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Visualise transmembrane annotation on a protein structure.

This repository contains a Streamlit app that annotates transmembrane topology on protein structures using DeepTMHMM predictions and UniProt annotations.

Open in Streamlit

Features

  • Retrieves transmembrane topology annotations from a UniProt entry.
  • Map UniProt annotation onto a protein structure using updated mmCIF files from PDBe..
  • Run a DeepTMHMM prediction and map the predicted topology onto the structure.
  • Independent Python script to run as a PyMOL plugin.

Input

  • UniProt accession
  • PDB code

Prerequisites

  • Python 3.x
  • Python libraries: streamlit, py3Dmol, pybiolib, requests, matplotlib.

PyMOL plugin

In PyMOL 3.0, Plugin -> Plugin Manager -> Install from PyMOLWiki or any URL:
https://github.com/connyyu/TM_annotations/blob/main/scripts/colortm.py

Usage: colortm <object_name>, <uniprot_accession>

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