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1.
Chem Pharm Bull (Tokyo) ; 68(8): 802-805, 2020.
Article in English | MEDLINE | ID: mdl-32741923

ABSTRACT

The dosages of drugs in newborn infants are small. Small dose necessitate consideration of the loss of drug when administered via feeding tube. In this study, we conducted a tube administration test for seven kinds of antiepileptic drugs and two kinds of potassium supplements using a neonatal feeding tube and investigated the drug loss using the collection rate. We also studied the differences in collection rates among different dosage forms and drugs to determine the more suitable dosage forms and drugs. We investigated three dosage forms: powder, fine granules or dry syrup (powdery form) drugs, powdery form drugs that have been pulverized (pulverized powdery forms), and pulverized tablets. Additionally, we investigated two potassium supplements to determine which was more suitable: potassium L-aspartate and potassium gluconate. For topiramate, only the powdery form caused tube obstructions; the collection rates of the pulverized powdery form and pulverized tablets were > 90%. All antiepileptic drugs other than topiramate that were tested had collection rates of about > 90%. Considering stability and pharmacokinetics, the more suitable dosage form for topiramate is pulverized tablets, whereas the more suitable dosage form for other antiepileptic drugs is powdery form. Collection rate of potassium gluconate was higher than that of potassium L-aspartate. The current study, which indicates that potassium gluconate powdery form is the more suitable drug, presents the more suitable dosage form and drug for administration via feeding tube to newborn infants. These results show that it is essential to evaluate passage through the tube using the collection rate.


Subject(s)
Anticonvulsants/administration & dosage , Enteral Nutrition/methods , Potassium/administration & dosage , Powders/chemistry , Tablets/chemistry , Anticonvulsants/chemistry , Anticonvulsants/metabolism , Aspartic Acid/chemistry , Aspartic Acid/metabolism , Dietary Supplements , Humans , Infant, Newborn , Potassium/chemistry , Potassium/metabolism , Temperature
2.
Toxins (Basel) ; 12(4)2020 03 25.
Article in English | MEDLINE | ID: mdl-32218140

ABSTRACT

Research in toxinology has created a pharmacological paradox. With an estimated 220,000 venomous animals worldwide, the study of peptidyl toxins provides a vast number of effector molecules. However, due to the complexity of the protein-protein interactions, there are fewer than ten venom-derived molecules on the market. Structural characterization and identification of post-translational modifications are essential to develop biological lead structures into pharmaceuticals. Utilizing advancements in mass spectrometry, we have created a high definition approach that fuses conventional high-resolution MS-MS with ion mobility spectrometry (HDMSE) to elucidate these primary structure characteristics. We investigated venom from ten species of "tiger" spider (Genus: Poecilotheria) and discovered they contain isobaric conformers originating from non-enzymatic Asp isomerization. One conformer pair conserved in five of ten species examined, denominated PcaTX-1a and PcaTX-1b, was found to be a 36-residue peptide with a cysteine knot, an amidated C-terminus, and isoAsp33Asp substitution. Although the isomerization of Asp has been implicated in many pathologies, this is the first characterization of Asp isomerization in a toxin and demonstrates the isomerized product's diminished physiological effects. This study establishes the value of a HDMSE approach to toxin screening and characterization.


Subject(s)
Aspartic Acid/chemistry , Ion Mobility Spectrometry , Mass Spectrometry , NAV1.7 Voltage-Gated Sodium Channel/drug effects , Neurotoxins/pharmacology , Spider Venoms/pharmacology , Voltage-Gated Sodium Channel Agonists/pharmacology , Amino Acid Sequence , Animals , Binding Sites , Cell Line , Drug Discovery , Humans , Isomerism , Membrane Potentials , NAV1.7 Voltage-Gated Sodium Channel/metabolism , Neurotoxins/chemistry , Protein Binding , Protein Conformation , Protein Processing, Post-Translational , Spider Venoms/chemistry , Structure-Activity Relationship , Voltage-Gated Sodium Channel Agonists/chemistry
3.
ACS Appl Mater Interfaces ; 11(10): 9860-9871, 2019 Mar 13.
Article in English | MEDLINE | ID: mdl-30773880

ABSTRACT

Even though black phosphorus (BP) has exhibited outstanding capabilities in biomedical, physical, and energy fields, the issues of degradation under ambient conditions and unreactive functional interface limit its further application. There are numerous methodologies utilized to prevent BP degradation; however, these methods usually generate further problems and normally do not involve alterations to the chemically inert BP. Herein, for the first time, we propose a simple and efficient strategy to prepare and modify BP nanosheets (p-BPNSs) by employing aromatic 1-pyrenylbutyric acid through a noncovalent π-π stacking interaction. This strategy not only adopts a novel strategy for enhancing the stability of BPNSs but also paves a convenient way to anchor other active biomolecules such as a targeting effect to extend the biomedical applications of BPNSs. The modified p-BPNSs exhibit enhanced physical and chemical stabilities as well as rich carboxyl groups for further modification. In this work, RGD-modified p-BPNSs exhibit targeted photothermal therapy ability against cancer in both in vitro and in vivo studies, owing to anchoring of arginine-glycine-aspartic acid (RGD) tripeptides, which could target nanosheets into the tumor site through systematic circulation. Consequently, this work not only provides a new concept for modifying and protecting the BP but also opens a novel window for extending the biomedical application of BP by surface engineering.


Subject(s)
Nanocomposites/administration & dosage , Neoplasms/drug therapy , Peptides/pharmacology , Phosphorus/pharmacology , Arginine/chemistry , Aspartic Acid/chemistry , Glycine/chemistry , Humans , Nanocomposites/chemistry , Neoplasms/pathology , Peptides/chemistry , Phosphorus/chemistry , Phototherapy , Theranostic Nanomedicine
4.
J Immunol Res ; 2018: 5982169, 2018.
Article in English | MEDLINE | ID: mdl-30356433

ABSTRACT

Intravenous immunoglobulins (IVIGs) are widely used in replacement therapy of primary and secondary immunodeficiency disorders and in approved autoimmune indications. In addition, IVIG application is used off-label for treatment of other autoimmune diseases, e.g., multiple sclerosis (MS), an inflammatory autoimmune disorder with a clear T cell-mediated immune pathogenesis. The trace element zinc is shown to play a regulatory role in the maintenance of immune functions. Changes of zinc homeostasis affect both the innate and the adaptive immune system. On one hand, therapeutic zinc supplementation can normalize impaired immune functions due to zinc deficiency. On the other hand, therapeutic zinc supplementation is under consideration as a possible option to treat T cell-mediated autoimmune diseases. The aim of the present study was to investigate the influence of IVIG (Octagam®), zinc aspartate (Unizink®), and the combined application of both preparations in the experimental autoimmune encephalomyelitis (EAE), the animal model of MS. Therapeutic intraperitoneal application of zinc aspartate significantly diminished clinical signs during the relapsing-remitting phase of EAE in SJL/J mice. In contrast, IVIG given in a therapeutic manner did not influence the course of EAE. Interestingly, the combined application of both, IVIG and zinc aspartate, significantly reduced the severity of the disease during the acute and the relapsing-remitting phase of the EAE. Our data suggest that the combination of IVIG and zinc aspartate may have beneficial effects in autoimmune diseases, like MS. Further studies should verify the benefit of a controlled immunosuppressive therapy with IVIG and zinc for such diseases.


Subject(s)
Aspartic Acid/analogs & derivatives , Encephalomyelitis, Autoimmune, Experimental/drug therapy , Immunoglobulins, Intravenous/therapeutic use , Immunosuppressive Agents/therapeutic use , Multiple Sclerosis/drug therapy , Zinc Compounds/therapeutic use , Zinc/therapeutic use , Animals , Aspartic Acid/chemistry , Aspartic Acid/therapeutic use , Disease Models, Animal , Drug Therapy, Combination , Female , Humans , Injections, Intraperitoneal , Mice , Mice, Inbred Strains , Myelin Proteolipid Protein/immunology , Peptide Fragments/immunology , Zinc/chemistry , Zinc Compounds/chemistry
5.
J Inorg Biochem ; 178: 94-105, 2018 01.
Article in English | MEDLINE | ID: mdl-29125948

ABSTRACT

Here we present the preparation of 14 pairs of cis- and trans-diammine monochlorido platinum(II) complexes, coordinated to heterocycles (i.e., imidazole, 2-methylimidazole and pyrazole) and linked to various acylhydrazones, which were designed as potential inhibitors of the selenium-dependent enzymes glutathione peroxidase 1 (GPx-1) and thioredoxin reductase 1 (TrxR-1). However, no inhibition of bovine GPx-1 and only weak inhibition of murine TrxR-1 was observed in in vitro assays. Nonetheless, the cis configured diammine monochlorido Pt(II) complexes exhibited cytotoxic and apoptotic properties on various human cancer cell lines, whereas the trans configured complexes generally showed weaker potency with a few exceptions. On the other hand, the trans complexes were generally more likely to lack cross-resistance to cisplatin than the cis analogues. Platinum was found bound to the nuclear DNA of cancer cells treated with representative Pt complexes, suggesting that DNA might be a possible target. Thus, detailed in vitro binding experiments with DNA were conducted. Interactions of the compounds with calf thymus DNA were investigated, including Pt binding kinetics, circular dichroism (CD) spectral changes, changes in DNA melting temperatures, unwinding of supercoiled plasmids and ethidium bromide displacement in DNA. The CD results indicate that the most active cis configured pyrazole-derived complex causes unique structural changes in the DNA compared to the other complexes as well as to those caused by cisplatin, suggesting a denaturation of the DNA structure. This may be important for the antiproliferative activity of this compound in the cancer cells.


Subject(s)
Aspartic Acid/analogs & derivatives , Chondroitin/analogs & derivatives , DNA/drug effects , Glutathione Peroxidase/antagonists & inhibitors , Organoplatinum Compounds/chemical synthesis , Platinum/pharmacology , Selenium/pharmacology , Animals , Aspartic Acid/chemistry , Aspartic Acid/pharmacology , Cattle , Cell Line, Tumor , Cell Proliferation/drug effects , Chondroitin/chemistry , Chondroitin/pharmacology , DNA/chemistry , Enzyme Activation/drug effects , Enzymes/metabolism , Inhibitory Concentration 50 , Mice , Molecular Structure , Organoplatinum Compounds/chemistry , Organoplatinum Compounds/pharmacology , Oxidation-Reduction , Platinum/chemistry , Platinum/toxicity , Selenium/chemistry , Selenium/toxicity
6.
7.
Proc Natl Acad Sci U S A ; 114(27): 7019-7024, 2017 07 03.
Article in English | MEDLINE | ID: mdl-28630348

ABSTRACT

Phosphoglycosyl transferases (PGTs) are integral membrane proteins with diverse architectures that catalyze the formation of polyprenol diphosphate-linked glycans via phosphosugar transfer from a nucleotide diphosphate-sugar to a polyprenol phosphate. There are two PGT superfamilies that differ significantly in overall structure and topology. The polytopic PGT superfamily, represented by MraY and WecA, has been the subject of many studies because of its roles in peptidoglycan and O-antigen biosynthesis. In contrast, less is known about a second, extensive superfamily of PGTs that reveals a core structure with dual domain architecture featuring a C-terminal soluble globular domain and a predicted N-terminal membrane-associated domain. Representative members of this superfamily are the Campylobacter PglCs, which initiate N-linked glycoprotein biosynthesis and are implicated in virulence and pathogenicity. Despite the prevalence of dual domain PGTs, their mechanism of action is unknown. Here, we present the mechanistic analysis of PglC, a prototypic dual domain PGT from Campylobacter concisus Using a luminescence-based assay, together with substrate labeling and kinetics-based approaches, complementary experiments were carried out that support a ping-pong mechanism involving a covalent phosphosugar intermediate for PglC. Significantly, mass spectrometry-based approaches identified Asp93, which is part of a highly conserved AspGlu dyad found in all dual domain PGTs, as the active-site nucleophile of the enzyme involved in the formation of the covalent adduct. The existence of a covalent phosphosugar intermediate provides strong support for a ping-pong mechanism of PglC, differing fundamentally from the ternary complex mechanisms of representative polytopic PGTs.


Subject(s)
Anti-Bacterial Agents/chemistry , Bacterial Proteins/chemistry , Campylobacter/enzymology , Transferases/chemistry , Aspartic Acid/chemistry , Catalytic Domain , Glutamic Acid/chemistry , Kinetics , Luminescence , Models, Chemical , Peptidoglycan/metabolism , Substrate Specificity , Sugars/chemistry
8.
Thromb Res ; 154: 84-92, 2017 Jun.
Article in English | MEDLINE | ID: mdl-28448853

ABSTRACT

Thrombin activates platelets via proteolytic cleavage of protease-activated receptors (PARs) 1 and 4. The two PARs have distinct but complementary roles. The mechanisms responsible for PAR1 activation by thrombin have been extensively studied. However, much less is known regarding thrombin activation of PAR4, especially the potential involvement of regions of PAR4 other than the N-terminal, which is bound to the catalytic site of thrombin. We have studied PAR4 in S. cerevisiae strain MMY12, an expression system in which the GPCR receptors are connected to a Lac Z reporter gene resulting in increased ß-galactosidase activity. This approach was used to assess PAR4 mutants to evaluate the contribution of different aspartic residues in facilitating PAR4 activation. Furthermore, peptides mimicking parts of the PAR4 N-terminal and the second extracellular loop (ECLII) were tested for their ability to inhibit platelet activation by thrombin. Binding of these peptides to γ-thrombin was studied by monitoring the decrease in tryptophan fluorescence intensity of thrombin. We conclude that not only the N-terminal but also the electronegative aspartic residues D224, D230 and D235 (located in ECLII) are be important for PAR4 binding to thrombin. We further suggest that they play a role for the tethered ligand binding to the receptor, as mutations also affected activation in response to a PAR4-activating peptide mimicking the new N-terminal formed after cleavage. This agrees with previous results on PAR1 and thrombin binding. We suggest that the ECLII of PAR4 could be a potential target for antithrombotic drug development.


Subject(s)
Blood Platelets/metabolism , Platelet Activation , Receptors, Thrombin/metabolism , Thrombin/metabolism , Amino Acid Sequence , Aspartic Acid/chemistry , Aspartic Acid/metabolism , Binding Sites , Blood Platelets/cytology , Humans , Models, Molecular , Protein Binding , Protein Conformation , Receptors, Thrombin/chemistry
9.
Nat Prod Commun ; 12(2): 247-249, 2017 Feb.
Article in English | MEDLINE | ID: mdl-30428223

ABSTRACT

TMSCI works as an acid catalyst precursor for selective esterification of L-aspartic and L-glutamic acids in the presence of primary, secondary and tertiary alcohols. Although excess TMSCI was required for the completion of esterification, the resulting alkyl TMS ether could be azeotropically removed by simple evaporation with alcohol.


Subject(s)
Aspartic Acid/chemistry , Glutamic Acid/chemistry , Trimethylsilyl Compounds/chemistry , Catalysis , Esterification
10.
Article in English | MEDLINE | ID: mdl-27592168

ABSTRACT

The aims of this study were to highlight the impact of minor structural differences (e.g. an aminoacid side chain enlargement by one methylene group), on ion dissociation under collision-induced dissociation conditions, and to determine the underlying chemical mechanisms. Therefore, we compared fragmentations of deprotonated aspartic and glutamic acids generated in negative electrospray ionization. Energy-resolved mass spectrometry breakdown curves were recorded and MS3 experiments performed on an Orbitrap Fusion for high-resolution and high-mass accuracy measurements. Activated fragmentations were performed using both the resonant and non-resonant excitation modes (i.e., CID and HCD, respectively) in order to get complementary information on the competitive and consecutive dissociative pathways. These experiments showed a specific loss of ammonia from the activated aspartate but not from the activated glutamate. We mainly focused on this specific observed loss from aspartate. Two different mechanisms based on intramolecular reactions (similar to those occurring in organic chemistry) were proposed, such as intramolecular elimination (i.e. Ei-like) and nucleophilic substitution (i.e. SNi-like) reactions, respectively, yielding anions as fumarate and α lactone from a particular conformation with the lowest steric hindrance (i.e. with antiperiplanar carboxyl groups). The detected deaminated aspartate anion can then release CO2 as observed in the MS3 experimental spectra. However, quantum calculations did not indicate the formation of such a deaminated aspartate product ion without loss of carbon dioxide. Actually, calculations displayed the double neutral (NH3+CO2) loss as a concomitant pathway (from a particular conformation) with relative high activation energy instead of a consecutive process. This disagreement is apparent since the concomitant pathway may be changed into consecutive dissociations according to the collision energy i.e., at higher collision energy and at lower excitation conditions, respectively. The latter takes place by stabilization of the deaminated aspartate solvated with two residual molecules of water (present in the collision cell). This desolvated anion formed is an α lactone substituted by a methylene carboxylate group. The vibrational excitation acquired by [(D-H)-NH3]-during its isolation is enough to allow its prompt decarboxylation with a barrier lower than 8.4kJ/mol. In addition, study of glutamic acid-like diastereomers constituted by a cyclopropane, hindering any side chain rotation, confirms the impact of the three-dimensional geometry on fragmentation pathways. A significant specific loss of water is only observed for one of these diastereomers. Other experiments, such as stable isotope labeling, need to be performed to elucidate all the observed losses from activated aspartate and glutamate anions. These first mechanistic interpretations enhance understanding of this dissociative pathway and underline the necessity of studying fragmentation of a large number of various compounds to implement properly new algorithms for de novo elucidation of unknown metabolites.


Subject(s)
Aspartic Acid/chemistry , Glutamic Acid/chemistry , Protons , Ammonia/chemistry , Anions/chemistry , Carbon Dioxide/chemistry , Models, Molecular , Molecular Conformation , Spectrometry, Mass, Electrospray Ionization/methods , Stereoisomerism , Water/chemistry
11.
Proteins ; 84(11): 1670-1680, 2016 11.
Article in English | MEDLINE | ID: mdl-27479508

ABSTRACT

We report for the first time a hydrolysis mechanism of the cyclic dimeric guanosine monophosphate (c-di-GMP) by the EAL domain phosphodiesterases as revealed by molecular simulations. A model system for the enzyme-substrate complex was prepared on the base of the crystal structure of the EAL domain from the BlrP1 protein complexed with c-di-GMP. The nucleophilic hydroxide generated from the bridging water molecule appeared in a favorable position for attack on the phosphorus atom of c-di-GMP. The most difficult task was to find a pathway for a proton transfer to the O3' atom of c-di-GMP to promote the O3'P bond cleavage. We show that the hydrogen bond network extended over the chain of water molecules in the enzyme active site and the Glu359 and Asp303 side chains provides the relevant proton wires. The suggested mechanism is consistent with the structural, mutagenesis, and kinetic experimental studies on the EAL domain phosphodiesterases. Proteins 2016; 84:1670-1680. © 2016 Wiley Periodicals, Inc.


Subject(s)
Aspartic Acid/chemistry , Cyclic GMP/analogs & derivatives , Escherichia coli Proteins/chemistry , Escherichia coli/chemistry , Glutamic Acid/chemistry , Phosphoric Diester Hydrolases/chemistry , Protons , Amino Acid Substitution , Aspartic Acid/metabolism , Catalytic Domain , Cyclic GMP/chemistry , Cyclic GMP/metabolism , Escherichia coli/enzymology , Escherichia coli Proteins/genetics , Escherichia coli Proteins/metabolism , Gene Expression , Glutamic Acid/metabolism , Hydrogen Bonding , Hydrolysis , Kinetics , Molecular Dynamics Simulation , Phosphoric Diester Hydrolases/genetics , Phosphoric Diester Hydrolases/metabolism , Phosphorus/chemistry , Protein Structure, Secondary , Quantum Theory , Structure-Activity Relationship , Thermodynamics , Water/chemistry
12.
J Agric Food Chem ; 64(24): 4965-74, 2016 Jun 22.
Article in English | MEDLINE | ID: mdl-27244106

ABSTRACT

Fertilizer is one of the most important elements of modern agriculture. However, conventional fertilizer, when applied to crops, is vulnerable to losses through volatilization, leaching, nitrification, or other means. Such a loss limits crop yields and pollutes the environment. In an effort to enhance nutrient use efficiency and reduce environmental pollution, an environmental smart fertilizer was reported in the current study. Poly(aspartic acid) and a degradable macro-cross-linker based on l-aspartic acid were synthesized and introduced into the fertilizer as a superabsorbent to improve the fertilizer degradability and soil moisture-retention capacity. Sustained release behavior of the fertilizer was achieved in soil. Cumulative release of nitrogen and phosphorus was 79.8% and 64.4% after 30 days, respectively. The water-holding and water-retention capacities of soil with the superabsorbent are obviously higher than those of the control soil without superabsorbent. For the sample of 200 g of soil with 1.5 g of superabsorbent, the water-holding capacity is 81.8%, and the water-retention capacity remains 22.6% after 23 days. All of the current results in this study indicated that the as-prepared fertilizer has a promising application in sustainable modern agriculture.


Subject(s)
Aspartic Acid/chemistry , Delayed-Action Preparations/chemistry , Fertilizers/analysis , Nitrogen/chemistry , Phosphorus/chemistry , Drug Compounding , Environmental Pollution/prevention & control , Soil/chemistry
13.
Food Funct ; 7(6): 2635-44, 2016 Jun 15.
Article in English | MEDLINE | ID: mdl-27186602

ABSTRACT

Brown rice, which is a less allergenic food grain and contains essential amino acids, was hydrolysed by bromelain and PROTEASE FP51® to improve its functionalities and taste for food applications. The hydrolysate prepared by bromelain (eb-RPH) had high protein solubility, surface hydrophobicity, low molecular weight peptides, hydrophobic amino acids (leucine, valine and glycine) and flavor amino acids (glutamic acid and aspartic acid). The eb-RPH exhibited higher 1,1-diphenyl-2-picrylhydrazyl (DPPH˙) and 2,2'-azino-bis 3-ethylbenzthiazoline-6-sulfonic (ABTS˙(+)) radical-scavenging activities of 76.62% and 52.96%, respectively, and possessed a better foaming capacity (221.76%) and emulsifying capacity (32.34%) than the hydrolysate prepared by PROTEASE FP51® (ep-RPH) did. The eb-RPH gave the desired taste, which is attributed to volatile flavor compounds (benzaldehyde, benzeneacetaldehyde and 2-acetyl-1-pyrroline) and non-volatile flavor compounds, such as monosodium glutamate, 5'-guanosine monophosphate and 5'-inosine monophosphate (0.07, 0.03 and 0.05 mg mL(-1), respectively). Brown rice peptides generated by bromelain were novel bioactive peptides with multifunctional properties.


Subject(s)
Endopeptidases/metabolism , Exopeptidases/metabolism , Oryza/chemistry , Plant Proteins/chemistry , Adult , Aspartic Acid/chemistry , Chemical Phenomena , Female , Glutamic Acid/chemistry , Glycine/chemistry , Guanosine Monophosphate/chemistry , Humans , Hydrolysis , Hydrophobic and Hydrophilic Interactions , Inosine Monophosphate/chemistry , Leucine/chemistry , Male , Molecular Weight , Sodium Glutamate/chemistry , Taste , Valine/chemistry , Volatile Organic Compounds/chemistry
14.
J Biomol Struct Dyn ; 34(5): 943-51, 2016 May.
Article in English | MEDLINE | ID: mdl-26325019

ABSTRACT

Advanced glycation end products (AGEs) were implicated in pathology of numerous diseases. In this study, we present the bioactivity of aspartic acid (Asp) to inhibit the AGEs. Hemoglobin and bovine serum albumin (BSA) were glycated with glucose, fructose, and ribose in the presence and absence of Asp (100-200 µM). HbA1c inhibition was investigated using human blood and characterized by micro-column ion exchange chromatography. The effect of methyl glyoxal (MG) on hemoglobin and BSA was evaluated by fluorescence spectroscopy and gel electrophoresis. The effect of MG on red blood cells morphology was characterized by scanning electron micrographs. Molecular docking was performed on BSA with Asp. Asp is capable of inhibiting the formation of fluorescent AGEs by reacting with the reducing sugars. The presence of Asp as supplement in whole blood reduced the HbA1c% from 8.8 to 6.1. The presence of MG showed an increase in fluorescence and the presence of Asp inhibited the glycation thereby the fluorescence was quenched. MG also affected the electrophoretic mobility of hemoglobin and BSA by forming high molecular weight aggregates. Normal RBCs showed typical biconcave shape. MG modified RBCs showed twisted and elongated shape whereas the presence of ASP tends to protect RBC from twisting. Asp interacted with arginine residues of bovine serum albumin particularly ARG 194, ARG 198, and ARG 217 thereby stabilized the protein complex. We conclude that Asp has dual functions as a chemical chaperone to stabilize protein and as a dicarbonyl trapper, and thereby it can prevent the complications caused by glycation.


Subject(s)
Aspartic Acid/chemistry , Aspartic Acid/pharmacology , Glycation End Products, Advanced/chemistry , Animals , Cattle , Erythrocytes/metabolism , Erythrocytes/pathology , Erythrocytes/ultrastructure , Glycated Hemoglobin/antagonists & inhibitors , Glycation End Products, Advanced/metabolism , Glycosylation/drug effects , Hemoglobins/chemistry , Hemoglobins/metabolism , Humans , Hydrogen Bonding , Models, Molecular , Molecular Conformation , Molecular Docking Simulation , Serum Albumin, Bovine/chemistry , Serum Albumin, Bovine/metabolism
15.
Proc Natl Acad Sci U S A ; 112(37): 11449-54, 2015 Sep 15.
Article in English | MEDLINE | ID: mdl-26261346

ABSTRACT

The hexactinellids are a diverse group of predominantly deep sea sponges that synthesize elaborate fibrous skeletal systems of amorphous hydrated silica. As a representative example, members of the genus Euplectella have proved to be useful model systems for investigating structure-function relationships in these hierarchically ordered siliceous network-like composites. Despite recent advances in understanding the mechanistic origins of damage tolerance in these complex skeletal systems, the details of their synthesis have remained largely unexplored. Here, we describe a previously unidentified protein, named "glassin," the main constituent in the water-soluble fraction of the demineralized skeletal elements of Euplectella. When combined with silicic acid solutions, glassin rapidly accelerates silica polycondensation over a pH range of 6-8. Glassin is characterized by high histidine content, and cDNA sequence analysis reveals that glassin shares no significant similarity with any other known proteins. The deduced amino acid sequence reveals that glassin consists of two similar histidine-rich domains and a connecting domain. Each of the histidine-rich domains is composed of three segments: an amino-terminal histidine and aspartic acid-rich sequence, a proline-rich sequence in the middle, and a histidine and threonine-rich sequence at the carboxyl terminus. Histidine always forms HX or HHX repeats, in which most of X positions are occupied by glycine, aspartic acid, or threonine. Recombinant glassin reproduces the silica precipitation activity observed in the native proteins. The highly modular composition of glassin, composed of imidazole, acidic, and hydroxyl residues, favors silica polycondensation and provides insights into the molecular mechanisms of skeletal formation in hexactinellid sponges.


Subject(s)
Histidine/chemistry , Porifera/chemistry , Proteins/chemistry , Silicon Dioxide/chemistry , Amino Acid Sequence , Amino Acids/chemistry , Animals , Aspartic Acid/chemistry , Binding Sites , Cloning, Molecular , DNA, Complementary/chemistry , Electrophoresis, Polyacrylamide Gel , Epitopes/chemistry , Geography , Hydrogen-Ion Concentration , Hydrolysis , Molecular Sequence Data , Peptides/chemistry , Proline/chemistry , Protein Processing, Post-Translational , Proteins/genetics , Recombinant Proteins/chemistry , Sequence Homology, Amino Acid , Solubility , Temperature , Threonine/chemistry
16.
J Mol Biol ; 427(22): 3491-3500, 2015 Nov 06.
Article in English | MEDLINE | ID: mdl-26196441

ABSTRACT

Hfq facilitates gene regulation by small non-coding RNAs (sRNAs), thereby affecting bacterial attributes such as biofilm formation and virulence. Escherichia coli Hfq recognizes specific U-rich and AAN motifs in sRNAs and target mRNAs, after which an arginine patch on the rim promotes base pairing between their complementary sequences. In the cell, Hfq must discriminate between many similar RNAs. Here, we report that acidic amino acids lining the sRNA binding channel between the inner pore and rim of the Hfq hexamer contribute to the selectivity of Hfq's chaperone activity. RNase footprinting, in vitro binding and stopped-flow fluorescence annealing assays showed that alanine substitution of D9, E18 or E37 strengthened RNA interactions with the rim of Hfq and increased annealing of non-specific or U-tailed RNA oligomers. Although the mutants were less able than wild-type Hfq to anneal sRNAs with wild-type rpoS mRNA, the D9A mutation bypassed recruitment of Hfq to an (AAN)4 motif in rpoS, both in vitro and in vivo. These results suggest that acidic residues normally modulate access of RNAs to the arginine patch. We propose that this selectivity limits indiscriminate target selection by E. coli Hfq and enforces binding modes that favor genuine sRNA and mRNA pairs.


Subject(s)
Escherichia coli Proteins/metabolism , Escherichia coli/metabolism , Gene Expression Regulation, Bacterial , Host Factor 1 Protein/metabolism , RNA, Bacterial/metabolism , RNA, Messenger/metabolism , RNA, Small Untranslated/metabolism , Arginine/chemistry , Arginine/genetics , Arginine/metabolism , Aspartic Acid/chemistry , Aspartic Acid/genetics , Aspartic Acid/metabolism , Base Pairing , Base Sequence , DNA Footprinting , Electrophoretic Mobility Shift Assay , Escherichia coli/genetics , Escherichia coli Proteins/genetics , Glutamic Acid/chemistry , Glutamic Acid/genetics , Glutamic Acid/metabolism , Host Factor 1 Protein/genetics , Molecular Sequence Data , Mutation/genetics , Nucleic Acid Conformation , RNA, Bacterial/genetics , RNA, Messenger/genetics , RNA, Small Untranslated/genetics
17.
Bioorg Med Chem Lett ; 25(17): 3626-9, 2015 Sep 01.
Article in English | MEDLINE | ID: mdl-26144345

ABSTRACT

A series of structure based drug design hypotheses and focused screening efforts drove improvements in the potency and lipophilic efficiency of tetrahydro-pyrazolopyridine based ERK2 inhibitors. Elaboration of a fragment chemical lead established a new lipophilic aryl-Tyr interaction resulting in a substantial potency improvement. Subsequent cleavage of the lipophilic moiety led to reconfiguration of the ligand bound binding cleft. The reconfiguration established a polar contact between a newly liberated N-H and a vicinal Asp, resulting in further improvements in lipophilic efficiency and in vitro clearance.


Subject(s)
Mitogen-Activated Protein Kinase 1/antagonists & inhibitors , Protein Kinase Inhibitors/chemistry , Protein Kinase Inhibitors/pharmacology , Pyrazoles/chemistry , Pyridines/chemistry , Structure-Activity Relationship , Adenosine Triphosphate/metabolism , Animals , Aspartic Acid/chemistry , Aspartic Acid/metabolism , Binding Sites , Crystallography, X-Ray , Drug Design , Drug Evaluation, Preclinical/methods , Humans , Ligands , Mitogen-Activated Protein Kinase 1/chemistry , Models, Molecular , Protein Conformation , Rats
18.
J Pharm Biomed Anal ; 116: 116-22, 2015 Dec 10.
Article in English | MEDLINE | ID: mdl-25758062

ABSTRACT

Because the aspartic acid (Asp) residues in proteins are occasionally isomerized in the human body, not only l-α-Asp but also l-ß-Asp, D-α-Asp and D-ß-Asp are found in human proteins. In these isomerized aspartic acids, the proportion of D-ß-Asp is the largest and the proportions of l-ß-Asp and D-α-Asp found in human proteins are comparatively small. To explain the proportions of aspartic acid isomers, the possibility of an enzyme able to repair l-ß-Asp and D-α-Asp is frequently considered. The protein L-isoaspartyl (D-aspartyl) O-methyltransferase (PIMT) is considered one of the possible repair enzymes for l-ß-Asp and D-α-Asp. Human PIMT is an enzyme that recognizes both l-ß-Asp and D-α-Asp, and catalyzes the methylation of their side chains. In this study, the binding modes between PIMT and peptide substrates containing l-ß-Asp or D-α-Asp residues were investigated using computational protein-ligand docking and molecular dynamics simulations. The results indicate that carboxyl groups of both l-ß-Asp and D-α-Asp were recognized in similar modes by PIMT and that the C-terminal regions of substrate peptides were located in similar positions on PIMT for both the l-ß-Asp and D-α-Asp peptides. In contrast, for peptides containing l-α-Asp or D-ß-Asp residues, which are not substrates of PIMT, the computationally constructed binding modes between PIMT and peptides greatly differed from those between PIMT and substrates. In the nonsubstrate peptides, not inter- but intra-molecular hydrogen bonds were observed, and the conformations of peptides were more rigid than those of substrates. Thus, the in silico analytical methods were able to distinguish substrates from nonsubstrates and the computational methods are expected to complement experimental analytical methods.


Subject(s)
Aspartic Acid/metabolism , Computer Simulation , Peptide Fragments/metabolism , Protein D-Aspartate-L-Isoaspartate Methyltransferase/metabolism , Aspartic Acid/chemistry , Binding Sites/physiology , Drug Evaluation, Preclinical/methods , Forecasting , Humans , Isomerism , Peptide Fragments/chemistry , Protein D-Aspartate-L-Isoaspartate Methyltransferase/chemistry , Protein Structure, Secondary , Protein Structure, Tertiary , Substrate Specificity/physiology
19.
Environ Technol ; 35(21-24): 2903-9, 2014.
Article in English | MEDLINE | ID: mdl-25189837

ABSTRACT

The formation of calcium sulphate and calcium carbonate scale poses major problems in heat exchangers and water cooling systems, thereby affecting the performance of these types of equipment. In order to inhibit these scale formations, new types of biodegradable water soluble single polymer and dual poly(aspartic acid-citric acid) polymers were developed and tested. The effectiveness of single polymer and four different compositions of poly aspartic acid and citric acid dual polymer systems as scale inhibitors were evaluated. Details of the synthesis, thermal stability, scale inhibition and the morphological characterization of single and dual polymers are presented in this scientific paper. It was found that the calcium sulphate scale inhibition rate was in the range 76.06-91.45%, while the calcium carbonate scale inhibition rate observed was in the range 23.37-30.0% at 65-70 °C. The finding suggests that the water soluble dual polymers are very effective in sulphate scale inhibition in comparison of calcium carbonate scale inhibition.


Subject(s)
Aspartic Acid/chemistry , Citric Acid/chemistry , Peptides/chemistry , Water Purification/methods , Calcium Carbonate/chemistry , Calcium Sulfate/chemistry , Microscopy, Electron, Scanning , Spectroscopy, Fourier Transform Infrared , Temperature , Thermogravimetry , X-Ray Diffraction
20.
Plant J ; 79(6): 1065-75, 2014 Sep.
Article in English | MEDLINE | ID: mdl-25040570

ABSTRACT

The bulk of indole-3-acetic acid (IAA) in plants is found in the form of conjugated molecules, yet past research on identifying these compounds has largely relied on methods that were both laborious and inefficient. Using recent advances in analytical instrumentation, we have developed a simple yet powerful liquid chromatography-mass spectrometry (LC-MS)-based method for the facile characterization of the small IAA conjugate profile of plants. The method uses the well-known quinolinium ion (m/z 130.0651) generated in MS processes as a signature with high mass accuracy that can be used to screen plant extracts for indolic compounds, including IAA conjugates. We reinvestigated Glycine max (soybean) for its indoles and found indole-3-acetyl-trytophan (IA-Trp) in addition to the already known indole-3-acetyl-aspartic acid (IA-Asp) and indole-3-acetyl-glutamic acid (IA-Glu) conjugates. Surprisingly, several organic acid conjugates of tryptophan were also discovered, many of which have not been reported in planta before. These compounds may have important physiological roles in tryptophan metabolism, which in turn can affect human nutrition. We also demonstrated the general applicability of this method by identifying indolic compounds in different plant tissues of diverse phylogenetic origins. It involves minimal sample preparation but can work in conjunction with sample enrichment techniques. This method enables quick screening of IAA conjugates in both previously characterized as well as uncharacterized species, and facilitates the identification of indolic compounds in general.


Subject(s)
Indoleacetic Acids/chemistry , Indoles/chemistry , Plants/chemistry , Amino Acids/chemistry , Amino Acids/isolation & purification , Aspartic Acid/chemistry , Aspartic Acid/isolation & purification , Chromatography, Liquid , Cocos/chemistry , Flowers/chemistry , Ginkgo biloba/chemistry , Indoleacetic Acids/isolation & purification , Indoles/isolation & purification , Solanum lycopersicum/chemistry , Magnetic Resonance Spectroscopy , Mass Spectrometry , Plant Leaves/chemistry , Tryptophan/chemistry
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