PPIIMoL is a Python module for PyMOL that automates the detection of polyproline II (PPII) helices in proteins. It identifies PPII-like φ/ψ angle patterns, screens for plausible non-canonical Cα–H···O=C contacts, and provides one-click visualization and export.
This tool was developed as part of a Bachelor's Thesis in Computer Engineering in collaboration with the Protein Structure, Dynamics and Interactions by NMR Group at the Instituto de Química-Física “Blas Cabrera” (IQF-CSIC). The module’s design and validation take as a primary reference the data and architectonic principles reported by Segura Rodríguez & Laurents (2024) (see How to cite).
Scientific background
Polyproline II (PPII) helices are extended, left-handed motifs (≈3 residues/turn) typically enriched in glycine- and proline-rich domains. Although common in several glycine-rich bundles, ..→
