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Group Meeting Papers 2007

Here is a list of research papers that were presented for discussion in our 2007 weekly group meetings. Papers are selected by group members as a means to broaden our knowledge in chemistry and chemical biology.

3 Dec 2007, presented by Chris Stratton
Deconstructing fragment-based inhibitor discovery.
Babaoglu, K.; Shoichet, B. K.* Nat. Chem. Biol. 2006, 2, 720-723.
[ Abstract ]

27 Nov 2007, presented by Shalini Balakrishnan
N-Phenylacetanoyl-L-homoserine lactones can strongly antagonize or superagonize quorum sensing in Vibrio fischeri.
Geske, G. D.; O’Neill, J. C.; Blackwell, H. E.* ACS Chem. Biol. 2007, 2, 315-319.
[ Abstract ]

19 Nov 2007, presented by Jackie Wurst
Copper-free click chemistry for dynamic in vivo imaging.
Baskin, J. M.; Prescher, J. A.; Laughlin, S. T.; Agard, N. J.; Chang, P. V.; Miller, I. A.; Lo, A.; Codelli, J. A.; Bertozzi, C. R.* Proc. Natl. Acad. Sci. USA 2007, 104, 16793-16797.
[ Abstract ]

5 Nov 2007, presented by Renato Bauer
Total synthesis of azadirachtin - Finally completed after 22 years.
Jauch, J.* Angew. Chem. Intl. Ed. 2007, 46, in press.
[ Abstract ]

29 Oct 2007, presented by Xuequan Lu
Synthesis and evaluation of stimulatory properties of Sphingomonadaceae glycolipids.
Long, X.; Deng, S.; Mattner, J.; Zang, Z.; Zhou, D.; McNary, N.; Goff, R. D.; Teyton, L.; Bendelac, A.; Savage, P. B.* Nat. Chem. Biol. 2007, 3, 559-564.
[ Abstract ]

22 Oct 2007, presented by Felix Kopp
Contribution of a solute’s chiral solvent imprint to optical rotation.
Mukhopadhyay, P.; Zuber, G.; Wipf, P.; Beratan, D. N.* Angew. Chem. Intl. Ed. 2007, 46, 6450-6452.
[ Abstract ]

24 Sep 2007, presented by Justin Cisar
Selective compounds define Hsp90 as a major inhibitor of apoptosis in small-cell lung cancer.
Rodina, A.; Vilenchik, M.; Moulick, K.; Aguirre, J.; Kim, J.; Chiang, A.; Litz, J.; Clement, C. C.; Kang, Y.; She, Y.; Wu, N.; Felts, S.; Wipf, P.; Massague, J.; Jiang, X.; Brodsky, J. L.; Krystal, G. W.; Chiosis, G.* Nat. Chem. Biol. 2007, 3, 498-507.
[ Abstract ]

18 Sep 2007, presented by Shiying Shang
Epoxide-opening cascades promoted by water.
Vilotijevic, I.; Jamison, T. F.* Science 2007, 317, 1189-1192.
[ Abstract ]

25 Jul 2007, presented by Xuequan Lu
An antifungal agent inhibits an aminoacyl-tRNA synthetase by trapping tRNA in the editing site.
Rock, F. L.; Mao, W.; Yaremchuk, A.; Tukalo, M.; Crépin, T.; Zhou, H.; Zhang, Y.-K.; Hernandez, V.; Akama, T.; Baker, S. J.; Plattner, J. J.; Shapiro, L.; Martinis, S. A.; Benkovic, S. J.; Cusack, S.; Alley M. R. K.* Science 2007, 316, 1759-1761.
[ Abstract ]

2 Jul 2007, presented by Felix Kopp
Calcium Green FlAsH as a genetically targeted small-molecule calcium indicator.
Tour, O.; Adams, S. R.; Kerr, R. A.; Meijer, R. M.; Sejnowski, T. J.; Tsien, R. W.; Tsien, R. Y.* Nat. Chem. Biol. 2007, 3, 423-431.
[ Abstract ]

18 Jun 2007, presented by Chris DiBlasi
Evolving the lock to fit the key to create a family of G protein-coupled receptors potently activated by an inert ligand.
Armbruster, B. N.; Li, X.; Pausch, M. H.; Herlitze, S.; Roth, B. L.* Proc. Natl. Acad. Sci. USA 2007, 104, 5163-5168.
[ Abstract ]

11 Jun 2007, presented by Guodong Liu
Probing the dynamics of O-GlcNAc glycosylation in the brain using quantitative proteomics.
Khidekel, N.; Ficcaro, S. B.; Clark, P. M.; Bryan, M. C.; Swaney, D. L.; Rexach, J. E.; Sun, Y. E.; Coon, J. J.; Peters, E. C.; Hsieh-Wilson, L. C.* Nat. Chem. Biol. 2007, 3, 339-348.
[ Abstract ]

21 May 2007, presented by Justin Cisar
A semisynthetic epitope for kinase substrates.
Allen, J. J.; Li, M.; Brinkworth, C. S.; Paulson, J. L.; Wang, D.; Hübner, A.; Chou, W.-H.; Davis, R. J.; Burlingame, A. L.; Messing, R. O.; Katayama, C. D.; Hedrick, S. M.; Shokat, K. M.* Nat. Methods 2007, 4, 511-516.
[ Abstract ]

15 May 2007, presented by Shiying Shang
Nicotinamide riboside promotes Sir2 silencing and extends lifespan via Nrk and Urh1/Pnp1/Meu1 pathways to NAD+.
Belenky, P.; Racette, F. G.; Bogan, K. L.; McClure, J. M.; Smith, J. S.*; Brenner, C. B.* Cell 2007, 129, 473-484.
[ Abstract ]

7 May 2007, presented by Xuequan Lu
Selective chemical probe inhibitor of Stat3, identified through structure-based virtual screening, induces antitumor activity.
Siddiquee, K.; Zhang, S.; Guida, W. C.; Blaskovich, M. A.; Greedy, B.; Lawrence, H. R.; Yip, M. L. R.; Jove, R.; McLaughlin, M. M.; Lawrence, N. J.; Sebti, S. M.; Turkson, J.* Proc. Natl. Acad. Sci. USA 2007, 104, 7391-7396.
[ Abstract ]

2 May 2007, presented by Chris DiBlasi
Chemical genetics reveals a complex functional ground state of neural stem cells.
Diamandis, P.; Wildenhain, J.; Clarke, I. D.; Sacher, A. G.; Graham, J.; Bellows, D. S.; Ling, E. K. M.; Ward, R. J.; Jamieson, L. G., Tyers, M.*; Dirks, P. B.* Nat. Chem. Biol. 2007, 3, 268-273.
[ Abstract ]

23 Apr 2007, presented by Guodong Liu
Fluorogenic probes for monitoring peptide binding to class II MHC proteins in living cells.
Venkatraman, P.; Nguyen, T. T.; Sainlos, M.; Bilsel, O.; Chitta, S.; Imperiali, B.*; Stern, L. J.* Nat. Chem. Biol. 2007, 3, 222-228.
[ Abstract ]

9 Apr 2007, presented by Justin Cisar
A streamlined metabolic pathway for the biosynthesis of moenomycin A.
Ostash, B.; Saghatelian, A.; Walker, S.* Chem. Biol. 2007, 14, 257-267.
[ Abstract ]

2 Apr 2007, presented by Shiying Shang
The site-specific installation of methyl-lysine analogs into recombinant histones.
Simon, M. D.; Chu, F.; Racki, L. R.; de la Cruz, C. C.; Burlingame, A. L.; Panning, B.; Narlikar, G. J.; Shokat, K. M.* Cell 2007, 128, 1003-1012.
[ Abstract ]

20 Mar 2007, presented by Sirkka Moilanen
Activating gene expression in mammalian cells with promoter-targeted duplex RNAs.
Janowski, B. A.*; Younger, S. T.; Hardy, D. B.; Ram, R.; Huffman, K. E.; Corey, D. R.* Nat. Chem. Biol. 2007, 3, 166-173.
[ Abstract ]

5 Mar 2007, presented by Xuequan Lu
Noxious compounds activate TRPA1 ion channels through covalent modifcation of cysteines.
Macpherson, L. J.; Dubin, A. E.; Evans, M. J.; Marr, F.; Schultz, P. G.; Cravatt, B. F.; Patapoutian, A.* Nature 2007, 445, 541-545.
[ Abstract ]

27 Feb 2007, presented by Christine DiBlasi
Alkynyl sugar analogs for the labeling and visualization of glycoconjugates in cells.
Hsu, T.-L.; Hanson, S. R.; Kishikawa, K.; Wang, S.-K.; Sawa, M.; Wong, C.-H.* Proc. Natl. Acad. Sci. USA 2007, 104, 2614-2619.
[ Abstract ]

19 Feb 2007, presented by Guodong Liu
A membrane receptor for retinol binding protein mediates cellular uptake of vitamin A.
Kawaguchi, R.; Yu, J.; Honda, J.; Hu, J.; Whitelegge, J.; Ping, P.; Wiita, P.; Bok, D.; Sun, H.* Science 2007, 315, 820-825.
[ Abstract ]

12 Feb 2007, presented by Justin Cisar
Pyocyanin isolated from a marine microbial population: Synergistic production between two distinct bacterial species and mode of action.
Angell, S.; Bench, B. J.; Williams, H.; Watanabe, C. M. H.* Chem. Biol. 2006, 13, 1349-1359.
[ Abstract ]

29 Jan 2007, presented by Shiying Shang
Activity-based probes for proteomic profiling of histone deacetylase complexes.
Salisbury, C. M.; Cravatt, B. F.* Proc. Natl. Acad. Sci. USA 2007, 104, 1171-1176.
[ Abstract ]

22 Jan 2007, presented by Sirkka Moilanen
Small-molecule mimics of an α-helix for efficient transport of proteins into cells.
Okuyama, M.; Laman, H.; Kingsbury, S. R; Visintin, C.; Leo, E.; Leigh Eward, K.; Stoeber, K.; Boshoff, C.; Williams, G. H.; Selwood D. L.* Nat. Methods 2007, 4, 153-159.
[ Abstract ]

15 Jan 2007, presented by Xuequan Lu
Engineering yeast transcription machinery for improved ethanol tolerance and production.
Alper, H.; Moxley, J.; Nevoigt, E; Fink G. R.; Stephanopoulos, G* Science 2005, 314, 1565-1568.
[ Abstract ]

8 Jan 2007, presented by Hayato Iwadare
Forward chemical genetic approach identifies new role for GAPDH in insulin signaling.
Min, J.; Kim, Y. K.; Cipriani, P. G.; Kang, M.; Khersonsky, S. M.; Walsh, D. P.; Lee, J.-Y.; Niessen, S.; Yates, J. R.; Gunsalus, K.; Piano, F.; Chang, Y.-T.* Nat. Chem. Biol. 2007, 3, 55-59.
[ Abstract ]