Welcome to the 3DM tutorial. A 3DM system is a data integration platform, we collect and integrate data about a protein superfamily.
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Here, you can simply copy your sequence (either FASTA or plain sequence) and click the SEARCH button
We have to go through a lot of data to find the right systems, thus the search might take up to 2 minutes.
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This is the system search result page for our DNA polymerase:
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This table lists all the keyword mutations together with articles in which they were found (if you want to go to the article follow the PubMed link on the right). Accession field tells you onto which protein this mutation was mapped, and the mutation score indicates how certain we are this mutation is mapped correctly. Mutations in the 'Mutation' column use numbering of the sequence onto which they were mapped, so for example if you want to look up the first mutation in the article you should be looking for residue 882 (and not 490).
We had a look at one of the first article articles (“A carboxylate triad is essential for the polymerase activity of Escherichia coli DNA polymerase I (Klenow fragment). Presence of two functional triads at the catalytic center.“) and we found this information:
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