Ryan N. Willhite Week 7: Difference between revisions
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** isomorphous replacement | ** isomorphous replacement | ||
** density modification techniques | ** density modification techniques | ||
IV. Methods | IV. Methods |
Revision as of 18:15, 7 March 2010
Outline
I. Introduction
- Entry of HIV involves a sequential interaction of
- the envelope glycoprotein (gp120)
- CD4 glycoprotein
- chemokine receptor (primary receptor)
- CD4i (antibodies that block gp120-CD4 complexes to the chemokine receptor)
- CCR5 and CXCR4 for HIV-1 (secondary receptors)
- CD4 binding induces conformational changes in the gp120
- Entry of HIV is mediated by envelope glycoproteins
- 5 variable regions
- Variable and non variable regions are glycosylated
- V3 loop determines specificity
- Gp41 (transmembrane coat proteins) variants found in all enveloped viruses
- N-terminal fusion peptides which participate in membrane fusion
- Enveloped viruses tend to be characteristic in entry
- Direct membrane penetration (HIV)
- HIV causes destruction of CD4 T cells which ultimately leads to AIDS.
II. Purpose of this Study
- Gp120 glycoprotein has important role in
- receptor binding
- interactions with neutralizing antibodies
- Information about the gp120 structure is important for understanding HIV infection
- Assist in designing therapeutic strategies.
- Overall purpose is to observe the mechanism of HIV entry and intervene
III. Determining the Structure
- Devised a crystallization strategy that modified the protein surface
- Obtained crystals of
- a ternary complex composed of a truncated form of gp120
- the N-terminal two domains (DID2) of CD4
- Fab from the human neutralizing monoclonal antibody 17
- The ternary structure was solved by
- combinations of molecular replacement
- isomorphous replacement
- density modification techniques
IV. Methods
- Protein Production, crystallization and data collection
Diffraction data were collected at beamline X4A using phosphorimaging plates and Fuji BAS2000 scanner
- Structure determination
- To locate Fab 17b in the ternary complex crystals, rotational searches with 52 different Fab models were made with program MERLOT*
- Crystals soaked in over 20 different heavy atom compounds
- Isomorphous replacement phasing*
- Automatic concatenation of unmodelled density using PRISM
- Measure deviation