Papers

With Tag: Biochemical Methods

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A Two-Photon Fluorescent Probe for Thiols in Live Cells and Tissues

Bong Rae Cho, Jun Han Lee, Chang Su Lim, Ji Hee Han, Yu Shun Tian
J. Am. Chem. Soc. | 2011 | 10.1021/ja202327j

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Protein Splicing Triggered by a Small Molecule

Tom W. Muir, Henning D. Mootz
J. Am. Chem. Soc. | 2002 | 10.1021/ja026769o

The use of small molecules that turn specific proteins on or off provides a level of temporal control that is difficult to achieve using standard genetic approaches. Consequently, the development of small-molecule switches of protein function is a very active...

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Zinspy Sensors with Enhanced Dynamic Range for Imaging Neuronal Cell Zinc Uptake and Mobilization

Jubin W. Ryu, Rodney P. Feazell, Jacek Jaworski, Elizabeth M. Nolan, Stephen J. Lippard, Morgan Sheng
J. Am. Chem. Soc. | 2006 | 10.1021/ja065759a

Thiophene moieties were incorporated into previously described Zinspy (ZS) fluorescent Zn(II) sensor motifs (Nolan, E. M.; Lippard, S. J. Inorg. Chem. 2004, 43, 8310−8317) to provide enhanced fluorescence properties, low-micromolar dissociation constants...

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Characterization of Dynamics of Perdeuterated Proteins by MAS Solid-State NMR

Maggy Hologne, Bernd Reif, Katja Faelber, Anne Diehl
J. Am. Chem. Soc. | 2005 | 10.1021/ja051830l

We show in this communication that dynamic information for uniformly 2H,13C,15N isotopically enriched, crystalline proteins can be obtained by MAS solid-state NMR spectroscopy. The experiments make use of the deuterium quadrupolar tensor, which is the...

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Quantum-Dot-Decorated Robust Transductable Bioluminescent Nanocapsules

Changming Yu, Ming Yan, Juanjuan Du, Jianmin Li, Tatiana Segura, Wei Chen, Yunfeng Lu, Daocheng Pan
J. Am. Chem. Soc. | 2010 | 10.1021/ja104299t

Bioluminescence, due to its high sensitivity, has been exploited in various analytical and imaging applications. In this work, we report a highly stable, cell-transductable, and wavelength-tunable bioluminescence system achieved with an elegant and simple...

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A Two-Dimensional DNA Array: The Three-Layer Logpile

James C. Mitchell, Andrew J. Turberfield, Jonathan Malo
J. Am. Chem. Soc. | 2009 | 10.1021/ja9042593

We describe the three-layer logpile (3LL), a two-dimensional DNA array which self-assembles from four synthetic oligonucleotides via a four-armed Holliday junction motif. It consists of three layers of helices, each running at 60° to the others. DNA arrays...

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Rational Design of FRET-Based Ratiometric Chemosensors for in Vitro and in Cell Fluorescence Analyses of Nucleoside Polyphosphates

Itaru Hamachi, Akio Ojida, Takahiro Kohira, Yasutaka Kurishita
J. Am. Chem. Soc. | 2010 | 10.1021/ja103615z

Ratiometric fluorescence sensing is a useful technique for the precise and quantitative analysis of biological events occurring under complex conditions, such as those inside cells. We report herein the design of new ratiometric chemosensors for nucleoside...

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Tandem Facial Amphiphiles for Membrane Protein Stabilization

Pil Seok Chae, Kamil Gotfryd, Jennifer Pacyna, Larry J. W. Miercke, Søren G. F. Rasmussen, Rebecca A. Robbins, Rohini R. Rana, Claus J. Loland, Brian Kobilka, Robert Stroud, Bernadette Byrne, Ulrik Gether, Samuel H. Gellman
Journal of American Chemical Society | 2010 | 10.1021/ja1072959

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High-Resolution Solid-State NMR Applied to Polypeptides and Membrane Proteins

Sorin Luca, Henrike Heise, Marc Baldus
Acc. Chem. Res. | 2003 | 10.1021/ar020232y

Solid-state NMR provides unique possibilities to study insoluble or noncrystalline molecules at the atomic level. High-resolution conditions can be established by employing magic-angle spinning at ultrahigh magnetic fields. We discuss NMR methods that make...

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Synthetic Molecules as Antibody Replacements

Prasanna G. Alluri, Hernando J. Olivos, M. Muralidhar Reddy, Kiran Bachhawat-Sikder, Thomas Kodadek
Acc. Chem. Res. | 2004 | 10.1021/ar030145l

Antibodies are by far the most versatile, valuable, and widely used protein-binding agents. They are essential tools in biological research and are increasingly being developed as therapeutic reagents. However, antibodies have a number of practical...

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Ratiometric Fluorescent Probes for Detection of Intracellular Singlet Oxygen

Youngmin You, Yejee Han, Wonwoo Nam, Dayoung Song, Somin Cho
Org. Lett. | 2013 | 10.1021/ol401421r

We have developed a series of molecular probes for the fluorescent detection of singlet dioxygen ( 1 O 2 ). The probes, based on asymmetrically substituted 1,3-diarylisobenzofurans, undergo the [2 + 4] cycloaddition reaction with1 O 2 , producing ratiometric...

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A Ratiometric Fluorescent Probe for Cysteine and Homocysteine Displaying a Large Emission Shift

Bingbing Chen, Lin Yuan, Lingliang Long, Weiying Lin, Wen Tan, Zengmei Cao
Org. Lett. | 2008 | 10.1021/ol802436j

4-(1H-phenanthro[9,10-d]imidazol-2-yl)benzaldehyde 1 was rationally designed as a novel ratiometric fluorescent probe for cysteine and homocysteine. Upon addition of cysteine or homocysteine, notably, the probe displayed a very large (125 nm) hypsochromic...

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In Situ Modification of Plain Liposomes with Lipidated Coiled Coil Forming Peptides Induces Membrane Fusion

Marien Bremmer, Harshal Zope, Jens Voskuhl, Tjerk Albregtse, Alexander Kros, Bartjan Van Kolck, Frank Versluis
J. Am. Chem. Soc. | 2013 | 10.1021/ja4031227

Complementary coiled coil forming lipidated peptides embedded in liposomal membranes are able to induce rapid, controlled, and targeted membrane fusion. Traditionally, such fusogenic liposomes are prepared by mixing lipids and lipidated peptides in organic...

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Water-Soluble Phosphinothiols for Traceless Staudinger Ligation and Integration with Expressed Protein Ligation

Annie Tam, Ronald T. Raines, Matthew B. Soellner
J. Am. Chem. Soc. | 2007 | 10.1021/ja073204p

The traceless Staudinger ligation is an effective means to synthesize an amide bond between two groups of otherwise orthogonal reactivity:  a phosphinothioester and an azide. An important application of the Staudinger ligation is in the ligation of peptides...

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Simultaneous Detection of ATP and GTP by Covalently Linked Fluorescent Ribonucleopeptide Sensors

Eiji Nakata, Masatora Fukuda, Tomoki Tamura, Shun Nakano, Takashi Morii, Reiko Sakaguchi
J. Am. Chem. Soc. | 2013 | 10.1021/ja3097652

A noncovalent RNA complex embedding an aptamer function and a fluorophore-labeled peptide affords a fluorescent ribonucleopeptide (RNP) framework for constructing fluorescent sensors. By taking an advantage of the noncovalent properties of the RNP complex,...

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Supramolecular Strategies To Construct Biocompatible and Photoswitchable Fluorescent Assemblies

John F. Callan, Bridgeen McCaughan, Erhan Deniz, Françisco M. Raymo, Ibrahim Yildiz, Stefania Impellizzeri
J. Am. Chem. Soc. | 2010 | 10.1021/ja107341f

We designed and synthesized an amphiphilic copolymer with pendant hydrophobic decyl and hydrophilic poly(ethylene glycol) chains along a common poly(methacrylate) backbone. This macromolecular construct captures hydrophobic boron dipyrromethene fluorophores...

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Biomolecular Embossing

Yuji Miyahara, Jihye Gwak, John P. Hulme
J. Am. Chem. Soc. | 2005 | 10.1021/ja055805r

The replica molding and embossing of DNA texture has been achieved using a conventional polyurethane mold. The final process requires no additional or separate extraction phases. The polyurethane replica is stable up to 150 °C and possesses a good longevity...

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Inducing Rapid Cellular Response on RGD-Binding Threaded Macromolecular Surfaces

Sachiro Kakinoki, Ji-Hun Seo, Yuuki Inoue, Kazuhiko Ishihara, Tetsuji Yamaoka, Nobuhiko Yui
J. Am. Chem. Soc. | 2013 | 10.1021/ja400817q

The rapid response of integrin β 1 molecules to an RGD peptide on a dynamic polyrotaxane surface was successfully induced. As a result, RGD peptides introduced on a highly dynamic cyclodextrin molecule enhanced the frequency of contact with specific...

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Protein-Binding Molecular Switches via Host–Guest Stabilized DNA Hairpins

Janarthanan Jayawickramarajah, Benjamin R. Saks, D. Calvin Harris
J. Am. Chem. Soc. | 2011 | 10.1021/ja2017366

Molecular switches, with target protein-binding activity controlled by prior binding to specific input stimuli, are ubiquitously used in Nature. However, the emulation of such responsive systems, especially in a de novo fashion, remains a significant...

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Technetium Complexes for the Quantitation of Brain Amyloid

Peter T. Lansbury, Hogyu Han, Cheon-Gyu Cho
J. Am. Chem. Soc. | 1996 | 10.1021/ja960207l

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