Sandbox Reserved 439

by [list all teammate names here]

Student Projects for UMass Chemistry 423 Spring 2016

This is an example page. Edit appropriately for your project. Upon completion of each task, delete instructions in orange. See Sandbox Reserved 439 for original instructions

1. Add a citation to the primary reference at the end of the title above: you should all read this paper!

Go to the pdb and search for your pdb code. Go down to the abstract and click "Search on Pubmed". In pubmed, copy the PMID code you see right below the abstract, and paste it to replace xxx after PMID in your title (first edited line above).

Overall Structure

Each section should start with an "initial view" green scene. These can be the same for all sections or can be set by the section author. The ligand binding domain of the aspartate receptor is a dimer of two 4-helix bundles that is shown here with the bound.^[2] In this the N and C termini are at the bottom of the structure; this is where the connections to the transmembrane helices have been truncated.

Binding Interactions

When the protein is colored according to , residues at the ligand site are the most conserved.

Interactions that stabilize ligand binding^[3] include hydrogen bonding from Tyr149 and Gln152 backbone carbonyls and Thr154 sidechain OH to the and hydrogen bonding from the sidechain nitrogens of Arg64, Arg69, and Arg73 to the two .

Additional Features

Quiz Question 1

See Also

• UvrABC

Credits

Introduction - name of team member

Overall Structure - name of team member

Binding Interactions - name of team member

Additional Features - name of team member

Quiz Question 1 - name of team member

References

1. ↑ Yeh JI, Biemann HP, Pandit J, Koshland DE, Kim SH. The three-dimensional structure of the ligand-binding domain of a wild-type bacterial chemotaxis receptor. Structural comparison to the cross-linked mutant forms and conformational changes upon ligand binding. J Biol Chem. 1993 May 5;268(13):9787-92. PMID:8486661
2. ↑ Yeh JI, Biemann HP, Pandit J, Koshland DE, Kim SH. The three-dimensional structure of the ligand-binding domain of a wild-type bacterial chemotaxis receptor. Structural comparison to the cross-linked mutant forms and conformational changes upon ligand binding. J Biol Chem. 1993 May 5;268(13):9787-92. PMID:8486661
3. ↑ Milburn MV, Prive GG, Milligan DL, Scott WG, Yeh J, Jancarik J, Koshland DE Jr, Kim SH. Three-dimensional structures of the ligand-binding domain of the bacterial aspartate receptor with and without a ligand. Science. 1991 Nov 29;254(5036):1342-7. PMID:1660187