README.md

---
title: MyAbs
emoji: 🧬
colorFrom: indigo
colorTo: purple
sdk: docker
app_port: 7860
pinned: false
short_description: Fold an antibody, see its CDR loops, flag its liabilities.
---

# MyAbs — "My Antibodies"

Design antibodies. Watch them fold. Flag the risks. In your browser. Free.

Paste an antibody variable domain (VH and VL amino-acid sequence) and MyAbs will:

1. **Fold it** with [ABodyBuilder2](https://github.com/oxpig/ImmuneBuilder) (4-model ensemble, IMGT-numbered output).
2. **Show the 3D structure** with the six **CDR loops highlighted** (rotate/zoom/pan in the browser).
3. **Flag developability liabilities** — PTM hotspots (deamidation, isomerization, oxidation), N-glycosylation sequons, unpaired cysteines, and long CDR-H3 — each mapped to its exact **IMGT position** via [ANARCI](https://github.com/oxpig/ANARCI) and painted onto the structure.

## Honest positioning

MyAbs **predicts** in silico. It does **not** test. It hands you a spatially-reasoned
shortlist and a liability map; wet-lab validation (BLI for binding, cell assays for
function) is still required. The liability flags are **heuristic screens, not
disqualifiers**. Outputs are in-silico **candidates**, not patent-ready antibodies.

**Privacy:** pasted sequences are folded in-process and never stored. No account required.

## Included therapeutic library

A small, hand-curated set of famous therapeutics (Trastuzumab, Adalimumab,
Pembrolizumab, Rituximab, Bevacizumab), variable domains only, each cross-checked
against two independent public sources with provenance shown in the app.

## Stack

Docker Space on a miniforge base: ABodyBuilder2 (ImmuneBuilder) · ANARCI + HMMER
(IMGT numbering) · OpenMM + pdbfixer (refinement) · py3Dmol (client-side viewer) ·
Gradio (UI). Runs on free CPU — first fold is slow (cold-load of the ensemble),
subsequent folds take ~10-20 s.

## Licensing note

ImmuneBuilder / ABodyBuilder2 weights are installed at build time from PyPI. Verify
the ImmuneBuilder license terms before any commercial use. The curated therapeutic
sequences are self-assembled from public sources (PDB SEQRES, KEGG/DrugBank/GSRS),
not redistributed from any restrictively-licensed database.