Amino acid sequence: tlqvgdesye ifrldkvegs arlpyslkvl 1) The name of the protein

Question

Amino acid sequence: tlqvgdesye ifrldkvegs arlpyslkvl

1) The name of the protein; 2) The entire amino acid sequence of the protein; 3) The function of the protein; 4) Identify three proteins that share primary sequence homology with your protein; 5) Identify the organism that the protein is found in; Finally, you should find an Internet site that will allow you to calculate the molecular weight, pI, and estimated extinction coefficient of your protein. You should include a copy of 3 abstracts from the scientific literature that involve studies on your assigned protein.

Explanation / Answer

1. The protein is aconitate hydratase (or Aconitase).

Run a blast search with your sequence at http://blast.st-va.ncbi.nlm.nih.gov/Blast.cgi?PROGRAM=blastp&PAGE_TYPE=BlastSearch&LINK_LOC=blasthome. This program is called Protein BLAST.

Select the sequences with highest identity/match.

The results display a series of matches, the top most usually being the best match. Here, for your sequence, it is aconitate hydratase from Streptomyces sp.

2. The full sequence is:

(Click on the sequence and it will take you to the sequence information of the protein. On that page, click FASTA. It will display the full sequence).

3. Aconitase (aconitate hydratase) is an enzyme that catalyses the stereo-specific isomerization of citrate to isocitrate via cis-aconitate in the tricarboxylic acid cycle, a non-redox-active process.

4. The iron-responsive element-binding protein (IRE-BP) and 3-isopropylmalate dehydratase (?-isopropylmalate isomerase), an enzyme catalysing the second step in the biosynthesis of leucine, are known aconitase homologues. Cytoplasmic aconitase/iron regulatory protein 1 homolog in Maize (Zea mays) and Major iron-containing protein (MICP) of Legionella pneumophila can be considered other homologues.

5. Go to ExPasy Protein parameter calculation site (http://web.expasy.org/protparam/)

Enter your protein sequence from #2. The results will be displayed.

You'll get:

Molecular weight: 67259.0 Theoretical pI: 4.76

For studies and abstracts on your protein,

Go to Pubmed: (http://www.ncbi.nlm.nih.gov/pubmed/)

search for "Aconitase" (or "Streptomyces aconitase")

Look at studies that are interesting

Read the abstract, learn!

Here are a few interesting ones I found:

1. http://www.ncbi.nlm.nih.gov/pubmed/11325949

2. http://www.ncbi.nlm.nih.gov/pubmed/23320788

3. http://www.ncbi.nlm.nih.gov/pubmed/10559181

Hope this helps. Good luck!

Source:

As a PhD student, I use these databases and techniques on almost a daily basis!

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