This page displays how related proteins across the nine human herpesviruses are. Clustering was performed with Foldseek and HHblits. Use the options below to explore interactions from different data sources.
Click and drag to move around the stage, use the mouse wheel to zoom, and click nodes to open a link and inspect the AlphaFold prediction results.
HSV-1 HSV-2 VZV HCMV HHV-6A HHV-6B HHV-7 EBV KSHV
The size (weight) of the connections encodes how significant the structural similarity is. A thicker connection indicates a more significant structural similarity than a thinner one. Thickness has been calculated as −log10(E), where E is the expectation-value output. Foldseek estimates the E-value with the help of a neural network. The alignment type used in Foldseek was 3Di+AA Gotoh-Smith-Waterman.
Foldseek is developed by the Steinegger lab:
van Kempen M, Kim S, Tumescheit C, Mirdita M, Söding J, and Steinegger M.
“Foldseek: fast and accurate protein structure search”.
bioRxiv (2022) doi: 10.1101/2022.02.07.479398
HHblits is developed by the Soding Lab:
Remmert M, Biegert A, Hauser A, Söding J.
“HHblits: lightning-fast iterative protein sequence searching by HMM-HMM alignment”.
Nat Methods (2011) doi: 10.1038/nmeth.1818
The network was created using the cytoscape.js, a Graph theory library for visualization and analysis, which was developed by Franz M, Lopes CT, Huck G, Dong Y, Sumer O, Bader GD at the University of Toronto https://js.cytoscape.org/