Jordan T. Detamore Week 8

HIV Journal Club

oligomeric-a polymer consisting of fewer than 20 monomers
- http://medical-dictionary.thefreedictionary.com/oligomer
glycosylate-the formation of linkages with glycosyl groups.
- http://medical-dictionary.thefreedictionary.com/Glycosylated
ectodomain-extracellular domain on membrane-anchored proteins
- https://www.ncbi.nlm.nih.gov/pubmed/20503387
immunoglobulins-any of several classes of structurally related proteins that function as antibodies or receptors and are found in plasma and other body fluids and in the membrane of certain cells.
- http://www.dictionary.com/browse/immunoglobulin
fusogenic-facilitate fusion
- https://glosbe.com/en/en/fusogenic
chemokine-any of a group of cytokines produced by various cells (as at sites of inflammation) that stimulate chemotaxis in white blood cells (as neutrophils and T cells)
- http://www.merriam-webster.com/dictionary/chemokine
isomorophous-having similar shape, form, or structure
- http://www.merriam-webster.com/dictionary/isomorphic
staves-strands or narrow strips that run between two structures to act as a covering or lining
- http://www.biology-online.org/dictionary/Stave
distal-The more (or most) distant of two (or more) things
- http://www.medicinenet.com/script/main/art.asp?articlekey=9252
protomer-A structural subunit of a larger structure.
- http://medical-dictionary.thefreedictionary.com/protomer

This is an important study because the gp120 glycoprotein plays a role in receptor binding and interactions with antibodies
Understanding this protein is important in studying HIV in order to treat the disease as well as prevent it.

The study never discusses the limitations in other studies however it is possible that they are using newer technology in order to study the interactions of CD4 cells and gp120 of HIV

Fig. 1
- Ribbon diagram showing gp120, CD4, and Fab 17b
- Shows positioning of all components
Fig. 2
- A-C: Different representations of gp120 from different angles
- D: Sequence alignment of HIV-1 (B, C, & O), HIV-2, and SIV
Fig. 3
- Interactions of CD4 and gp120 shown through:
  - Ribbon diagrams
  - Electron density
  - Electrostatic surfaces
  - CD4-gp120 contact surfaces
  - CD4-gp120 mutational hot-spots
  - Side-Chain/Main-Chain contribution to the gp120 surface
  - Sequence Variability
  - Phe43 Cavity
  - CD4-gp120 interface
  - gp120 contacts around Phe43 and Arg 59 of CD4
Fig. 4
- Neutralizing antibody 17b-gp120 interface shown through:
  - Worm diagrams
  - Contact surface and V3 loop
  - Electrostatic potential
Fig. 5
- Processes that initiate fusion of viral and target membranes
Table 1

I worked with Isai Lopez, Colin Wikholm, and Anu Vashneyaboth in class and outside of class on Monday October 24th for this weeks electronic notebook and for the group powerpoint.
I received instruction from Dr. Dahlquist's in Bioinformatics class
While I worked with the people noted above, this individual journal entry was completed by me and not copied from another source.
Jordan T. Detamore 20:17, 24 October 2016 (EDT):