Evanescent wave infrared chemical sensor possessing a sulfonated sensing phase for the selective detection of arginine in biological fluids

This paper describes a new infrared (IR) sensing scheme for the determination of arginine (Arg). In this method, the surface of an IR evanescent wave sensing element was modified with sulfonic acid groups to selectively interact with Arg through specific interactions with its guanidine moiety. The sulfonated sensing phase was prepared using a two-layer modification approach. To demonstrate that this assembly could be used for selective infrared sensing, a large number of amino acids were subjected to analysis. Although the sulfonate groups on the surface of the sensing element did interact selectively with the guanidine groups of Arg species, lysine and histidine units caused some interference; this problem could be minimized because of the unique IR absorption bands of the guanidine moiety of Arg. To optimize the detection conditions, we studied the effects of both the pH and the composition of the polymer. The most intense signal was obtained at pH 9. We observed different adsorption rates for the detection of Arg at different values of pH, which we attribute to changes in the accessibility of the analytes to the pore structures of the sensing phase. The composition of the base polymer was also optimized; 60% PVBC (w/w) provided a water-stable, sensitive phase for the detection of Arg in aqueous solution. Under the optimized conditions, we obtained a linear range of detection up to 0.1 mM with a detection limit of ca. 5 μM.     

High-performance liquid chromatographic system for the separation of dynorphin A (1-17) fragments and its application in enzymolysis studies with rat nerve terminal membranes

A high-performance liquid chromatographic method capable of separating a large number of C- and N-terminal degradation fragments of dynorphin A (1-17) (dyn 1-17) in 1 h has been developed. The system has been applied to study the metabolism profiles of various dyn 1-17-derived peptides following in vitro incubation with rat striatum and spinal cord nerve terminal membranes. In addition to the removal of the N-terminal amino acid Tyr, major sites of cleavage between the following amino acids could be established: Leu5-Arg6 in dyn 1-7 (formation of dyn 1-5); Arg6-Arg7 and Leu5-Arg6 in dyn 1-8 (formation of dyn 1-6 and dyn 1-5, respectively); Arg7-Ile8 in dyn 1-9 (formation of dyn 1-7) and Arg9-Pro10 in dyn 1-10 (formation of dyn 1-9). Studies with inhibitors of the enzymes involved show that dyn 1-5 is formed directly from dyn 1-8 via an endopeptidase insensitive to the angiotensin-converting enzyme inhibitor MK 422 acting on the scissile Leu5-Arg6 bond in dyn 1-8. The method circumvents the use of [3H]Tyr-labelled dynorphins, which have the inherent drawback that fragments lacking the N-terminal Tyr cannot be detected. Owing to the high resolution, also for the larger dynorphins dyn 1-14, dyn 1-15 and dyn 1-16, the chromatographic system should prove especially useful in the elucidation of the enzymolysis pattern of dyn 1-17. Furthermore, the method offers a way to evaluate simultaneously the selectivity of new enzyme inhibitors for several cleavage sites in the same assay.     

Paramagnetic Particles and PNA Probe for Automated Separation and Electrochemical Detection of Influenza

Considerable efforts have been devoted to the development of rapid and sensitive methods allowing the detection of viral nucleic acid. We herein describe an assay for identification of a specific influenza sequence. The suggested method was based on isolation using paramagnetic particles coupled with electrochemical detection of isolated product. Peptide nucleic acid (PNA) was used as a probe for hybridization and identification of the influenza-derived specific sequence. The use of PNA can show numerous benefits: PNA probe is not degradable by enzymes and the duplex of PNA with RNA/DNA is more thermostable and more resistant to pH changes than DNA/DNA or RNA/RNA duplexes. This PNA probe assay can be applied as a magnetically guidable tool for detection of DNA/RNA samples under different conditions.     

Paramagnetic Particles and PNA Probe for Automated Separation and Electrochemical Detection of Influenza

Considerable efforts have been devoted to the development of rapid and sensitive methods allowing the detection of viral nucleic acid. We herein describe an assay for identification of a specific influenza sequence. The suggested method was based on isolation using paramagnetic particles coupled with electrochemical detection of isolated product. Peptide nucleic acid (PNA) was used as a probe for hybridization and identification of the influenza-derived specific sequence. The use of PNA can show numerous benefits: PNA probe is not degradable by enzymes and the duplex of PNA with RNA/DNA is more thermostable and more resistant to pH changes than DNA/DNA or RNA/RNA duplexes. This PNA probe assay can be applied as a magnetically guidable tool for detection of DNA/RNA samples under different conditions.

     

Use of immobilized enzymes in chemical analysis

Immobilized enzymes are becoming increasingly popular as analytical reagents because of their reusability, stability, and sensitivity to many inhibitors that would seriously interfere in assays using soluble enzymes. In this article, some of the kinetic and catalytic effects of immobilized enzymes in analysis will be discussed. The shift of the activity-pH profile curves on immobilization, the changes in temperature dependence, the inhibitor constants (K_i), Michaelis constants (K_m), and the maximum velocity ( V_max), plus others, will be discussed. Finally, the use of these immobilized enzymes in fluorometric and electrochemical monitoring systems will be shown, and the future of these reagents in various areas will be discussed. A survey of enzyme electrodes will be presented as an example of the use of immobilized enzymes. Application of immobilized enzyme technology to the assay of BUN, glucose, uric acid, amino acids, ethanol, and other metabolites will be discussed.     

Effects of an arginine-selective tagging procedure on the fragmentation behavior of peptides studied by electrospray ionization tandem mass spectrometry (ESI-MS/MS)

The presence of arginine as the naturally occurring amino acid with the highest gas-phase basicity strongly influences the fragmentation behavior of peptides undergoing collision-induced dissociation. Using a derivatization procedure recently developed in our group, based on a reversible reaction of the guanidino group with 2,3-butanedione and an arylboronic acid, we examined how this label affects the fragmentation patterns of labeled versus unlabeled peptides in MS/MS experiments. As part of this fundamental study, two groups of model peptides (angiotensins and bradykinins) as well as tryptic peptides were labeled according to our protocol and subjected to collision-induced dissociation (CID) in both a triple quadrupole and a quadrupole ion trap instrument. It was found that for angiotensins containing an AspArg sequence, C-terminal cleavage at Asp that occurs for native peptides was completely inhibited in Arg-labeled peptides. For bradykinins and peptides obtained from tryptic digests of standard proteins, some sample peptides were little affected by the tagging of arginine residues. Others, in contrast, exhibited an almost total loss of nonspecific backbone cleavage and their fragment ion spectra were dominated by loss of the arginine tag. These and other experimental results are discussed in view of the nature of the arginine tag and the concept of proton mobility.     

Immobilized enzymes as analytical reagents

Immobilized enzymes are becoming increasingly popular as analytical reagents because of their reusability, stability, and sensitivity to many inhibitors that would seriously interfere in assays using soluble enzymes. In this article, some of the kinetic and catalytic effects of immobilized enzymes in analysis will be discussed. The shift of the activity-pH profile curves on immobilization, the changes in temperature dependence. the inhibitor constants (K₁). Michaelis constants (K _m ), and the maximum velocity (V_max). plus others, will be discussed. Finally, the use of these immobilized enzymes in fluorometric and electrochemical monitoring systems will be shown, and the future of these reagents in various areas will be discussed. A survey of enzyme electrodes will be presented as an example of the use of immobilized enzymes. Application of immobilized enzyme technology to the assay of BUN, glucose, uric acid, amino acids, ethanol. and other metabolites will be discussed.     

The role of residues Arg169 and Arg220 in intersubunit interactions of yeast D-amino acid oxidase

D-Amino acid oxidase from the yeast Trigonopsis variabilis (EC 1.4.3.3, TvDAAO) exists as a dimer consisting of two identical subunits. The dimeric structure of the enzyme is stabilized by 12 (six pairs) hydrogen bonds, the residues Arg169 and Arg220 of each subunit being involved in eight hydrogen bonds. The Arg169Glu and Arg(169,220)Ala mutants of TvDAAO were prepared. Both mutant enzymes were expressed in E. coli cells as insoluble but catalytically active inclusion bodies. The introduction of amino acid substitutions at the intersubunit interface resulted in a change in the substrate specificity profile and a strong decrease in thermal stability.     

Development and Evaluation of a Kinetic‐Spectrophotometric Method for Determination of Arginine

A kinetic method for the determination of micro quantities of amino acid arginine (Arg) is described in this paper. The catalytic activity of cobalt in the reaction of oxidation of purpurin (1,2,4‐trihydroxy‐antraquinone, PP) by hydrogen peroxide in alkaline buffer solution decreases in the presence of micro quantities of arginine, because of the formation of the complex. Operating conditions for the successful determination of arginine were optimized. The optimized conditions yielded a theoretical detection limit of 1.45 μg mL^?1. Kinetic equations are proposed for the investigated process. The interference effects of certain foreign ions and amino acids upon the reaction rate were studied and removed in order to assess the selectivity of the method. The developed procedure was successfully applied to the determination of arginine in various pharmaceutical samples. The typical feature of this procedure is that determination can be carried out at room temperature and in a short analysis time. The newly developed method is simple, inexpensive and efficient for use in the analysis of a large number of samples.     

S‐Click Reaction for Isotropic Orientation of Oxidases on Electrodes to Promote Electron Transfer at Low Potentials

Electrochemical sensors are essential for point‐of‐care testing (POCT) and wearable sensing devices. Establishing an efficient electron transfer route between redox enzymes and electrodes is key for converting enzyme‐catalyzed reactions into electrochemical signals, and for the development of robust, sensitive, and selective biosensors. We demonstrate that the site‐specific incorporation of a novel synthetic amino acid (2‐amino‐3‐(4‐mercaptophenyl)propanoic acid) into redox enzymes, followed by an S‐click reaction to wire the enzyme to the electrode, facilitates electron transfer. The fabricated biosensor demonstrated real‐time and selective monitoring of tryptophan (Trp) in blood and sweat samples, with a linear range of 0.02–0.8 mm . Further developments along this route may result in dramatic expansion of portable electrochemical sensors for diverse health‐determination molecules.     

The Protein Digestibility-Corrected Amino Acid Score (PDCAAS)--a concept for describing protein quality in foods and food ingredients: a critical review

Protein Digestibility-Corrected Amino Score (PDCAAS) is discussed. PDCAAS is now widely used as a routine assay for protein quality evaluation, replacing the more traditional biological methods [e.g., measurement of the Protein Efficiency Ratio (PER) in rats]. PDCAAS is based on comparison of the essential amino acid content of a test protein with that of a reference essential amino acid pattern and a correction for differences in protein digestibility as determined using a rat assay. Although PDCAAS is a rapid and useful method, it often shows discrepancies when compared to PER values. These discrepancies relate to the following issues: uncertainty about the validity of reference patterns, invalidity of correction for fecal (versus ileal) digestibility, truncation of PDCAAS values to 100%, failure to obtain full biological response after supplementation of the limiting essential amino acid, discrepancies between protein and amino acid digestibility, effects of processing on protein quality, and effects of the presence of antinutritional factors in the matrix containing the protein. Part of the discrepancy between PDCAAS and PER can be overcome by modifications of PDCAAS. This article describes some proposed modifications and puts forward the suggestion that the rat protein fecal digestibility assay be replaced by an in vitro ileal amino acid digestibility assay based on a computer-controlled gastrointestinal model.     

Synthesis and characterization of functionalized water soluble cationic poly(ester amide)s

A new family of positively charged, water soluble and functional amino acid‐based poly(ester amide)s ( Arg‐AG PEA ) consisting of four building blocks (L ‐Arginine, DL ‐2‐Allylglycine, oligoethylene glycol, and aliphatic diacid) were synthesized by the solution copolycondensation. Functional pendant carbon–carbon double bonds located in the DL ‐2‐allylglycine unit were incorporated into these Arg‐AG PEAs, and the double bond contents could be adjusted by tuning the feed ratio of L ‐arginine to DL ‐2‐allylglycine monomers. Chemical structures of this new functional Arg‐AG PEA family were confirmed by Fourier transform infrared spectroscopy (FTIR) and nuclear magnetic resonance (NMR) spectra. The thermal property of these polymers was investigated; increasing the methylene chain in both the amino acid and diacid segments resulted in a reduction in the polymer glass‐transition temperature. All these cationic Arg‐AG PEAs had good solubility in water and polar organic solvents. The cytotoxity of Arg‐AG PEAs was evaluated by 3‐(4,5‐Dimethylthiazol‐2‐yl)‐2,5‐diphenyltetrazolium bromide (MTT) assay. These preliminary MTT results indicated that Arg‐AG PEAs were nontoxic to bovine aortic endothelial cells (BAECs). © 2010 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 48: 3758–3766, 2010     

The crystal structures of 4-methoxybenzoate bound CYP199A2 and CYP199A4: structural changes on substrate binding and the identification of an anion binding site

The crystal structures of the 4-methoxybenzoate bound forms of cytochrome P450 enzymes CYP199A2 and CYP199A4 from the Rhodopseudomonas palustris strains CGA009 and HaA2 have been solved. The structures of these two enzymes, which share 86% sequence identity, are very similar though some differences are found on the proximal surface. In these structures the enzymes have a closed conformation, in contrast to the substrate-free form of CYP199A2 where an obvious substrate access channel is observed. The switch from an open to a closed conformation arises from pronounced residue side-chain movements and alterations of ion pair and hydrogen bonding interactions at the entrance of the access channel. A chloride ion bound just inside the protein surface caps the entrance to the active site and protects the substrate and the heme from the external solvent. In both structures the substrate is held in place via hydrophobic and hydrogen bond interactions. The methoxy group is located over the heme iron, accounting for the high activity and selectivity of these enzymes for oxidative demethylation of the substrate. Mutagenesis studies on CYP199A4 highlight the involvement of hydrophobic (Phe185) and hydrophilic (Arg92, Ser95 and Arg243) amino acid residues in the binding of para-substituted benzoates by these enzymes.     

Supramolecular hydrogels based on short peptides linked with conformational switch

Short peptides appropriately linked with an azobenzene conformational switch were found to be motif and pH dependant supramolecular hydrogelators. The hydrogelation properties of the short peptides linked with the conformational switch were studied in detail with respect to dependence on amino acid residue, pH and salt effect. The presence of amino acids with aromatic side chains such as Phe and Tyr was found to be favorable for the short peptides to gel water at an appropriate pH range. Cationic amino acid residues such as Arg and Lys in the short peptides were found to be unfavorable for hydrogelation. pH and salt effect were also found to be important factors for the hydrogelation properties of the short peptides. A series of short peptides with bioactive sequences were linked with the conformational switch and their hydrogelation properties were investigated. Photoresponsive supramolecular hydrogels were realized based on the E-/Z- transition of the conformational switch upon light irradiation. Proper combination of amino acid residues in the short peptides resulted in smart supramolecular hydrogels with responses to multiple stimuli.     

Essential of Proline and Valine Residues in the Peptide Derived from Lactoferrin for Angiotensin Converting Enzyme Inhibition

We synthesized Leu‐Arg‐Pro‐Val‐Ala‐Ala‐Glu, the peptide contained in lactoferrin (Lf), to identify the angiotensin converting enzyme (ACE) inhibition. In an attempt to know the structure‐activity relationship of this peptide, we replaced Pro (the third amino acid residues from N‐terminal) or Val (the fourth amino acid residues from N‐terminal) with Ala (neutral amino acid), Glu (acidic amino acid) or Lys (basic amino acid) to produce six peptides. From the in vitro ACE inhibition (IC₅₀) of these synthesized peptides, the original peptide (Leu‐Arg‐Pro‐Val‐Ala‐Ala‐Glu) showed higher ACE inhibition than the replaced six peptides. Thus, replacement of Pro at the third amino acid residues or Val at the fourth position with Ala, Glu or Lys revealed the ACE inhibition to be lower than the original form of Leu‐Arg‐Pro‐Val‐Ala‐Ala‐Glu. Otherwise, we added one peptide at the C‐terminal of Leu‐Arg‐Pro‐Val‐Ala‐Ala‐Glu and found both products with an addition of Val (Leu‐Arg‐Pro‐Val‐Ala‐Ala‐Glu‐Val) or Ile (Leu‐Arg‐Pro‐Val‐Ala‐Ala‐Glu‐Ile) showing a lower ACE inhibition than the original one. The ACE inhibitions produced by both replaced peptides were without significance. Also, deletion of the last peptide at the C‐terminal (Leu‐Arg‐Pro‐Val‐Ala‐Ala) failed to produce a marked change of ACE inhibition as compared to the original one. These results suggest that Pro and Val are essential in the peptide for inhibition of ACE activity.     

Amino acid adsorption on mesoporous materials: influence of types of amino acids, modification of mesoporous materials, and solution conditions

In order to disclose the dominant interfacial interaction between amino acids and ordered mesoporous materials, the adsorption behaviors of five amino acids on four mesoporous materials were investigated in aqueous solutions with adjustable amino acid concentration, ion strength, and pH. The selected amino acids were acidic amino acid glutamic acid (Glu), basic amino acid arginine (Arg), and neutral amino acids phenylalanine (Phe), leucine (Leu), and alanine (Ala), and the selected mesoporous materials were SBA-15, Al-SBA-15, CH3(10%)-SBA-15, and CH3(20%)-SBA-15. The adsorption capacities of Glu and Arg were strongly dependent on pH and surface charge of the mesoporous adsorbent. The adsorption of Phe showed pH insensitivity but depended on the surface organic functionalization of mesoporous adsorbent. On the basis of the theoretical analysis about the interaction between amino acid and adsorbent, such a remarkable difference was attributed to the different nature of the interaction between amino acid and adsorbent. Arg could be readily adsorbed on the surface of SBA-15, especially Al-SBA-15, under appropriate pH in which the electrostatic interaction was predominant. The driving force of Phe adsorption on mesoporous adsorbent mainly came from the hydrophobic interaction. Therefore, the adsorption capability of Arg decreased with increasing ion strength of solution, while the adsorption capability of Phe increased with the increasing degree of CH3 functionalization on SBA-15. For neutral amino acid Phe, Ala, and Leu, the adsorption capability increased with the increase of the length of their side chains, which was another evidence of hydrophobic effect. Thus, all the adsorption of amino acids on mesoporous silica materials can be decided by the combined influence of two fundamental interactions: electrostatic attraction and hydrophobic effect.     

The inhibition of Saccharomyces cerevisiae cells by acetic acid quantified by electrochemistry and fluorescence

In this paper, the effect of acetic acid on S. cerevisiae metabolism was studied for the first time with the combinational utilization of the mediated electrochemical method and intrinsic fluorescence method, and the results from both methods were compared with each other. It was confirmed in vivo that not only the glycolysis enzymes but also the NADH dehydrogenase were sensitive to acetic acid. The established technique might also be applicable in studying the toxicity of other environmental pollutants, such as phenol and its derivatives.     

Application of high-performance liquid chromatography to the study of biogenic amine-related enzymes

The application of high-performance liquid chromatography to the study of biogenic amine-related enzymes is reviewed. Biogenic amines include catecholamines (dopamine, norepinephrine and epinephrine), indoleamines (serotonin and melatonin), imidazoleamines (histamine), polyamines (putrescine, spermidine and spermine) and acetylcholine. Three particular aspects are covered. The first aspect is the assay of enzyme activities of biogenic amine-related enzymes, such as tyrosine hydroxylase, tryptophan hydroxylase, aromatic L-amino acid decarboxylase, dopamine beta-hydroxylase and phenylethanolamine N-methyltransferase. The introduction of highly sensitive assays of biogenic amines with electrochemical detection or fluorescence detection have made possible the non-isotopic assay of these activities, replacing the previously used radioisotopic methods. The second aspect is the purification of these enzymes. Since biogenic amine-synthesizing enzymes are generally unstable, rapid and efficient purification of these enzymes is very useful. The third aspect is the assay of biogenic amines (for example, acetylcholine and polyamines) using post-column derivatization with biogenic amine oxidases and electrochemical detection.     

Determination of underivatized amino acids by high-performance liquid chromatography and electrochemical detection at an amino acid oxidase immobilized CuPtCI6 modified electrode

An amperometric sensor for amino acids based on the immobilization of amino acid oxidase on the surface of a CuPtCl(6)/GC is described. The amperometric current is due to the oxidation of H2O2 liberated during the enzyme reaction on the surface of the enzyme electrode. The electrode response characteristics as well as kinetic parameters have been evaluated. The enzyme electrode was characterized as an electrochemical biosensor, which was used as detector in high performance liquid chromatography (HPLC) for the determination of a mixture of amino acids with satisfactory results.     

Cellular copper management—a draft user's guide

Copper is essential to many organisms as a cofactor for many proteins and enzymes involved in key biological processes such as respiration and protection from oxidative stress. However, as copper is potentially toxic to living systems, regulatory mechanisms have evolved for its acquisition, trafficking, and release. These mechanisms, whose malfunction is typically associated with severe cellular damage, rely on the concerted action of protein systems that implement mechanisms for copper homeostasis and usage. The ensemble of copper proteins in given organisms can now be predicted with bioinformatics methods from an analysis of amino acid sequences. This work has endeavored to study the copper binding sites in these proteins, and to classify them based on their structural features. When associated with information on occurrence throughout the domains of life and intracellular localization, some generalized perspectives on copper management emerge that may provide a basis for the creation of models of cellular copper metabolism within a systems framework.