Similarity Searching
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CD or Not CD – That is the Question

(What regions of my protein have significant similarity to conserved domains (CDs)?)

  Sample User Question
Analysis/Comments
Flow Chart
Step By Step Guide
Additional Notes 		 

Sample User Question back to top

I know that my protein (epidermal growth factor receptor – Accession Number 1007208A) has a tyrosine kinase domain. Does it have other conserved domains? Are there other proteins that also share these domains?

Analysis/Comments back to top

The CDD section of BLink adds a powerful tool to the taxonomic groupings already available. The ability to view domain relatives and proteins containing the same domains is a wonderful addition to the set of tools available to the researcher.

Flow Chart back to top

  1. Entrez Protein record of EGF receptor - 1007208A

  2. BLink record of EGF receptor - 1007208A

Step By Step Guide back to top

Entrez Protein Record

  1. Find the correct protein record in Entrez Protein
  2. Click the BLink Link
BLink Record

  1. Click on CDD Search
  2. Other conserved domains are shown
  3. Click Button that links to "Show Domain Relatives"

Additional Notes back to top

A short article about the Conserved Domain Database is available from Marchler-Bauer et al. Nucleic Acids Res 30(1):281-3, 2002.
We will cover more about CDD later in this module.

Similarity Searching/BLink User Question 2 Back to the Slide Revised 12/06/04