Alex A. Cardenas Week 8: Difference between revisions

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*Retreiving protein sequences for envelope glycoprotein gp160 (pp. 42-51)
*Retreiving protein sequences for envelope glycoprotein gp160 (pp. 42-51)
*Went to www.expasy.org/sprot/.
*Went to www.expasy.org/sprot/.
*Envelope glycoprotein gp160 was typed into search box and retreived. The description of glycoprotein gp160 can be found [[http://www.uniprot.org/uniprot/P05879 here]].
*Envelope glycoprotein gp160 was typed into search box and retreived. The description of envelope glycoprotein gp160 can be found [[http://www.uniprot.org/uniprot/P05879 here]].
**Entry Name - ENV_HV1C4
**Entry Name - ENV_HV1C4
**Primary Accession Number - P05879
**Primary Accession Number - P05879
*FASTA format was viewed (FATSA - a sequence alignment-and-database-scanning program). New window appeared with all amino acids in the protein sequence.
*FASTA format was viewed (FATSA - a sequence alignment-and-database-scanning program). New window appeared with all amino acids in the protein sequence.
[[image:Picture_3.png]]  
[[image:Picture_3.png]]  
*Related protein sequences retrieved by advanced search methods.
*Protein sequences retrieved by advanced search methods. Clicked on advance search tab and typed in envelope glycoprotein gp160.


==Chapter 4==
==Chapter 4==

Revision as of 16:42, 19 October 2011

Chapter 2

  • Retreiving protein sequences for envelope glycoprotein gp160 (pp. 42-51)
  • Went to www.expasy.org/sprot/.
  • Envelope glycoprotein gp160 was typed into search box and retreived. The description of envelope glycoprotein gp160 can be found [here].
    • Entry Name - ENV_HV1C4
    • Primary Accession Number - P05879
  • FASTA format was viewed (FATSA - a sequence alignment-and-database-scanning program). New window appeared with all amino acids in the protein sequence.

  • Protein sequences retrieved by advanced search methods. Clicked on advance search tab and typed in envelope glycoprotein gp160.

Chapter 4

  • Reading a SWISS-PROT entry (pp. 110-123). The link can be found [here].
  • Went through steps in deciphering the envelope glycoprotein gp160 swiss-prot entry. Information on entry name, primary accession number, protein name, gene name, etc., can be found in the link above.
  • 8 References were found in the article.
  • The Cross references - not all cross references were displayed online as they were in the book.

Chapter 5

  • ORFing DNA sequence. Retrieved sequence from clicking on FASTA in UniProtKB and posted it in open reading frame finder. DNA sequence is displayd as 6 parallel horizontal. There are 6 possible translation frames: +1, +2, +3 on on reverse --> -1, -2, -3.
  • ORF displayed the following

Links

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