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Home
Structome-tm: Complementing Dataset Assembly For Structural Phylogenetics By Addressing Size-based Biases.

Home
Structome-tm: Complementing Dataset Assembly For Structural Phylogenetics By Addressing Size-based Biases.

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A Concoction Pipeline for Generating Molecular Operational Taxonomic Units (MOTUs) Among Riparian and Aquatic Beetles

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Published on: July 11, 2025

Structome-TM: complementing dataset assembly for structural phylogenetics by addressing size-based biases.

Ashar J Malik^1,2,3, David B Ascher^1,2,3

¹School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, QLD, 4072, Australia.

Bioinformatics Advances

|June 9, 2026

View abstract on PubMed

Summary

This summary is machine-generated.

Structome-TM aids in uncovering evolutionary relationships by identifying homologous proteins missed by global alignment. This web resource uses local structural similarity to build comprehensive protein structural neighborhoods for phylogenetic analysis.

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Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin

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Published on: August 14, 2018

Area of Science:

Structural bioinformatics
Computational biology
Evolutionary biology

Background:

Effective comparison of protein structures is crucial for understanding evolutionary relationships.
Global alignment methods struggle with homologous proteins of varying sizes or domain architectures.

Purpose of the Study:

Introduce Structome-TM, a web resource for assembling datasets for phylogenetic reconstruction.
Address limitations of global alignment in identifying distant evolutionary relationships.

Main Methods:

Utilizes Template Modelling score for prioritizing local structural similarity.
Accepts Protein Data Bank identifiers, user-uploaded structures, and protein sequences as input.
Predicts protein structures in real-time for sequence-based queries.

Main Results:

Excels at identifying obscured homologous relationships based on local structural similarity.
Enables the construction of comprehensive protein structural neighborhoods.
Facilitates phylogenetic analysis even when experimentally determined structures are unavailable.

Conclusions:

Structome-TM offers a powerful approach for exploring protein evolution.
The resource enhances the discovery of deep evolutionary connections through structural comparisons.
Provides a user-friendly interface for assembling phylogenetic datasets.