own cases (evals/evals.json, 4–6 real requests with expected answers): the full check would then run those instead of a model-drafted suite.
  • A spec.yaml with trigger phrases and assertions — a behaviour contract for CI; `skilltest init` writes a template.

Guard findings · 0

✓ No critical or high findings

Files scanned: 1. Evidence is masked. Grey chips explain why severity was lowered.

Against the Agent Skills spec

  • warning description-no-when description does not say WHEN to use the skill (no "use when")

Process rating: all ten parameters 39/100

  • 0Steps. Prose only: no discrete steps
  • 0Result and completion. Does not say what the result is
  • 0Inputs and preconditions. Does not say what the process needs to start
  • 0Progress reporting. Says nothing while it works
  • 30Running it twice. 2 mutating operations with no state check
  • 50Failures and branches. 0 branches, has a failure section
  • 60Tools and files. Uses tools (bash, web, python) that frontmatter does not declare
  • 70When it triggers. States when to use, but not when not to
  • 100Consistency. Name and required fields are in place
  • 100Execution cost. Instruction body is 1502 tokens
  • low The response is described with custom markup (3 tags): a typed call is more reliable

Everything here is measured from the skill text rather than judged by a model, so the numbers are checkable. A parameter weighs more when it is a more common reason for the process to stall.

Quality signals

  • +5Description has no quoted example phrases that should trigger the skill
  • +4Description does not say when NOT to use the skill (false activations)
  • +3No numbered steps or checklist
  • +3Output format is not stated: the model decides each time
  • +2Single-language instructions
  • +3Description length 390: enough signal without eating the budget
  • +4Structure: 7 headings
  • +4Has examples (1 code blocks)
  • +1License stated

Quality base 70; lint remarks subtract, signals add up to 100. Result: 70.