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December 2009, Volume 5 No 12 pp863-954
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Editorial
Come together - p863
doi:10.1038/nchembio.272
The third Nature Chemical Biology symposium brought together nearly 200 scientists to explore the frontiers of chemical biology and drug discovery.
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Meeting Report
Nitrate and nitrite in biology, nutrition and therapeutics - pp865 - 869
Jon O Lundberg, Mark T Gladwin, Amrita Ahluwalia, Nigel Benjamin, Nathan S Bryan, Anthony Butler, Pedro Cabrales, Angela Fago, Martin Feelisch, Peter C Ford, Bruce A Freeman, Michael Frenneaux, Joel Friedman, Malte Kelm, Christopher G Kevil, Daniel B Kim-Shapiro, Andrey V Kozlov, Jack R Lancaster Jr, David J Lefer, Kenneth McColl, Kenneth McCurry, Rakesh P Patel, Joel Petersson, Tienush Rassaf, Valentin P Reutov, George B Richter-Addo, Alan Schechter, Sruti Shiva, Koichiro Tsuchiya, Ernst E van Faassen, Andrew J Webb, Brian S Zuckerbraun, Jay L Zweier & Eddie Weitzberg
doi:10.1038/nchembio.260
Inorganic nitrate and nitrite from endogenous or dietary sources are metabolized in vivo to nitric oxide (NO) and other bioactive nitrogen oxides. The nitrate-nitrite-NO pathway is emerging as an important mediator of blood flow regulation, cell signaling, energetics and tissue responses to hypoxia. The latest advances in our understanding of the biochemistry, physiology and therapeutics of nitrate, nitrite and NO were discussed during a recent 2-day meeting at the Nobel Forum, Karolinska Institutet in Stockholm.
Full Text - Nitrate and nitrite in biology, nutrition and therapeutics | PDF (449 KB) - Nitrate and nitrite in biology, nutrition and therapeutics
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News and Views
Deciphering bacterial language - pp870 - 871
Vanessa Sperandio
doi:10.1038/nchembio.263
Vibrio cholerae produces cholera autoinducer-1 (CAI-1), a signaling molecule previously believed to be synthesized by the CqsA enzyme. Here it is shown that CqsA does not directly synthesize CAI-1; instead, it synthesizes amino-CAI-1, which is then converted into CAI-1 in a CqsA-independent manner.
Full Text - Deciphering bacterial language | PDF (392 KB) - Deciphering bacterial language
Genomic variations on a CoA biosynthetic theme - pp871 - 872
Andrei L Osterman
doi:10.1038/nchembio.267
A unique heterotrimeric assembly of individually inactive paralogs, two of which are also involved in regulating phosphatase activity, creates one of the key enzymes of coenzyme A biosynthesis in yeast, pointing to the possibility of a previously undescribed cross-talk between metabolic and signaling pathways.
Full Text - Genomic variations on a CoA biosynthetic theme | PDF (142 KB) - Genomic variations on a CoA biosynthetic theme
PKR and the ribosome compete for mRNA - pp873 - 874
Rebecca Toroney & Philip C Bevilacqua
doi:10.1038/nchembio.262
The RNA-activated protein kinase PKR inhibits translation initiation by sensing long viral double-stranded RNA. A new report indicates that PKR is also activated by a cellular mRNA, but only when ribosomes are not initiating translation.
Full Text - PKR and the ribosome compete for mRNA | PDF (313 KB) - PKR and the ribosome compete for mRNA
On the mechanism of iron sensing by IRP2: new players, new paradigms - pp874 - 875
Naoko Takahashi-Makise, Diane McVey Ward & Jerry Kaplan
doi:10.1038/nchembio.261
Two iron regulatory proteins (IRP1 and IRP2) regulate translation and/or stability of mRNAs encoding proteins required for iron storage, acquisition and utilization. Rather than IRP2 directly sensing iron concentrations, iron has been shown to regulate the level of the SKP1-CUL1-FBXL5 E3 ubiquitin ligase protein complex, which is responsible for IRP2 degradation.
Full Text - On the mechanism of iron sensing by IRP2: new players, new paradigms | PDF (648 KB) - On the mechanism of iron sensing by IRP2: new players, new paradigms
Research highlights - pp876 - 877
doi:10.1038/nchembio.270
Full Text - Research highlights | PDF (244 KB) - Research highlights
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Brief Communications
LC/MS analysis of cellular RNA reveals NAD-linked RNA - pp879 - 881
Y Grace Chen, Walter E Kowtoniuk, Isha Agarwal, Yinghua Shen & David R Liu
doi:10.1038/nchembio.235
Abstract - LC/MS analysis of cellular RNA reveals NAD-linked RNA | Full Text - LC/MS analysis of cellular RNA reveals NAD-linked RNA | PDF (255 KB) - LC/MS analysis of cellular RNA reveals NAD-linked RNA | Supplementary information | Chemical compounds
An artificial di-iron oxo-protein with phenol oxidase activity - pp882 - 884
Marina Faiella, Concetta Andreozzi, Rafael Torres Martin de Rosales, Vincenzo Pavone, Ornella Maglio, Flavia Nastri, William F DeGrado & Angela Lombardi
doi:10.1038/nchembio.257
Abstract - An artificial di-iron oxo-protein with phenol oxidase activity | Full Text - An artificial di-iron oxo-protein with phenol oxidase activity | PDF (524 KB) - An artificial di-iron oxo-protein with phenol oxidase activity | Supplementary information | Chemical compounds
Translating metabolic exchange with imaging mass spectrometry - pp885 - 887
Yu-Liang Yang, Yuquan Xu, Paul Straight & Pieter C Dorrestein
doi:10.1038/nchembio.252
Abstract - Translating metabolic exchange with imaging mass spectrometry | Full Text - Translating metabolic exchange with imaging mass spectrometry | PDF (541 KB) - Translating metabolic exchange with imaging mass spectrometry | Supplementary information | Chemical compounds
Diverse backbone-cyclized peptides via codon reprogramming - pp888 - 890
Takashi Kawakami, Atsushi Ohta, Masaki Ohuchi, Hiroshi Ashigai, Hiroshi Murakami & Hiroaki Suga
doi:10.1038/nchembio.259
Abstract - Diverse backbone-cyclized peptides via codon reprogramming | Full Text - Diverse backbone-cyclized peptides via codon reprogramming | PDF (472 KB) - Diverse backbone-cyclized peptides via codon reprogramming | Supplementary information | Chemical compounds
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Dynamic refolding of IFN-
Articles
The Vibrio cholerae quorum-sensing autoinducer CAI-1: analysis of the biosynthetic enzyme CqsA - pp891 - 895
Robert C Kelly, Megan E Bolitho, Douglas A Higgins, Wenyun Lu, Wai-Leung Ng, Philip D Jeffrey, Joshua D Rabinowitz, Martin F Semmelhack, Frederick M Hughson & Bonnie L Bassler
doi:10.1038/nchembio.237
Abstract - The : Vibrio cholerae: quorum-sensing autoinducer CAI-1: analysis of the biosynthetic enzyme CqsA | Full Text - The Vibrio cholerae quorum-sensing autoinducer CAI-1: analysis of the biosynthetic enzyme CqsA | PDF (529 KB) - The Vibrio cholerae quorum-sensing autoinducer CAI-1: analysis of the biosynthetic enzyme CqsA | Supplementary information | Chemical compounds
Dynamic refolding of IFN-
mRNA enables it to function as PKR activator and translation template - pp896 - 903
Smadar Cohen-Chalamish, Anat Hasson, Dahlia Weinberg, Lise Sarah Namer, Yona Banai, Farhat Osman & Raymond Kaempfer
doi:10.1038/nchembio.234
Abstract - Dynamic refolding of IFN-[gamma] mRNA enables it to function as PKR activator and translation template | Full Text - Dynamic refolding of IFN-
mRNA enables it to function as PKR activator and translation template | PDF (2,536 KB) - Dynamic refolding of IFN- mRNA enables it to function as PKR activator and translation template |
Supplementary information
Coupling DNA unwinding activity with primer synthesis in the bacteriophage T4 primosome - pp904 - 912
Maria Manosas, Michelle M Spiering, Zhihao Zhuang, Stephen J Benkovic & Vincent Croquette
doi:10.1038/nchembio.236
Abstract - Coupling DNA unwinding activity with primer synthesis in the bacteriophage T4 primosome | Full Text - Coupling DNA unwinding activity with primer synthesis in the bacteriophage T4 primosome | PDF (3,197 KB) - Coupling DNA unwinding activity with primer synthesis in the bacteriophage T4 primosome | Supplementary information
Small-molecule inhibitors target Escherichia coli amyloid biogenesis and biofilm formation - pp913 - 919
Lynette Cegelski, Jerome S Pinkner, Neal D Hammer, Corinne K Cusumano, Chia S Hung, Erik Chorell, Veronica Åberg, Jennifer N Walker, Patrick C Seed, Fredrik Almqvist, Matthew R Chapman & Scott J Hultgren
doi:10.1038/nchembio.242
Abstract - Small-molecule inhibitors target : Escherichia coli: amyloid biogenesis and biofilm formation | Full Text - Small-molecule inhibitors target Escherichia coli amyloid biogenesis and biofilm formation | PDF (1,320 KB) - Small-molecule inhibitors target Escherichia coli amyloid biogenesis and biofilm formation | Supplementary information | Chemical compounds
Moonlighting proteins Hal3 and Vhs3 form a heteromeric PPCDC with Ykl088w in yeast CoA biosynthesis - pp920 - 928
Amparo Ruiz, Asier González, Ivan Muñoz, Raquel Serrano, J Albert Abrie, Erick Strauss & Joaquín Ariño
doi:10.1038/nchembio.243
Abstract - Moonlighting proteins Hal3 and Vhs3 form a heteromeric PPCDC with Ykl088w in yeast CoA biosynthesis | Full Text - Moonlighting proteins Hal3 and Vhs3 form a heteromeric PPCDC with Ykl088w in yeast CoA biosynthesis | PDF (1,177 KB) - Moonlighting proteins Hal3 and Vhs3 form a heteromeric PPCDC with Ykl088w in yeast CoA biosynthesis | Supplementary information | Chemical compounds
Spatiotemporal modulation of biodiversity in a synthetic chemical-mediated ecosystem - pp929 - 935
Hao Song, Stephen Payne, Meagan Gray & Lingchong You
doi:10.1038/nchembio.244
Abstract - Spatiotemporal modulation of biodiversity in a synthetic chemical-mediated ecosystem | Full Text - Spatiotemporal modulation of biodiversity in a synthetic chemical-mediated ecosystem | PDF (551 KB) - Spatiotemporal modulation of biodiversity in a synthetic chemical-mediated ecosystem | Supplementary information | Chemical compounds
A synergistic small-molecule combination directly eradicates diverse prion strain structures - pp936 - 946
Blake E Roberts, Martin L Duennwald, Huan Wang, Chan Chung, Nicholas P Lopreiato, Elizabeth A Sweeny, M Noelle Knight & James Shorter
doi:10.1038/nchembio.246
Abstract - A synergistic small-molecule combination directly eradicates diverse prion strain structures | Full Text - A synergistic small-molecule combination directly eradicates diverse prion strain structures | PDF (1,931 KB) - A synergistic small-molecule combination directly eradicates diverse prion strain structures | Supplementary information | Chemical compounds
Natural amino acids do not require their native tRNAs for efficient selection by the ribosome - pp947 - 953
Philip R Effraim, Jiangning Wang, Michael T Englander, Josh Avins, Thomas S Leyh, Ruben L Gonzalez Jr & Virginia W Cornish
doi:10.1038/nchembio.255
Abstract - Natural amino acids do not require their native tRNAs for efficient selection by the ribosome | Full Text - Natural amino acids do not require their native tRNAs for efficient selection by the ribosome | PDF (476 KB) - Natural amino acids do not require their native tRNAs for efficient selection by the ribosome | Supplementary information | Chemical compounds
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Corrigendum
Corrigendum: Persistent signaling induced by FTY720-phosphate is mediated by internalized S1P1 receptors - p954
Florian Mullershausen, Frédéric Zecri, Cihan Cetin, Andreas Billich, Danilo Guerini & Klaus Seuwen
doi:10.1038/nchembio1209-954a
Full Text - Corrigendum: Persistent signaling induced by FTY720-phosphate is mediated by internalized S1P1 receptors | PDF (47 KB) - Corrigendum: Persistent signaling induced by FTY720-phosphate is mediated by internalized S1P1 receptors
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Top of pageErrata
Erratum: S1P1 signaling just keeps going and going and going... - p954
Stuart Cahalan & Hugh Rosen
doi:10.1038/nchembio1209-954b
Full Text - Erratum: S1P1 signaling just keeps going and going and going... | PDF (47 KB) - Erratum: S1P1 signaling just keeps going and going and going...
Erratum: Targeting proteins for degradation - p954
Erin K Schrader, Kristine G Harstad & Andreas Matouschek
doi:10.1038/nchembio1209-954c
Full Text - Erratum: Targeting proteins for degradation | PDF (47 KB) - Erratum: Targeting proteins for degradation
Erratum: The role of dynamic conformational ensembles in biomolecular recognition - p954
David D Boehr, Ruth Nussinov & Peter E Wright
doi:10.1038/nchembio1209-954d
Full Text - Erratum: The role of dynamic conformational ensembles in biomolecular recognition | PDF (47 KB) - Erratum: The role of dynamic conformational ensembles in biomolecular recognition
