Fluorescence lifetime analysis of nitrite reductase from Alcaligenes xylosoxidans at the single-molecule level reveals the enzyme mechanism

A simple fluorescence sensor for the detection of nitrite (NO2−) in real samples using water-dispersible graphite-like carbon nitride (w-g-C3N4) nanomaterials

A novel NO₂⁻ detection method based on the reaction of w-g-C₃N₄ with nitrite (NO₂⁻) in an acidic medium.

A miniaturized fiber-optic colorimetric sensor for nitrite determination by coupling with a microfluidic capillary waveguide

A microfluidic-capillary-waveguide-coupled fiber-optic sensor was developed for colorimetric determination of hazardous nitrite based on the Griess-Ilosvay reaction. The sensor was modularly designed by use of a light-emitting diode as the light source, silica fiber as the light transmission element, and a capillary waveguide tube as the light reaction flow cell. With the light interacting with the azo dye generated by the Griess-Ilosvay reaction between nitrite and Griess reagents, nitrite could be determined by a colorimetric method according to Beer's law. By use of the inexpensive and micro-sized elements mentioned above, the sensor provided a new low-cost and portable method for in situ and online measurement of nitrite. The sensor had a wide linear range for nitrite from 0.02 to 1.8 mg L(-1) and a low detection limit of 7 μg L(-1) (3σ), with a relative standard deviation of 0.37% (n = 10). With a low reagent demand of 200 μL, a short response time of 6.24 s, and excellent selectivity, the sensor is environmentally friendly and has been applied to nitrite determination in different water samples. The results were compared with those obtained by conventional spectrophotometry and ion chromatography, indicating the sensor's potential for practical applications.

Reliable SERS detection of nitrite based on pH and laser irradiance-dependent diazotization through a convenient sampling micro-chamber

A SERS-enabled micro-chamber was constructed for reliable and pretreatment-free detection of NO₂⁻based on a pH and laser irradiance-dependent diazotization.

Graphene oxide supported gold nanoclusters for the sensitive and selective detection of nitrite ions

Nitrite selectively reacts to red fluorescent gold nanoclusters supported on blue fluorescent graphene oxide sheet and leads to a ratiometric fluorescence color change.

Tracking electrons in biological macromolecules: from ensemble to single molecule

Nature utilizes oxido-reductases to cater to the energy demands of most biochemical processes in respiratory species. Oxido-reductases are capable of meeting this challenge by utilizing redox active sites, often containing transition metal ions, which facilitate movement and relocation of electrons/protons to create a potential gradient that is used to energize redox reactions. There has been a consistent struggle by researchers to estimate the electron transfer rate constants in physiologically relevant processes. This review provides a brief background on the measurements of electron transfer rates in biological molecules, in particular Cu-containing enzymes, and highlights the recent advances in monitoring these electron transfer events at the single molecule level or better to say, at the individual event level.

Nanoscale methods for single-molecule electrochemistry

The development of experiments capable of probing individual molecules has led to major breakthroughs in fields ranging from molecular electronics to biophysics, allowing direct tests of knowledge derived from macroscopic measurements and enabling new assays that probe population heterogeneities and internal molecular dynamics. Although still somewhat in their infancy, such methods are also being developed for probing molecular systems in solution using electrochemical transduction mechanisms. Here we outline the present status of this emerging field, concentrating in particular on optical methods, metal-molecule-metal junctions, and electrochemical nanofluidic devices.

Chemically-induced redox switching of a metalloprotein reveals thermodynamic and kinetic heterogeneity, one molecule at a time

FRET-based detection of individual azurin–Cy5 molecules shows an on (reduction)–off (oxidation) fluorescence switching, reveals the redox parameters.

Elucidating the relationship between substrate and inhibitor binding to the active sites of tetrameric β-galactosidase

The stochastic binding and release of two different inhibitors from a tetrameric enzyme is described at the single molecule level.

Enzymatic single-molecule kinetic isotope effects

Ensemble-based measurements of kinetic isotope effects (KIEs) have advanced physical understanding of enzyme-catalyzed reactions, but controversies remain. KIEs are used as reporters of rate-limiting H-transfer steps, quantum mechanical tunnelling, dynamics and multiple reactive states. Single molecule (SM) enzymatic KIEs could provide new information on the physical basis of enzyme catalysis. Here, single pair fluorescence energy transfer (spFRET) was used to measure SM enzymatic KIEs on the H-transfer catalyzed by the enzyme pentaerythritol tetranitrate reductase. We evaluated a range of methods for extracting the SM KIE from single molecule spFRET time traces. The SM KIE enabled separation of contributions from nonenzymatic protein and fluorophore processes and H-transfer reactions. Our work demonstrates SM KIE analysis as a new method for deconvolving reaction chemistry from intrinsic dynamics.

Probing redox proteins on a gold surface by single molecule fluorescence spectroscopy

The interaction between the fluorescently labeled redox protein, azurin, and a thin gold film is characterized using single-molecule fluorescence intensity and lifetime measurements. Fluorescence quenching starts at distances below 2.3 nm from the gold surface. At shorter distances the quantum yield may decrease down to fourfold for direct attachment of the protein to bare gold. Outside of the quenching range, up to fivefold enhancement of the fluorescence is observed on average with increasing roughness of the gold layer. Fluorescence-detected redox activity of individual azurin molecules, with a lifetime switching ratio of 0.4, is demonstrated for the first time close to a gold surface.

Redox cycling and kinetic analysis of single molecules of solution-phase nitrite reductase

Single-molecule measurements are a valuable tool for revealing details of enzyme mechanisms by enabling observation of unsynchronized behavior. However, this approach often requires immobilizing the enzyme on a substrate, a process which may alter enzyme behavior. We apply a microfluidic trapping device to allow, for the first time, prolonged solution-phase measurement of single enzymes in solution. Individual redox events are observed for single molecules of a blue nitrite reductase and are used to extract the microscopic kinetic parameters of the proposed catalytic cycle. Changes in parameters as a function of substrate concentration are consistent with a random sequential substrate binding mechanism.