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BindCraft Binder Design

Run end-to-end protein binder design with BindCraft hallucination and built-in AF2 validation.

Data & AnalyticsAdvanced★ 159⑂ 28AI score 8/10Last updated: Jul 1, 2026

What it does

Given a target structure (PDB) and hotspot residues, this skill walks Claude through running BindCraft to jointly optimize backbone and sequence and produce binder candidates. It includes Modal cloud and local install commands, a parameter table (binder length, design count, fast/default/slow protocols), the output directory layout and metrics.json fields, pLDDT/ipTM pass thresholds, expected runtime and Modal cost per campaign size, plus a troubleshooting table for CUDA OOM, missing hotspots and timeouts.

Who it's for

  • Protein engineers actually running binder design campaigns
  • Teams deciding between BindCraft, RFdiffusion, BoltzGen or ColabDesign
  • Cloud-GPU users who need time and cost estimates before launching

Examples

  • "Design 50 binders of 70-100 aa against chain A of target.pdb with hotspots A45,A67,A89 on Modal"
  • "Filter summary.csv for designs with ipTM > 0.5 and report the pass rate"
  • "I hit CUDA out of memory — which parameters should I lower?"

· · · Install guide · · ·

Try it now, no install

Paste this into Claude to use the skill without installing anything.

Read the instructions in this file and follow them to help me:
https://raw.githubusercontent.com/BioTender-max/awesome-bio-agent-skills/HEAD/skills/adaptyv/bindcraft/SKILL.md

What I want: (describe your task here)

If Claude can't open the link, open it yourself and paste the contents instead.

↓ If it works for you, download the ZIP below and install it. Then it runs on its own — no pasting each time.

Install in the Claude app (no terminal)
  1. Download the ZIP with the button below.
  2. In Claude, open Settings → Capabilities and turn on 'Code execution and file creation'. (one time)
  3. Go to Customize → Skills → + → 'Upload a skill' and upload the ZIP.
↓ Download ZIP
Install in Claude Code

Let Claude do it — paste this into Claude Code

Install the skill I found on Claude Skill Mart.
Copy the skills/adaptyv/bindcraft folder from the GitHub repo BioTender-max/awesome-bio-agent-skills into my ~/.claude/skills/bindcraft/.
When it's done, tell me in one line what this skill can do.

Install with a command instead

git clone https://github.com/BioTender-max/awesome-bio-agent-skills.git && mkdir -p ~/.claude/skills && cp -r awesome-bio-agent-skills/skills/adaptyv/bindcraft ~/.claude/skills/

⚠ This is a third-party skill. Check the source repository before installing.

  1. In a terminal, run git clone https://github.com/BioTender-max/awesome-bio-agent-skills.git.
  2. Create the skills folder: mkdir -p ~/.claude/skills.
  3. Copy just this skill: cp -r awesome-bio-agent-skills/skills/adaptyv/bindcraft ~/.claude/skills/.
  4. Restart Claude Code and ask something like "use the bindcraft skill to design a binder" to confirm it loads.
  5. For real runs you need either a Modal account plus the biomodals repo (modal_bindcraft.py), or a local BindCraft install with a 32GB+ VRAM GPU and CUDA 11.7+.
  6. If using Modal: pip install modal, then modal setup to authenticate and add billing/credits before launching a campaign.
View source on GitHub ↗License: NOASSERTION