Tutorial: Search

A ~5 minute introduction to Genome3D's search abilities.

Searching by UniProt accession or keyword

Visit the Genome3D home page ( www.genome3d.eu), enter a UniProt accession (eg P00520) into the central search box and hit Go. This will take you to a list of UniProt entries relating to the search term. The Structural Predictions column shows the number of annotations Genome3D resources have predicted for each sequence. Since we specified the UniProt accession, there's only one result. Click on that result's link (ABL1_MOUSE) to see the Genome3D annotations for that UniProt entry. To see the overview of the UniProt entry, click on the Overview tab near the top of the page.

Search for keywords in the same way: go to the Genome3D home page ( www.genome3d.eu), enter a keyword (eg myoglobin) into the central search box, hit Go and then click on your chosen result.

Filtering by species

For searches that return a lot of results, it may be helpful to filter them down by species. For example, if you search for actin on the Genome3D home page ( www.genome3d.eu), you'll find that this returns a lot of results (~260). Now, click on the human link on the left of the page (under Filter results by species) to restrict the results to human genes (~50).

Searching by sequence

You can also search Genome3D by sequence. Visit the Genome3D home page ( www.genome3d.eu), and click SEQUENCE SEARCH on the left side of the search box. Now enter a sequence such as the one below (or click Sequence 1 below the sequence box to automatically populate it with this example sequence) and hit Go.


This performs a fast JackHMMER ( '"Accelerated profile HMM searches"', S. R. Eddy., PLoS Comp. Biol., 7:e1002195, 2011) search of the query sequence against the library of sequences that have been annotated by Genome3D. The results page is the same format as for accession/keyword searches (see above) but with an extra E-value column that's used to order the results so the most significant hits come first.