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Lichtarge Computational Biology Lab

Houston, Texas

Lichtarge Computational Biology Lab
Lichtarge Computational Biology Lab
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FAQ

  1. How do I obtain an Evolutionary Trace analysis of a protein sequence that may not have a crystal (PDB) structure?
  2. I want to start an Evolutionary Trace analysis using my own multiple sequence alignment. Should the query sequence (the sequence onto which the ET ranks are to be mapped to) be included in the alignment?

  1. How do I obtain an Evolutionary Trace analysis of a protein sequence that may not have a crystal (PDB) structure?

    If you know the UniProt ID or SwissProt accession number of your sequence, you may enter that ID into the ET Report Maker to get a human-readable document in PDF format, supplemented by the original data needed to reproduce the results quoted in the report

    Alternatively, given the UniProt ID or FASTA sequence, an Evolutionary Trace analysis request may be submitted through the web service: http://mammoth.bcm.tmc.edu/uet (Beta). The user will have the option whether to provide their own multiple sequence alignment and modify trace parameters through the service, or simply accept the default settings.

  2. I want to start an Evolutionary Trace analysis using my own multiple sequence alignment. Should the query sequence (the sequence onto which the ET ranks are to be mapped to) be included in the alignment?

    The query sequence must be included in the multiple sequence alignment. For example, if you provide a PDB structure, the sequence in the structure must match one of the sequences in the alignment. The name of the query sequence can be specified in the Advanced Options section, near the upload box for the multiple sequence alignment file.