Agent Skills › companion-inc/feynman › proteinmpnn

proteinmpnn

GitHub

用于基于固定骨架结构进行蛋白质序列设计，支持突变建议、固定残基及设计筛选。流程涵盖输入记录、执行验证、结果保存与多约束过滤，最终提供需实验验证的设计候选方案。

skills/proteinmpnn/SKILL.md companion-inc/feynman

Trigger Scenarios

需要基于固定骨架设计蛋白质序列生成蛋白质突变建议指定固定残基进行序列设计对蛋白质设计结果进行过滤和评估

Install

npx skills add companion-inc/feynman --skill proteinmpnn -g -y

More Options

Use without installing

npx skills use companion-inc/feynman@proteinmpnn

指定 Agent (Claude Code)

npx skills add companion-inc/feynman --skill proteinmpnn -a claude-code -g -y

安装 repo 全部 skill

npx skills add companion-inc/feynman --all -g -y

预览 repo 内 skill

npx skills add companion-inc/feynman --list

SKILL.md

Frontmatter

{
    "name": "proteinmpnn",
    "description": "Design protein sequences from fixed backbone structures with ProteinMPNN-style workflows. Use when a task asks for backbone-conditioned sequence design, mutation suggestions, fixed residues, or design filtering."
}

ProteinMPNN

Use this skill for fixed-backbone protein sequence design.

Workflow:

Record input structure, chain ids, designed positions, fixed residues, tied positions, symmetry, and design objective.
Verify the local or remote execution route before running.
Save PDB/mmCIF inputs, design masks, command, seeds, model version, FASTA outputs, and score tables.
Filter designs by constraints, diversity, motifs, structure prediction, conservation, and assay-ready feasibility.
Attach provenance and a verification plan before recommending candidates.

Treat generated sequences as candidates that require structural and experimental validation.