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1.
Nanoscale ; 16(28): 13677-13686, 2024 Jul 18.
Artigo em Inglês | MEDLINE | ID: mdl-38967236

RESUMO

Leptospirosis is a global public health problem caused by Gram-negative pathogenic bacteria belonging to the genus Leptospira. The disease is transmitted through the urine of infected animals, which contaminates water and soil, leading to the infection of other animals and humans. Currently, several approaches exist to detect these bacteria; however, a new sensitive method for the live-cell imaging of Leptospira is required. In this study, we report the green synthesis of cadmium telluride quantum dots (CdTe QDs) which are unique fluorescent nanocrystals with a high fluorescence quantum yield capable of modifying cell surfaces and are biocompatible with cells. The fabrication of QDs with concanavalin A (ConA), a carbohydrate-binding lectin and known biological probe for Gram-negative bacteria, produced ConA-QDs which can effectively bind on Leptospira and exhibit strong fluorescence under simple fluorescence microscopy, allowing the live-cell imaging of the bacteria. Overall, we performed the simple synthesis of ConA-QDs and demonstrated their potential use as versatile fluorescent probes for the live-cell imaging of Leptospira. This technique could be further applied to track leptospiral cells and study the infection mechanism, contributing to a more thorough understanding of leptospirosis and how to control it in the future.


Assuntos
Leptospira , Pontos Quânticos , Pontos Quânticos/química , Corantes Fluorescentes/química , Compostos de Cádmio/química , Telúrio/química , Concanavalina A/química , Canavalia/química , Materiais Biocompatíveis/química , Microscopia de Fluorescência
2.
J Phys Chem B ; 128(30): 7350-7361, 2024 Aug 01.
Artigo em Inglês | MEDLINE | ID: mdl-39034688

RESUMO

We advance the quality of first-principles calculations of protein electronic circular dichroism (CD) through an amelioration of a key deficiency of a previous procedure that involved diabatization of electronic states on the amide chromophore (to obtain interamide couplings) in a ß-strand conformation of a diamide. This yields substantially improved calculated far-ultraviolet (far-UV) electronic circular dichroism (CD) spectra for ß-sheet conformations. The interamide couplings from the diabatization procedure for 13 secondary structural elements (13 diamide structures) are applied to compute the CD spectra for seven example proteins: myoglobin (α helix), jacalin (ß strand), concanavalin A (ß type I), elastase (ß type II), papain (α + ß), 310-helix bundle (310-helix) and snow flea antifreeze protein (polyproline). In all cases, except concanavalin A and papain, the CD spectra computed using the interamide couplings from the diabatization procedure yield improved agreement with experiment with respect to previous first-principles calculations.


Assuntos
Dicroísmo Circular , Concanavalina A , Concanavalina A/química , Mioglobina/química , Proteínas/química , Papaína/química , Papaína/metabolismo , Peptídeos/química , Elétrons , Elastase Pancreática/química , Elastase Pancreática/metabolismo , Estrutura Secundária de Proteína
3.
J Pharm Biomed Anal ; 248: 116299, 2024 Sep 15.
Artigo em Inglês | MEDLINE | ID: mdl-38865928

RESUMO

Infections caused by microorganisms are a public health problem worldwide. New biodetection systems are essential to diagnose with accuracy resulting in more effective treatment. In this work, we propose a ConA-conjugated graphene quantum dots and polypyrrole film-based biosensor for label-free detection of Candida albicans, Candida glabrata, Candida tropicalis, E. coli, B. subitilis, and S. aureus. We modified polypyrrole and graphene quantum dots (PPY-QDGs) with Concanavalin A (Con A) lectin. ConA is a glucose/mannose-specific lectin. The results showed that ConA lectin has the highest binding affinity for C. tropicalis and S. subtilis. PPY-GQDs-ConA binding profile revealed differential response for Candida spp (C. tropicalis > C. albicans > C. glabrata) and bacterial (B. subtilis > S. aureus > E. coli). The limits of detection (LOD) obtained were 1.42 CFU/mL for C. albicans, and 3.72 CFU/mL for C. glabrata. C. tropicalis yielded a LOD of 0.18 CFU/mL. The respective LODs for the evaluated bacteria were 0.39 CFU/mL for S. aureus, 0.72 CFU/mL for S. subtilis, and 2.63 CFU/mL for E. coli. The differential response obtained for the sensor can be attributed to the heterogeneous distribution of carbohydrates on the microorganism's surfaces. The proposed system based on a flexible substrate is effective for microbiological diagnosis.


Assuntos
Técnicas Biossensoriais , Concanavalina A , Grafite , Limite de Detecção , Polímeros , Pirróis , Pontos Quânticos , Grafite/química , Concanavalina A/química , Pontos Quânticos/química , Pirróis/química , Técnicas Biossensoriais/métodos , Polímeros/química , Candida/isolamento & purificação , Eletrodos , Técnicas Eletroquímicas/métodos , Escherichia coli/isolamento & purificação , Staphylococcus aureus/isolamento & purificação
4.
Int J Mol Sci ; 25(11)2024 May 25.
Artigo em Inglês | MEDLINE | ID: mdl-38891937

RESUMO

Modular supramolecular complexes, where different proteins are assembled to gather targeting capability and photofunctional properties within the same structures, are of special interest for bacterial photodynamic inactivation, given their inherent biocompatibility and flexibility. We have recently proposed one such structure, exploiting the tetrameric bacterial protein streptavidin as the main building block, to target S. aureus protein A. To expand the palette of targets, we have linked biotinylated Concanavalin A, a sugar-binding protein, to a methylene blue-labelled streptavidin. By applying a combination of spectroscopy and microscopy, we demonstrate the binding of Concanavalin A to the walls of Gram-positive S. aureus and Gram-negative E. coli. Photoinactivation is observed for both bacterial strains in the low micromolar range, although the moderate affinity for the molecular targets and the low singlet oxygen yields limit the overall efficiency. Finally, we apply a maximum entropy method to the analysis of autocorrelation traces, which proves particularly useful when interpreting signals measured for diffusing systems heterogeneous in size, such as fluorescent species bound to bacteria.


Assuntos
Parede Celular , Concanavalina A , Escherichia coli , Staphylococcus aureus , Concanavalina A/química , Concanavalina A/metabolismo , Escherichia coli/metabolismo , Staphylococcus aureus/metabolismo , Parede Celular/metabolismo , Estreptavidina/química , Estreptavidina/metabolismo , Proteínas de Bactérias/metabolismo , Ligação Proteica
5.
Nature ; 630(8017): 762-768, 2024 Jun.
Artigo em Inglês | MEDLINE | ID: mdl-38778115

RESUMO

Kainate receptors, a subclass of ionotropic glutamate receptors, are tetrameric ligand-gated ion channels that mediate excitatory neurotransmission1-4. Kainate receptors modulate neuronal circuits and synaptic plasticity during the development and function of the central nervous system and are implicated in various neurological and psychiatric diseases, including epilepsy, depression, schizophrenia, anxiety and autism5-11. Although structures of kainate receptor domains and subunit assemblies are available12-18, the mechanism of kainate receptor gating remains poorly understood. Here we present cryo-electron microscopy structures of the kainate receptor GluK2 in the presence of the agonist glutamate and the positive allosteric modulators lectin concanavalin A and BPAM344. Concanavalin A and BPAM344 inhibit kainate receptor desensitization and prolong activation by acting as a spacer between the amino-terminal and ligand-binding domains and a stabilizer of the ligand-binding domain dimer interface, respectively. Channel opening involves the kinking of all four pore-forming M3 helices. Our structures reveal the molecular basis of kainate receptor gating, which could guide the development of drugs for treatment of neurological disorders.


Assuntos
Concanavalina A , Microscopia Crioeletrônica , Receptor de GluK2 Cainato , Ácido Glutâmico , Ativação do Canal Iônico , Modelos Moleculares , Domínios Proteicos , Receptores de Ácido Caínico , Receptores de Ácido Caínico/química , Receptores de Ácido Caínico/metabolismo , Receptores de Ácido Caínico/ultraestrutura , Humanos , Ácido Glutâmico/metabolismo , Ácido Glutâmico/química , Animais , Concanavalina A/química , Concanavalina A/metabolismo , Concanavalina A/farmacologia , Ligantes , Regulação Alostérica , Sítios de Ligação
6.
ACS Biomater Sci Eng ; 10(5): 3017-3028, 2024 05 13.
Artigo em Inglês | MEDLINE | ID: mdl-38655791

RESUMO

Macroporous cryogels are attractive scaffolds for biomedical applications, such as biomolecular immobilization, diagnostic sensing, and tissue engineering. In this study, thiol-reactive redox-responsive cryogels with a porous structure are prepared using photopolymerization of a pyridyl disulfide poly(ethylene glycol) methacrylate (PDS-PEG-MA) monomer. Reactive cryogels are produced using PDS-PEG-MA and hydrophilic poly(ethylene glycol) methyl ether methacrylate (PEGMEMA) monomers, along with a PEG-based cross-linker and photoinitiator. Functionalization of cryogels using a fluorescent dye via the disulfide-thiol exchange reactions is demonstrated, followed by release under reducing conditions. For ligand-mediated protein immobilization, first, thiol-containing biotin or mannose is conjugated onto the cryogels. Subsequently, fluorescent dye-labeled proteins streptavidin and concanavalin A (ConA) are immobilized via ligand-mediated conjugation. Furthermore, we demonstrate that the mannose-decorated cryogel could capture ConA selectively from a mixture of lectins. The efficiency of protein immobilization could be easily tuned by changing the ratio of the thiol-sensitive moiety in the scaffold. Finally, an integrin-binding cell adhesive peptide is attached to cryogels to achieve successful attachment, and the on-demand detachment of integrin-receptor-rich fibroblast cells is demonstrated. Redox-responsive cryogels can serve as potential scaffolds for a variety of biomedical applications because of their facile synthesis and modification.


Assuntos
Criogéis , Oxirredução , Polietilenoglicóis , Criogéis/química , Polietilenoglicóis/química , Animais , Concanavalina A/química , Concanavalina A/metabolismo , Metacrilatos/química , Camundongos , Manose/química , Proteínas Imobilizadas/química , Proteínas Imobilizadas/metabolismo , Compostos de Sulfidrila/química , Estreptavidina/química , Estreptavidina/metabolismo , Proteínas/química , Proteínas/metabolismo , Biotina/química , Biotina/metabolismo , Biotina/análogos & derivados , Porosidade
7.
Carbohydr Res ; 536: 109050, 2024 Feb.
Artigo em Inglês | MEDLINE | ID: mdl-38335804

RESUMO

Lectin Con A, with specificity to interact with α-d-mannopyranoside, achieves tight binding affinity with the aid of optimal multivalent ligand valencies, distances and orientations between the ligands. A series of synthetic arabinomannans, possessing arabinan core and mannan at the non-reducing ends, is studied to assess the above constraints involved with lectin binding in this report. Trisaccharides, with (1 â†’ 2)(1 â†’ 3), (1 â†’ 2)(1 â†’ 5) and (1 â†’ 3)(1 â†’ 5) glycosidic bond connectivities, and a pentasaccharide with mannopyranosides at the non-reducing ends are synthesized. The binding affinities of the mannose bivalent ligands are studied with tetrameric Con A lectin by isothermal titration calorimetry (ITC). Among the derivatives, trisaccharide with (1 â†’ 2)(1 â†’ 3) glycosidic bond connectivity and the pentasaccharide undergo lectin interaction, clearly fulfilling the bivalent structural and functional valencies. Remaining oligosaccharides exhibit only a functional monovalency, defying the bivalent structural valency. The trisaccharide fulfilling the structural and functional valencies represent the smallest bivalent ligand, undergoing the lectin interaction in a trans-mode.


Assuntos
Lectinas , Mananas , Lectinas/química , Ligantes , Concanavalina A/química , Manose/química , Glicosídeos/química , Oligossacarídeos , Trissacarídeos , Ligação Proteica
8.
Dalton Trans ; 53(2): 428-433, 2024 Jan 02.
Artigo em Inglês | MEDLINE | ID: mdl-38086668

RESUMO

Concanavalin A (ConA) has an intrinsic binding affinity to carbohydrates. Here, we obtained Co2+-Ca2+-ConA (2.83 Å, PDB: 8I7Q) via X-ray crystallography by substituting native ConA (Mn2+-Ca2+); it has binding selectivity for high-mannose N-glycan similar to native ConA. Our findings may thus inform antiviral reagent design.


Assuntos
Manose , Polissacarídeos , Concanavalina A/química , Polissacarídeos/química , Carboidratos , Cristalografia por Raios X
9.
J Am Soc Mass Spectrom ; 34(10): 2247-2258, 2023 Oct 04.
Artigo em Inglês | MEDLINE | ID: mdl-37729591

RESUMO

Ion activation methods carried out at gas pressures compatible with ion mobility separations are not yet widely established. This limits the analytical utility of emerging tandem-ion mobility spectrometers that conduct multiple ion mobility separations in series. The present work investigates the applicability of collision-induced dissociation (CID) at 1 to 3 mbar in a tandem-trapped ion mobility spectrometer (tandem-TIMS) to study the architecture of protein complexes. We show that CID of the homotetrameric protein complexes streptavidin (53 kDa), neutravidin (60 kDa), and concanavalin A (110 kDa) provides access to all subunits of the investigated protein complexes, including structurally informative dimers. We report on an "atypical" dissociation pathway, which for concanavalin A proceeds via symmetric partitioning of the precursor charges and produces dimers with the same charge states that were previously reported from surface induced dissociation. Our data suggest a correlation between the formation of subunits by CID in tandem-TIMS/MS, their binding strengths in the native tetramer structures, and the applied activation voltage. Ion mobility spectra of in situ-generated subunits reveal a marked structural heterogeneity inconsistent with annealing into their most stable gas phase structures. Structural transitions are observed for in situ-generated subunits that resemble the transitions reported from collision-induced unfolding of natively folded proteins. These observations indicate that some aspects of the native precursor structure is preserved in the subunits generated from disassembly of the precursor complex. We rationalize our observations by an approximately 100-fold shorter activation time scale in comparison to traditional CID in a collision cell. Finally, the approach discussed here to conduct CID at elevated pressures appears generally applicable also for other types of tandem-ion mobility spectrometers.


Assuntos
Proteínas , Concanavalina A/química , Proteínas/química
10.
J Mater Sci Mater Med ; 34(9): 44, 2023 Aug 31.
Artigo em Inglês | MEDLINE | ID: mdl-37650975

RESUMO

Helicobacter pylori is the cause of most cases of stomach ulcers and also causes some digestive cancers. The emergence and spread of antibiotic-resistant strains of H. pylori is one of the most important challenges in the treatment of its infections. The present study aims to develop a concanavalin A (ConA) coated chitosan (CS) nanocarrier-based drug delivery for the targeted release of peptides to the site of H. pylori infection. Accordingly, chitosan was used as an encapsulating agent for CM11 peptide delivery by applying ionotropic gelation method. Con-A was used for coating CS nanoparticles to target H. pylori. The CS NPs and ConA-CS NPs were characterized by FTIR, dynamic light scattering (DLS), and scanning electron microscopy (SEM). The MIC of CM11-loaded ConA-CS NPs against H. pylori SS1 strain was analyzed in vitro. In order to evaluate the treatment efficiency in vivo, a gastric infection model of H. pylori SS1 strain was established in mice and histopathological studies and IL-1ß cytokine assay were performed. Based on the results, the size frequency for CS NPs and ConA-CS NPs was about 200 and 350 nm, respectively. The prepared CM11-loaded ConA-CS NPs exhibited antibacterial activity against H. pylori SS1 strain with a concentration of 32 µg/ml. The highest healing process was observed in synthesized CM11-loaded ConA-CS NPs treatments and a significant decrease in IL-1ß was observed. Our findings highlight the potential of chitosan nanoparticles as a drug delivery vehicle in the treatment of gastric infection model of H. pylori SS1 strain.


Assuntos
Helicobacter pylori , Nanopartículas , Quitosana/química , Nanopartículas/química , Concanavalina A/química , Antivirais/química , Antivirais/farmacologia , Helicobacter pylori/efeitos dos fármacos , Humanos , Masculino , Animais , Camundongos , Linhagem Celular Tumoral , Camundongos Endogâmicos C57BL , Concentração de Íons de Hidrogênio , Sobrevivência Celular/efeitos dos fármacos
11.
Anal Chem ; 94(51): 18025-18033, 2022 12 27.
Artigo em Inglês | MEDLINE | ID: mdl-36511577

RESUMO

Extracellular vesicles (EVs) are lipid bilayer vesicles that enclose various biomolecules. EVs hold promise as sensitive biomarkers to detect and monitor various diseases. However, they have heterogeneous molecular compositions. The compositions of EVs from identical donor cells obtained using the same purification methods may differ, which is a significant obstacle for elucidating objective biological functions. Herein, the potential of a novel lectin-based affinity chromatography (LAC) method to classify EVs based on their glycan structures is demonstrated. The proposed method utilizes a spongy-like monolithic polymer (spongy monolith, SPM), which consists of poly(ethylene-co-glycidyl methacrylate) with continuous micropores and allows an efficient in situ protein reaction with epoxy groups. Two distinct lectins with different specificities, Sambucus sieboldiana agglutinin and concanavalin A, are effectively immobilized on SPM without impacting the binding activity. Moreover, high recovery rates of liposomal nanoparticles as a model of EVs are achieved due to the large flow-through pores (>10 µm) of SPM compared to a typical agarose gel. Finally, lectin-immobilized SPMs are employed to classify EVs based on the surface glycan structures and demonstrate different subpopulations by proteome profiling. This is the first approach to clarify the variation of protein contents in EVs by the difference of surface glycans via lectin immobilized media.


Assuntos
Vesículas Extracelulares , Lectinas , Lectinas/metabolismo , Concanavalina A/química , Cromatografia de Afinidade/métodos , Vesículas Extracelulares/metabolismo , Polissacarídeos/metabolismo
12.
Biomacromolecules ; 23(11): 4778-4785, 2022 11 14.
Artigo em Inglês | MEDLINE | ID: mdl-36252236

RESUMO

Phytoglycogen (PG) is a polysaccharide produced in the kernels of sweet corn as soft, highly branched, compact nanoparticles. Its tree-like or dendritic architecture, combined with a high-safety profile, makes PG nanoparticles attractive for use in biological applications, many of which rely on the association or binding of small biomolecules. We have developed a methodology to functionalize surface plasmon resonance (SPR) sensor surfaces with PG nanoparticles, and we demonstrate the utility of the PG-functionalized SPR sensor by measuring the binding affinity of the tetrameric concanavalin A (ConA) protein to both native PG nanoparticles and smaller, softer acid-hydrolyzed PG nanoparticles. We measure comparable values of the equilibrium association constant K for native and acid-hydrolyzed PG, with a slightly smaller value for the acid-hydrolyzed particles that we attribute to unfavorable lateral interactions between the tetrameric subunits of ConA due to the increase in surface curvature of the smaller acid-hydrolyzed PG particles. We also use infrared reflection-absorption spectroscopy (IRRAS) to show that ConA maintains a large fraction of its native conformation, and thus its bioactivity, upon binding to PG, representing an important step toward the realization of PG as a novel bioactive delivery vehicle.


Assuntos
Nanopartículas , Ressonância de Plasmônio de Superfície , Concanavalina A/química , Ressonância de Plasmônio de Superfície/métodos , Nanopartículas/química , Espectrofotometria Infravermelho , Proteínas
13.
Int J Biol Macromol ; 222(Pt B): 2823-2832, 2022 Dec 01.
Artigo em Inglês | MEDLINE | ID: mdl-36228819

RESUMO

Mannose/glucose-binding lectin from Canavalia ensiformis seeds (Concanavalin A - ConA) has several biological applications, such as mitogenic and antitumor activity. However, most of the mechanisms involved in the in vivo toxicity of ConA are not well known. In this study, the Drosophila melanogaster model was used to assess the toxicity and genotoxicity of different concentrations of native ConA (4.4, 17.5 and 70 µg/mL) in inhibited and denatured forms of ConA. The data show that native ConA affected: the survival, in the order of 30.6 %, and the locomotor performance of the flies; reduced cell viability to levels below 50 % (4.4 and 17.5 µg/mL); reduced nitric oxide levels; caused lipid peroxidation and increased protein and non-protein thiol content. In the Comet assay, native ConA (17.5 e 70 µg/mL) caused DNA damage higher than 50 %. In contrast, treatments with inhibited and denatured ConA did not affect oxidative stress markers and did not cause DNA damage. We believe that protein-carbohydrate interactions between ConA and carbohydrates of the plasma membrane are probably the major events involved in these activities, suggesting that native ConA activates mechanisms that induce oxidative stress and consequently DNA damage.


Assuntos
Canavalia , Drosophila melanogaster , Animais , Canavalia/química , Drosophila melanogaster/metabolismo , Concanavalina A/química , Dano ao DNA , Estresse Oxidativo
14.
Biochemistry (Mosc) ; 87(1): 54-69, 2022 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-35491020

RESUMO

Computer modeling of complexation of mono- and oligosaccharide ligands with the main (fourth) carbohydrate-binding domain of the mannose receptor CD206 (CRD4), as well as with the model receptor concanavalin A (ConA), was carried out for the first time, using methods of molecular dynamics and neural network analysis. ConA was shown to be a relevant model of CD206 (CRD4) due to similarity of the structural organization of the binding sites and high correlation of the values of free energies of complexation between the literature data and computer modeling (r > 0.9). Role of the main factors affecting affinity of the ligand-receptor interactions is discussed: the number and nature of carbohydrate residues, presence of Me-group in the O1 position, type of the glycoside bond in dimannose. Complexation of ConA and CD206 with ligands is shown to be energetically caused by electrostatic interactions (E) of the charged residues (Asn, Asp, Arg) with oxygen and hydrogen atoms in carbohydrates; contributions of hydrophobic and van der Waals components is lower. Possibility of the additional stabilization of complexes due to the CH-π stacking interactions of Tyr with the Man plane is discussed. The role of calcium and manganese ions in binding ligands has been studied. The values of free energies of complexation calculated in the course of molecular dynamics simulation correlate with experimental data (published for the model ConA): correlation coefficient r = 0.68. The Pafnucy neural network was trained based on the set of PDBbind2020 ligand-receptor complexes, which significantly increased accuracy of the energy predictions to r = 0.8 and 0.82 for CD206 and ConA receptors, respectively. A model of normalization of the complexation energy values for calculating the relevant values of ΔGbind, Kd is proposed. Based on the developed technique, values of the dissociation constants of a series of CD206 complexes with nine carbohydrate ligands of different structures were determined, which were not previously known. The obtained data open up possibilities for using computer modeling for the development of optimal drug carriers capable of active macrophage targeting, and also determine the limits of applicability of using ConA as a relevant model for studying parameters of the CD206 binding to various carbohydrate ligands.


Assuntos
Lectinas , Receptor de Manose , Carboidratos , Concanavalina A/química , Concanavalina A/metabolismo , Humanos , Lectinas/metabolismo , Ligantes , Simulação de Dinâmica Molecular
15.
J Am Soc Mass Spectrom ; 33(2): 369-381, 2022 Feb 02.
Artigo em Inglês | MEDLINE | ID: mdl-35073092

RESUMO

The precise relationship between native gas-phase protein ion structure, charge, desolvation, and activation remains elusive. Much evidence supports the Charge Residue Model for native protein ions formed by electrospray ionization, but scaling laws derived from it relate only to overall ion size. Closer examination of drift tube CCSs across individual native protein ion charge state distributions (CSDs) reveals deviations from global trends. To investigate whether this is due to structure variation across CSDs or contributions of long-range charge-dipole interactions, we performed in vacuo force field molecular dynamics (MD) simulations of multiple charge conformers of three proteins representing a variety of physical and structural features: ß-lactoglobulin, concanavalin A, and glutamate dehydrogenase. Results from these simulated ions indicate subtle structure variation across their native CSDs, although effects of these structural differences and long-range charge-dependent interactions on CCS are small. The structure and CCS of smaller proteins may be more sensitive to charge due to their low surface-to-volume ratios and reduced capacity to compact. Secondary and higher order structure from condensed-phase structures is largely retained in these simulations, supporting the use of the term "native-like" to describe results from native ion mobility-mass spectrometry experiments, although, notably, the most compact structure can be the most different from the condensed-phase structure. Collapse of surface side chains to self-solvate through formation of new hydrogen bonds is a major feature of gas-phase compaction and likely occurs during the desolvation process. Results from these MD simulations provide new insight into the relationship of gas-phase protein ion structure, charge, and CCS.


Assuntos
Concanavalina A/química , Gases/química , Glutamato Desidrogenase/química , Espectrometria de Mobilidade Iônica/métodos , Lactoglobulinas/química , Íons/química , Simulação de Dinâmica Molecular , Conformação Proteica
16.
PLoS One ; 16(11): e0259846, 2021.
Artigo em Inglês | MEDLINE | ID: mdl-34784358

RESUMO

Epigenome research has employed various methods to identify the genomic location of proteins of interest, such as transcription factors and histone modifications. A recently established method called CUT&Tag uses a Protein-A Tn5 transposase fusion protein, which cuts the genome and inserts adapter sequences nearby the target protein. Throughout most of the CUT&Tag procedure, cells are held on concanavalin A (con A)-conjugated magnetic beads. Proper holding of cells would be decisive for the accessibility of Tn5 to the chromatin, and efficacy of the procedure of washing cells. However, BioMag®Plus ConA magnetic beads, used in the original CUT&Tag protocol, often exhibit poor suspendability and severe aggregation. Here, we compared the BioMag beads and Dynabeads® magnetic particles of which conjugation of con A was done by our hands, and examined the performance of these magnetic beads in CUT&Tag. Among tested, one of the Dynabeads, MyOne-T1, kept excessive suspendability in a buffer even after overnight incubation. Furthermore, the MyOne-T1 beads notably improved the sensitivity in CUT&Tag assay for H3K4me3. In conclusion, the arrangement and the selection of MyOne-T1 refine the suspendability of beads, which improves the association of chromatin with Tn5, which enhances the sensitivity in CUT&Tag assay.


Assuntos
Concanavalina A/administração & dosagem , Histonas/metabolismo , Proteína Estafilocócica A/genética , Transposases/genética , Animais , Linhagem Celular , Concanavalina A/química , Concanavalina A/farmacologia , Epigenômica , Células HEK293 , Código das Histonas , Humanos , Separação Imunomagnética , Campos Magnéticos , Metilação , Camundongos , Tamanho da Partícula , Proteínas Recombinantes de Fusão/metabolismo , Proteína Estafilocócica A/metabolismo , Transposases/metabolismo
17.
Dalton Trans ; 50(48): 17817-17831, 2021 Dec 14.
Artigo em Inglês | MEDLINE | ID: mdl-34806716

RESUMO

The binding ability of lectins has gained attention owing to the carbohydrate-specific interactions of these proteins. Such interactions can be applied to diverse fields of biotechnology, including the detection, isolation, and concentration of biological target molecules. The physiological aspects of the lectin concanavalin A (ConA) have been intensively studied through structural and functional investigations. X-ray crystallography studies have proven that ConA has two ß-sheets and a short α-helix and that it exists in the form of a metalloprotein containing Mn2+ and Ca2+. These heterometals are coordinated with side chains located in a metal-coordinated domain (MCD), and they affect the structural environment in the carbohydrate-binding domain (CBD), which interacts with carbohydrates through hydrogen bonds. Recent studies have shown that ConA can regulate biophysical interactions with glycoproteins in virus envelopes because it specifically interacts with diverse polysaccharides through its CBD (Tyr, Asn, Asp, and Arg residues positioned next to the MCD). Owing to their protein-protein interaction abilities, ConA can form diverse self-assembled complexes including monomers, dimers, trimers, and tetramers, thus affording unique results in different applications. In this regard, herein, we present a review of the structural modifications in ConA through metal-ion coordination and their effect on complex formation. In recent approaches, ConA has been applied for viral protein detection, on the basis of the interactions of ConA. These aspects indicate that lectins should be thoroughly investigated with respect to their biophysical interactions, for avoiding unexpected changes in their interaction abilities.


Assuntos
Cálcio/metabolismo , Concanavalina A/metabolismo , Manganês/metabolismo , Xenobióticos/metabolismo , Cálcio/química , Concanavalina A/química , Cristalografia por Raios X , Manganês/química , Modelos Moleculares , Xenobióticos/química
18.
Chembiochem ; 22(21): 3075-3081, 2021 11 03.
Artigo em Inglês | MEDLINE | ID: mdl-34375491

RESUMO

Glycovesicles are ideal tools to delineate finer mechanisms of the interactions at the biological cell membranes. Multivalency forms the basis which, in turn, should surpass more than one mechanism in order to maintain multiple roles that the ligand-lectin interactions encounter. Ligand densities hold a prime control to attenuate the interactions. In the present study, mannose trisaccharide interacting with a cognate receptor, namely, Con A, is assessed at the vesicle surface. Synthetic (1→3)(1→6)-branched mannose trisaccharides tethered with a diacetylene monomer and glycovesicles of varying sugar densities were prepared. The polydiacetylene vesicles were prepared by maintaining uniform lipid concentrations. The interactions of the glycovesicles with the lectin were probed through dynamic light scattering and UV-Vis spectroscopy techniques. Binding efficacies were assessed by surface plasmon resonance. Aggregative and in-plane modes of interactions show ligand-density dependence at the vesicle surface. Vesicles with sparsely populated ligands engage lectin in an aggregative mode (trans-), leading to a cross-linked complex formation. Whereas glycovesicles embedded with dense ligands engage lectin interaction in an in-plane mode intramolecularly (cis-). Sub-nanomolar dissociation constants govern the intramolecular interaction occurring within the plane of the vesicle, and are more efficacious than the aggregative intermolecular interactions.


Assuntos
Concanavalina A/química , Manose/química , Oligossacarídeos/química , Manose/síntese química , Estrutura Molecular , Oligossacarídeos/síntese química
19.
Mikrochim Acta ; 188(8): 252, 2021 07 13.
Artigo em Inglês | MEDLINE | ID: mdl-34255200

RESUMO

A competitive strategy for glycan determination on cell surface with organic electrochemical transistors (OECTs) has been developed. The carboxylic multi-wall carbon nanotubes were firstly immobilized on the gate interface to cross-link the specific monose with adipic dihydrazide as the linker, which could then competitively recognize horseradish peroxidase (HRP)-labeled lectin with the target monose on the cell surface. The HRP captured on the gate interface through the affinity of lectin to monose finally catalyzed the reduction of hydrogen peroxide to produce the output current signal for detection of cell surface monose under the optimal gate voltage of 0.9 V. Using mannose and galactose groups as the target models, HRP-labeled concanavalin A and peanut agglutinin were used to competitively recognize these groups on both cell surface and gate interface, respectively. The amounts of mannose and galactose on HeLa cells were measured to be 3.41 × 108 and 2.92 × 108 molecules per cell, respectively. The changes of the mannose and galactose expressions upon external stimulation were also observed with the proposed biosensors, which showed consistent results with flow cytometric analysis, indicating that the OECT-based biosensor is suitable for analysis of different glycan expressions on cell surface. Graphical abstract.


Assuntos
Membrana Celular/química , Peroxidase do Rábano Silvestre/química , Lectinas/química , Nanotubos de Carbono/química , Polissacarídeos/análise , Técnicas Biossensoriais , Concanavalina A/química , Técnicas Eletroquímicas , Galactose/análise , Células HeLa , Humanos , Peróxido de Hidrogênio/química , Manose/análise , Oxirredução , Polissacarídeos/genética
20.
Plant Cell ; 33(8): 2794-2811, 2021 08 31.
Artigo em Inglês | MEDLINE | ID: mdl-34235541

RESUMO

Over 30 years ago, an intriguing posttranslational modification was found responsible for creating concanavalin A (conA), a carbohydrate-binding protein from jack bean (Canavalia ensiformis) seeds and a common carbohydrate chromatography reagent. ConA biosynthesis involves what was then an unprecedented rearrangement in amino-acid sequence, whereby the N-terminal half of the gene-encoded conA precursor (pro-conA) is swapped to become the C-terminal half of conA. Asparaginyl endopeptidase (AEP) was shown to be involved, but its mechanism was not fully elucidated. To understand the structural basis and consequences of circular permutation, we generated recombinant jack bean pro-conA plus jack bean AEP (CeAEP1) and solved crystal structures for each to 2.1 and 2.7 Å, respectively. By reconstituting conA biosynthesis in vitro, we prove CeAEP1 alone can perform both cleavage and cleavage-coupled transpeptidation to form conA. CeAEP1 structural analysis reveals how it is capable of carrying out both reactions. Biophysical assays illustrated that pro-conA is less stable than conA. This observation was explained by fewer intermolecular interactions between subunits in the pro-conA crystal structure and consistent with a difference in the prevalence for tetramerization in solution. These findings elucidate the consequences of circular permutation in the only posttranslation example known to occur in nature.


Assuntos
Concanavalina A/química , Concanavalina A/metabolismo , Cisteína Endopeptidases/química , Cisteína Endopeptidases/metabolismo , Precursores de Proteínas/metabolismo , Sítios de Ligação , Canavalia/enzimologia , Domínio Catalítico , Dicroísmo Circular , Concanavalina A/genética , Cristalografia por Raios X , Cisteína Endopeptidases/genética , Concentração de Íons de Hidrogênio , Metilmanosídeos/metabolismo , Modelos Moleculares , Conformação Proteica , Precursores de Proteínas/química , Precursores de Proteínas/genética , Estabilidade Proteica , Proteínas Recombinantes/genética , Proteínas Recombinantes/metabolismo , Soluções
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