With Tag: Biochemical Methods

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Preparation of Nucleic Acid Functionalized Carbon Nanotube Arrays

Jie Han, Jun Li, Lance Delzeit, M. Meyyappan, Alan M. Cassell, Cattien V. Nguyen
Nano Letters | 2002 | 10.1021/nl025689f

A vertically aligned carbon nanotube (CNT) array is fabricated as a nanoelectrode platform for biosensor development. Prior to chemical functionalization, metal catalyst particles at the ends of CNT are removed and the closed ends are opened. We find that the...


Frequency-Selective Rotation of Two-Particle Nanoactuators for Rapid and Sensitive Detection of Biomolecules

Andrea Ranzoni, Menno W. J. Prins, Jean J. H. B. Schleipen, Leo J. Van IJzendoorn
Nano Lett. | 2011 | 10.1021/nl200384p

We describe an optomagnetic bionanotechnologyfor rapidand sensitive solution-based affinity assays. Nanoactuators made from bioactive magnetic nanoparticles undergo rotational motion in the volume of a fluid under frequency-controlled magnetic actuation. The...


Sensitivity and Specificity of Metal Surface-Immobilized “Molecular Beacon” Biosensors

Todd D. Krauss, Benjamin L. Miller, Christopher M. Strohsahl, Hui Du, James Camera
J. Am. Chem. Soc. | 2005 | 10.1021/ja042482a

The separate developments of microarray patterning of DNA oligonucleotides, and of DNA hairpins as sensitive probes for oligonucleotide identification in solution, have had a tremendous impact on basic biological research and clinical applications. We have...


DNA-Based Magnetic Nanoparticle Assembly Acts as a Magnetic Relaxation Nanoswitch Allowing Screening of DNA-Cleaving Agents

Ralph Weissleder, Lee Josephson, Terence O'Loughin, J. Manuel Perez, F. Joseph Simeone
J. Am. Chem. Soc. | 2002 | 10.1021/ja017773n

Monodisperse magnetic nanoparticles conjugated with complementary oligonucleotide sequences self-assemble into stable magnetic nanoassemblies resulting in a decrease of the spin−spin relaxation times (T2) of neighboring water protons. When these...


Magneto-Switchable Bioelectrocatalysis

Itamar Willner, Ronit Hirsch, Eugenii Katz
J. Am. Chem. Soc. | 2000 | 10.1021/ja005523l



Direct NMR Detection of Alkali Metal Ions Bound to G-Quadruplex DNA

Gang Wu, Ramsey Ida
J. Am. Chem. Soc. | 2008 | 10.1021/ja709975z

We describe a general multinuclear ( 1 H,23 Na,87 Rb) NMR approach for direct detection of alkali metal ions bound to G-quadruplex DNA. This study is motivated by our recent discovery that alkali metal ions (Na + , K + , Rb + ) tightly bound to G-quadruplex...


Ru(bpy)3 Covalently Doped Silica Nanoparticles as Multicenter Tunable Structures for Electrochemiluminescence Amplification

Leopoldo Della Ciana, Enrico Rampazzo, Marco Montalti, Francesco Paolucci, Ettore Marzocchi, Luca Prodi, Simone Zanarini, Massimo Marcaccio
J. Am. Chem. Soc. | 2009 | 10.1021/ja8077158

The electrochemiluminescence (ECL) of doped silica nanoparticles (DSNPs), prepared by a reverse microemulsion method that leads to covalent incorporation of the Ru(bpy) 3 2+ , was investigated in acetonitrile and aqueous buffers. The emission was produced for...


Design, Synthesis and Functional Analysis of Dansylated Polytheonamide Mimic: An Artificial Peptide Ion Channel

Hiroaki Itoh, Masayuki Inoue, Shigeru Matsuoka, Mohamed Kreir
J. Am. Chem. Soc. | 2012 | 10.1021/ja303831a

We report herein the design, total synthesis, and functional analysis of a novel artificial ion channel molecule, designated as dansylated polytheonamide mimic (3). The channel 3 was designed based on an exceptionally potent cytotoxin, polytheonamide B (1)....


Single Amino Acid Replacement Makes Aequorea victoria Fluorescent Proteins Reversibly Photoswitchable

Barbara Campanini, Francesco Cardarelli, Ranieri Bizzarri, Stefania Abbruzzetti, Cristiano Viappiani, Michela Serresi, Fabio Beltram
J. Am. Chem. Soc. | 2009 | 10.1021/ja9014953

Reversibly photoswitchable (i.e., photochromic) fluorescent proteins open the way to a number of advanced bioimaging techniques applicable to living-cell studies such as sequential photolabeling of distinct cellular regions, innovative FRET schemes, or...


Weak Alignment of Biomacromolecules in Collagen Gels: An Alternative Way to Yield Residual Dipolar Couplings for NMR Measurements

Nico Tjandra, Junhe Ma, Gregory I. Goldberg
J. Am. Chem. Soc. | 2008 | 10.1021/ja807064k

Collagen, consisting of glycine, proline, and hydroxyproline, is a fibrous protein that can form a rope-like left-hand triple helix structure. It is demonstrated here that the collagen gels prepared from polymerization in the magnetic field can provide weak...


Supramolecular Hemoprotein Linear Assembly by Successive Interprotein Heme−Heme Pocket Interactions

Hiroyasu Yamaguchi, Takashi Hayashi, Takashi Matsuo, Koji Oohora, Hiroaki Kitagishi, Hideaki Sato, Akira Harada
J. Am. Chem. Soc. | 2007 | 10.1021/ja073295q

We demonstrate a new strategy for the construction of supramolecular hemoprotein assemblies. A synthetic heme was selectively introduced onto the surface Cys residue of the cytochrome b 562 single mutant (H63C) through a thioether bond. After removal of the...


Fluorescent Caged Phosphoserine Peptides as Probes to Investigate Phosphorylation-Dependent Protein Associations

Mark Nitz, Michael B. Yaffe, Justine Stehn, Barbara Imperiali, M. Eugenio Vázquez
J. Am. Chem. Soc. | 2003 | 10.1021/ja0351847

The development of chemical probes for the investigation of the complex phosphorylation signaling cascades that regulate biological events is crucial to understanding these processes. We describe herein a bifunctional probe that enables spatial and temporal...


Determination of Molecular Configuration by Debye Length Modulation

Mark A. Reed, Aleksandar Vacic, Eric Stern, Nitin K. Rajan, Tarek M. Fahmy, Jason M. Criscione
J. Am. Chem. Soc. | 2011 | 10.1021/ja205684a

Silicon nanowire field effect transistors (FETs) have emerged as ultrasensitive, label-free biodetectors that operate by sensing bound surface charge. However, the ionic strength of the environment (i.e., the Debye length of the solution) dictates the...


Carbonyl CSA Restraints from Solution NMR for Protein Structure Refinement

Rebecca S. Lipsitz, Nico Tjandra
J. Am. Chem. Soc. | 2001 | 10.1021/ja016854g



Recognition and Sensing of Nucleoside Monophosphates by a Dicopper(II) Cryptate

Luigi Fabbrizzi, Armando Buttafava, Greta Bergamaschi, Enrico Monzani, Valeria Amendola
J. Am. Chem. Soc. | 2009 | 10.1021/ja9046262

The dimetallic cryptate [Cu 2 II (1)] 4+ selectively recognizes guanosine monophosphate with respect to other nucleoside monophospates (NMPs) in a MeOH/water solution at pH 7. Recognition is efficiently signaled through the displacement of the indicator...


Supramolecular Design for Multivalent Interaction:  Maltose Mobility along Polyrotaxane Enhanced Binding with Concanavalin A

Nobuhiko Yui, Masaru Eguchi, Tooru Ooya
J. Am. Chem. Soc. | 2003 | 10.1021/ja034583z

High molecular mobility of maltose-conjugated α-cyclodextrins (α-CDs) along a poly(ethylene glycol) (PEG) chain due to the mechanically locked structure of polyrotaxanes enhanced multivalent interactions between maltose and concanavalin A (Con A). When...


Colorimetric Detection of Escherichia coli by Polydiacetylene Vesicles Functionalized with Glycolipid

Jinru Li, Zhanfang Ma, Zhiying Zou, Jie Cao, Minghua Liu, Jing Tu, Long Jiang
J. Am. Chem. Soc. | 1998 | 10.1021/ja982663a



Invariant Polymorphism in Virus Capsid Assembly

Hung D. Nguyen, Charles L. Brooks III, Vijay S. Reddy
J. Am. Chem. Soc. | 2009 | 10.1021/ja807730x

Directed self-assembly of designed viral capsids holds significant potential for applications in materials science and medicine. However, the complexity of preparing these systems for assembly and the difficulty of quantitative experimental measurements on...


Silica Encapsulation of Fluorescent Nanodiamonds for Colloidal Stability and Facile Surface Functionalization

Ambika Bumb, Martin W. Brechbiel, Neil Billington, Keir C. Neuman, Susanta K. Sarkar
J. Am. Chem. Soc. | 2013 | 10.1021/ja4016815

Fluorescent nanodiamonds (FNDs) emit in the near-IR and do not photobleach or photoblink. These properties make FNDs better suited for numerous imaging applications compared with commonly used fluorescence agents such as organic dyes and quantum dots....


Controlling Macromolecular Topology with Genetically Encoded SpyTag–SpyCatcher Chemistry

Fei Sun, Frances H. Arnold, Wen-Bin Zhang, David A. Tirrell
J. Am. Chem. Soc. | 2013 | 10.1021/ja4076452

Control of molecular topology constitutes a fundamental challenge in macromolecular chemistry. Here we describe the synthesis and characterization of artificial elastin-like proteins (ELPs) with unconventional nonlinear topologies including circular, tadpole,...

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