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.

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>

Author

• Conny Yu – GitHub Profile
  Haku series 1.2 June 2025