Welcome to Structome-TM

Structome-TM is a web server designed to enhance the rapid assembly of protein structure datasets and their subsequent analysis by leveraging the TM-score metric as implemented in Foldseek. This approach helps detect meaningful alignments that might be underestimated by methods emphasizing global structural similarity. Structome-TM's user-friendly interface supports efficient exploration of structural neighborhoods, interactive comparison of protein structures, and the construction of neighbor-joining trees using "1 - TM-score" as the distance metric. By complementing Structome-Q (previously Structome published here), Structome-TM provides an alternative methodology for assembling datasets and uncovering deep evolutionary relationships.

Figure: Protein structure alignment between hemoglobin from Anser indicus (RCSB PDB accession 1a4f, chain A, shown in green) and flavohemoglobin from Saccharomyces cerevisiae (RCSB PDB accession 4g1b, chain A, shown in yellow). The Q-score for this alignment is 0.213, whereas the TM-score is 0.803, highlighting how TM-score can identify significant local similarity despite differences in overall size.