FlatProt

FlatProt enables standardized 2D visualization of individual protein structures or large sets thereof to complement 3D viewers and facilitate comparative inspection.

Key Features:

• Alignment-based Standardization: FlatProt utilizes Foldseek-based family rotation alignment or an inertia-based fallback to create consistent visual representations of user-defined protein structures.
• Domain-aware Decomposition: FlatProt supports decomposition of protein structures into domains for visualization.
• Family-level Overlays: FlatProt enables overlay visualization of protein families for comparative analysis.
• Lightweight Visual Abstraction: FlatProt provides visual abstraction of secondary structures for scalable representation.
• Scalable Processing: FlatProt processes proteins efficiently, as demonstrated on a subset of the human proteome.

Scientific Applications:

• Large-scale Structure Pre-filtering: FlatProt supports pipelined inspection of large protein sets for rapid comparative analysis.
• Conserved Feature Exploration: FlatProt enables users to explore conserved features across protein structures.
• Outlier Detection: FlatProt facilitates detection of outlier structures in large datasets.
• Structure Prioritization: FlatProt helps prioritize structures for further analysis after initial visual screening.

Methodology:

FlatProt performs 2D visualization of protein structures using Foldseek-based family rotation alignment or inertia-based alignment as a fallback, with support for domain-aware decomposition.