Amanda N. Wavrin Week 8

Analyzing Protein Structure

• Using Bioinformatics for Dummies

Retrieving Protein Sequences

• Used the ExPASy server to search DUTPase coli, 105 results appeared
• Then searched gp120 and decided to use envelope glycoprotein gp120 with accession number A0A897

• We then retrieved the FASTS Format of the gp120 sequence
  • • >tr|A0A897|A0A897_9HIV1 Envelope glycoprotein gp120 (Fragment) OS=Human immunodeficiency virus 1 GN=env PE=4 SV=1

NLTDNAKTIIVHLNESVEINCTRPFNNTRTSXRIGPGQVFYRTGDITGSIRRAYCEINGT KWNKVLXQVTEKLXEH

• We then conducted an advanced search, starting back at the Swiss-Prot home page

Reading a Swiss-Prot Entry

• we began at the UniprotKB/Swiss-Prot page of the expasy server
• Then searched A0A987 for our gp120 protein
• There a sectin containing the name and the origin of the protein
• There is a refrences section wtih all of the bibliographical refrences used
• There is a cross-refrences section which contains refrences to other aticles containing iformation about this specific gp120 protein
• For the gp120 protein there is no extra comments section
• There is also a key word section containing keywords, envelope proten and virion
• There is a features section containing experimental information