Applied Bioinformatics Course

Primary structure

• Use EMBOSS Pepstat to calculate amino acid composition of Pisum sativum post-floral specific protein 1 (PPF-1, Q9FY06).
• Use EMBOSS Pepinfor to create flowcharts of Pisum sativum post-floral specific protein 1 (PPF-1, Q9FY06).
• Use ExPASy Protscale to create flowcharts to display various properties of the Pisum sativum post-floral specific protein 1 (PPF-1, Q9FY06).

Secondary structure

• Predict the secondary structure of Human hemoglobin alpha chain (P69905) and beta chain (P68871)
• Predict the secondary structure of the N-terminal domain of mouse carcinoembryonic antigen (CEAM1_MOUSE).
• Predict the potential coiled-coil region of the yeast amino acid biosynthesis general control protein (GCN4_YEAST).
  

Transmembrane helics

• Use EMBOSS TMAP and ExPASy TMHMM, TMPred, TopPred, SOUSI to predict the transmembrane helices of the Pisum sativum post-floral specific protein 1 (PPF-1, Q9FY06).
• Use EMBOSS TMAP and ExPASy TMHMM, TMPred, TopPred, SOUSI to predict the transmembrane helices of sheep ovine opsin (OPSD_SHEEP).
• Use EMBOSS TMAP and ExPASy TMHMM, TMPred, TopPred, SOUSI to predict the transmembrane helices of GCR2 protein (NP_175700).

Helical wheel

• Draw the four helical wheels for the transmembrane helices of the Pisum sativum post-floral specific protein 1 (PPF-1, Q9FY06).
• Draw the helical wheel for the last two helices of human Human hemoglobin alpha chain (P69905).