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1.
Protein & Cell ; (12): 448-458, 2023.
Artigo em Inglês | WPRIM | ID: wpr-982526

RESUMO

The adenosine 5'-triphosphate (ATP)-binding cassette (ABC) transporter, IrtAB, plays a vital role in the replication and viability of Mycobacterium tuberculosis (Mtb), where its function is to import iron-loaded siderophores. Unusually, it adopts the canonical type IV exporter fold. Herein, we report the structure of unliganded Mtb IrtAB and its structure in complex with ATP, ADP, or ATP analogue (AMP-PNP) at resolutions ranging from 2.8 to 3.5 Å. The structure of IrtAB bound ATP-Mg2+ shows a "head-to-tail" dimer of nucleotide-binding domains (NBDs), a closed amphipathic cavity within the transmembrane domains (TMDs), and a metal ion liganded to three histidine residues of IrtA in the cavity. Cryo-electron microscopy (Cryo-EM) structures and ATP hydrolysis assays show that the NBD of IrtA has a higher affinity for nucleotides and increased ATPase activity compared with IrtB. Moreover, the metal ion located in the TM region of IrtA is critical for the stabilization of the conformation of IrtAB during the transport cycle. This study provides a structural basis to explain the ATP-driven conformational changes that occur in IrtAB.


Assuntos
Sideróforos/metabolismo , Ferro/metabolismo , Mycobacterium tuberculosis/metabolismo , Microscopia Crioeletrônica , Trifosfato de Adenosina/metabolismo , Transportadores de Cassetes de Ligação de ATP
2.
Chinese Journal of Biotechnology ; (12): 1061-1073, 2022.
Artigo em Chinês | WPRIM | ID: wpr-927763

RESUMO

In recent years, two novel proteins in the ribosomes of mycobacteria have been discovered by cryo-electron microscopy. The protein bS22 is located near the decoding center of the 30S subunit, and the protein bL37 is located near the peptidyl transferase center of the 50S subunit. Since these two proteins bind to conserved regions of the ribosome targeted by antibiotics, it is speculated that they might affect the binding of related drugs to these targets. Therefore, we knocked out the genes encoding these two proteins in wild-type Mycolicibacterium smegmatis mc2155 through homologous recombination, and then determined the growth curves of these mutants and their sensitivity to related antibiotics. The results showed that compared with the wild-type strain, the growth rate of these two mutants did not change significantly. However, mutant ΔbS22 showed increased sensitivity to capreomycin, kanamycin, amikacin, streptomycin, gentamicin, paromomycin, and hygromycin B, while mutant ΔbL37 showed increased sensitivity to linezolid. These changes in antibiotics sensitivity were restored by gene complementation. This study hints at the possibility of using ribosomal proteins bS22 and bL37 as targets for drug design.


Assuntos
Antibacterianos/farmacologia , Microscopia Crioeletrônica , Mycobacterium/genética , Proteínas Ribossômicas/genética , Ribossomos/metabolismo
3.
Int. j. morphol ; 39(6)dic. 2021.
Artigo em Inglês | LILACS | ID: biblio-1385552

RESUMO

SUMMARY: Humberto Fernández-Morán (1924-1999) a Venezuelan physician and biophysicist research, who developed the diamond knife. Furthermore he focused on improving the mechanical performance, accuracy and reliability of mocrotomes and ultramicrotomes which significantly advanced the development of electromagnetic lenses for electron microscopy based on superconducting technology. Promoter and founded of the Venezuelan Institute for Neurological and Brain Studies. He was a pioneer in electron ultra-cryomicroscopy field. Fernández-Morán taught and researched in University of Stockholm, Massachusetts Institute of Technology, Harvard University, Massachussetts General Hospital and the University of Chicago. He worked with NASA for the Apollo project in the field of physic-chemical analysis of lunar rocks.


RESUMEN: Humberto Fernández-Morán (1924-1999) médico venezolano e investigador biofísico, quien desarrolló el cuchillo de diamante. Además, se centró en mejorar el rendimiento mecánico, la precisión y la fiabilidad de los micrótomos y ultramicrótomos, lo que avanzó significativamente en el desarrollo de lentes electromagnéticos para microscopía electrónica basados en tecnología superconductora. Promotor y fundador del Instituto Venezolano de Estudios Neurológicos y Cerebrales. Fue pionero en el campo de la ultracriomicroscopía electrónica. Fernández-Morán enseñó e investigó en la Universidad de Estocolmo, el Instituto Tecnológico de Massachusetts, la Universidad de Harvard, el Hospital General de Massachussets y la Universidad de Chicago. Trabajó con la NASA para el proyecto Apollo en el campo del análisis físico-químico de rocas lunares.


Assuntos
Humanos , História do Século XX , Médicos/história , Instrumentos Cirúrgicos/história , Microscopia Crioeletrônica/história , Venezuela , Diamante
4.
Journal of Peking University(Health Sciences) ; (6): 425-433, 2021.
Artigo em Chinês | WPRIM | ID: wpr-942197

RESUMO

Cryo-electron microscopy (cryo-EM) imaging has the unique potential to bridge the gap between cellular and molecular biology. Therefore, cryo-EM three-dimensional (3D) reconstruction has been rapidly developed in recent several years and applied widely in life science research to reveal the structures of large macromolecular assemblies and cellular complexes, which is critical to understanding their functions at all scales. Although the technical breakthrough in recent years, for example, the introduction of the direct detection device (DDD) camera and the development of cryo-EM software tools, made the three cryo-EM pioneers share the 2017 Nobel Prize, several bottleneck problems still exist that hamper the further increase of the resolution of single-particle reconstruction and hold back the application of in situ subnanometer structure determination by cryo-tomography. Radiation damage is still the key limiting factor in cryo-EM. In order to minimize the radiation damage and preserve as much resolution as possible, the imaging conditions of a low dose and weak contrast make cryo-EM images extremely noisy with very low signal-to-noise ratios (SNR), generally about 0.1. The high noise will obscure the fine details in cryo-EM images or reconstructed maps. Thus, a method to reduce the level of noise and improve the resolution has become an important issue. In this paper, we systematically reviewed and compared some robust filters in the cryo-EM field of two aspects, single-particle analysis (SPA) and cryo-electron tomography (cryo-ET), and especially studied their applications, such as, 3D reconstruction, visualization, structural analysis, and interpretation. Conventional approaches to noise reduction in cryo-EM imaging include the use of Gaussian, median, and bilateral filters, among other means. A Gaussian filter selects an appropriate filter kernel to conduct spatial convolution with a noisy image. Although noise with larger standard deviations in cryo-EM images can be suppressed and satisfactory performance is achieved in certain cases, this filter also blurs the images and over-smooths small-scale image features. This is especially detrimental when precise quantitative information needs to be extracted. Unlike a Gaussian filter, a median filter is based on the order statistics of the image and selects the median intensity in a window of the adjacent pixels to denoise the image. Although this filter is robust to outliers, it suffers from aliasing problems that possibly result in incorrect information for cryo-EM structure interpretation. A bilateral filter is a nonlinear filter that performs spatial weighted averaging and is more selective in the pixels allowing to contribute to the weighted sum, excluding the high frequency noise from the smoothing process. Thus, this filter can be used to smooth out noise while maintaining the edge details, which is similar to an anisotropic diffusion filter, and distinct from a Gaussian filter but its utility will be limited when the SNR of a cryo-EM image is very low. Generally, spatial filtering methods have the disadvantage of losing image resolution when reducing noise. A wavelet transform can exploit the wavelet's natural ability to separate a signal from noise at multiple image scales to allow for joint resolution in both the spatial and frequency domains, and thus has the potential to outperform existing methods. The modified wavelet shrinkage filter we developed can offer a remarkable improvement in image quality with a good compromise between detail preservation and noise smoothing. We expect that our review study on different filters can provide benefits to cryo-EM applications and the interpretation of biological structures.


Assuntos
Algoritmos , Microscopia Crioeletrônica , Processamento de Imagem Assistida por Computador , Distribuição Normal , Razão Sinal-Ruído , Tomografia Computadorizada por Raios X
5.
Caracas; Observatorio Nacional de Ciencia, Tecnología e Innovación; 22 may. 2020. 24-29 p. (Observatorio del Conocimiento. Revista Especializada en Gestión Social del Conocimiento, 5, 1).
Monografia em Espanhol | LIVECS, LILACS | ID: biblio-1119076

RESUMO

Este ensayo tiene como objetivo discutir los modelos de propuestas de vacunas contra la SARS-CoV-2 utilizando técnicas de Crio-TEM. Para ello se fundamenta en las ideas de Humberto Fernández-Moran cuando decía, "le llegó su hora a las biomoléculas", su Criomicroscopía Electrónica de Transmisión (Crio-MET) pasó de ser una técnica engorrosa y descriptiva, a ser fácil, estructural y más apropiada para los estudios de las macromoléculas en suspensión a alta resolución cercano al nivel atómico. Después de 50 años las técnicas propuestas y desarrolladas por este ilustre venezolano, son hoy en día vigente y de gran importancia ya que han servido de base a nuevas áreas de estudio como la farmacología molecular basadas en estos principios biofísicos. El Dr. Fernández-Moran logró predecir que "a temperaturas de Helio líquido (-180 °C) y alta velocidad de congelamiento, se podrían analizar estructuras biológicas a alta resolución y en estado dinámico e hidratado libre de cristales de hielo". La Criomicroscopía Electrónica de Transmisión (Crio-MET) es un método biofísico que se emplea para el estudio de biomoléculas y complejos moleculares congelados-hidratados a resoluciones cercanas al nivel atómico. Esta técnica trajo consigo la apertura de nuevas investigaciones en Farmacología Molecular. Su aplicación en el estudio y diseño de anticuerpos moleculares han sido exitosos en la formulación de nuevos fármacos de alta especificad sin la producción de los conocidos efectos secundarios. Hoy en día la Farmacología Molecular ha logrado grandes avances en la posible producción vacunas de enfermedades infecto contagiosas que afectan a la humanidad(AU)


This essay aims to discuss models of SARS-CoV-2 vac-cine proposals using Cryo-TEM techniques. It is based on ideas Humberto Fernández Moran; when he said, "time has come for biomolecules", his Electronic Cryomicroscopy Transmission, (Cryo-TEM), went from being a cumbersome and descriptive technique to being easy, struc-tural and more appropriate for studies of macromolecules in high resolution suspension close to atomic level. After 50 years the techniques proposed and developed by this illustri-ous Venezuelan, are today valid and of great importance since they have served as a basis for new areas of study, such as molecular pharmacology based on these biophysical principles. Dr. Fernandez Moran managed to predict that "at liquid Helium temperatures (-180 ° C) and high freezing speed, biological structures could be analyzed at high resolution and in a dy-namic and hydrated state free of ice crystals." Electronic Cryo-microscopy Transmission, (Cry-oTEM) is a biophysical method that is used to study biomol-ecules and frozen-hydrated molecular complexes at resolu-tions close to the atomic level. This technique brought with it the opening of new research in Molecular Pharmacology. Its application in the study and design of molecular antibodies has been successful in the for-mulation of new high-specific drugs without the production of the known side effects. Today, molecular pharmacology has made great progress in the possible production of vaccines in infectious contagious diseas-es that affect humanity(AU)


Assuntos
Humanos , Vacinas/imunologia , Infecções por Coronavirus/tratamento farmacológico , Microscopia Crioeletrônica/métodos
6.
Journal of Zhejiang University. Medical sciences ; (6): 39-43, 2019.
Artigo em Chinês | WPRIM | ID: wpr-775256

RESUMO

G protein-coupled receptors(GPCRs)represent the largest class of cell surface receptors,mediating wide range of cellular and physiological processes through their transducers,G proteins and the-arrestins participate in almost all pathological processes. Recent technological advances are revolutionizing the utility of cryo-electron microscopy(cryo-EM),leading to a tremendous progress in the structural studies of biological macromolecules and cryo-EM has played a leading role in the structural biology of GPCR signaling complex. New discoveries of high-resolution threedimensional structures of GPCR signaling complexes based on cryo-EM have emerged vigorously,which depict the common structural characteristics of intermolecular interaction between GPCR and G protein complex-the conformational changes of the transmembrane helix 6 of receptors,and also demonstrate the structural basis of G protein subtype selectivity. Single-particle cryo-EM becomes an efficient tool for identifying the molecular mechanism of receptor-ligand interaction,providing important information for understanding GPCR signaling and the structure-based drug design.


Assuntos
Microscopia Crioeletrônica , Ligação Proteica , Estrutura Terciária de Proteína , Receptores Acoplados a Proteínas G , Química
7.
Experimental Neurobiology ; : 658-669, 2019.
Artigo em Inglês | WPRIM | ID: wpr-785791

RESUMO

Anoctamin1 (ANO1) also known as TMEM16A is a transmembrane protein that functions as a Ca²⁺ activated chloride channel. Recently, the structure determination of a fungal Nectria haematococca TMEM16 (nhTMEM16) scramblase by X-ray crystallography and a mouse ANO1 by cryo-electron microscopy has provided the insight in molecular architecture underlying phospholipid scrambling and Ca²⁺ binding. Because the Ca²⁺ binding motif is embedded inside channel protein according to defined structure, it is still unclear how intracellular Ca²⁺ moves to its deep binding pocket effectively. Here we show that EF-hand like region containing multiple acidic amino acids at the N-terminus of ANO1 is a putative site regulating the activity of ANO1 by Ca²⁺ and voltage. The EF-hand like region of ANO1 is highly homologous to the canonical EF hand loop in calmodulin that contains acidic residues in key Ca²⁺-coordinating positions in the canonical EF hand. Indeed, deletion and Ala-substituted mutation of this region resulted in a significant reduction in the response to Ca²⁺ and changes in its key biophysical properties evoked by voltage pulses. Furthermore, only ANO1 and ANO2, and not the other TMEM16 isoforms, contain the EF-hand like region and are activated by Ca²⁺. Moreover, the molecular modeling analysis supports that EF-hand like region could play a key role during Ca²⁺ transfer. Therefore, these findings suggest that EF-hand like region in ANO1 coordinates with Ca²⁺ and modulate the activation by Ca²⁺ and voltage.


Assuntos
Animais , Camundongos , Aminoácidos Acídicos , Cálcio , Calmodulina , Canais de Cloreto , Microscopia Crioeletrônica , Cristalografia por Raios X , Motivos EF Hand , Modelos Moleculares , Mutagênese , Nectria , Isoformas de Proteínas
8.
Protein & Cell ; (12): 553-567, 2018.
Artigo em Inglês | WPRIM | ID: wpr-757973

RESUMO

ATP-sensitive potassium channels (K) are energy sensors on the plasma membrane. By sensing the intracellular ADP/ATP ratio of β-cells, pancreatic K channels control insulin release and regulate metabolism at the whole body level. They are implicated in many metabolic disorders and diseases and are therefore important drug targets. Here, we present three structures of pancreatic K channels solved by cryo-electron microscopy (cryo-EM), at resolutions ranging from 4.1 to 4.5 Å. These structures depict the binding site of the antidiabetic drug glibenclamide, indicate how Kir6.2 (inward-rectifying potassium channel 6.2) N-terminus participates in the coupling between the peripheral SUR1 (sulfonylurea receptor 1) subunit and the central Kir6.2 channel, reveal the binding mode of activating nucleotides, and suggest the mechanism of how Mg-ADP binding on nucleotide binding domains (NBDs) drives a conformational change of the SUR1 subunit.


Assuntos
Animais , Camundongos , Trifosfato de Adenosina , Metabolismo , Sequência de Aminoácidos , Sítios de Ligação , Microscopia Crioeletrônica , Ligantes , Mesocricetus , Modelos Moleculares , Nucleotídeos , Metabolismo , Pâncreas , Metabolismo , Canais de Potássio Corretores do Fluxo de Internalização , Química , Metabolismo , Ligação Proteica , Multimerização Proteica , Estrutura Quaternária de Proteína , Subunidades Proteicas , Química , Metabolismo , Células Sf9 , Spodoptera , Receptores de Sulfonilureias , Química , Metabolismo
9.
Protein & Cell ; (12): 629-639, 2018.
Artigo em Inglês | WPRIM | ID: wpr-756929

RESUMO

Mechanosensitive (MS) channels are extensively studied membrane protein for maintaining intracellular homeostasis through translocating solutes and ions across the membrane, but its mechanisms of channel gating and ion selectivity are largely unknown. Here, we identified the YnaI channel as the Na/K cation-selective MS channel and solved its structure at 3.8 Å by cryo-EM single-particle method. YnaI exhibits low conductance among the family of MS channels in E. coli, and shares a similar overall heptamer structure fold with previously studied MscS channels. By combining structural based mutagenesis, quantum mechanical and electrophysiological characterizations, we revealed that ion selective filter formed by seven hydrophobic methionine (YnaI) in the transmembrane pore determined ion selectivity, and both ion selectivity and gating of YnaI channel were affected by accompanying anions in solution. Further quantum simulation and functional validation support that the distinct binding energies with various anions to YnaI facilitate Na/K pass through, which was defined as binding-block mechanism. Our structural and functional studies provided a new perspective for understanding the mechanism of how MS channels select ions driven by mechanical force.


Assuntos
Microscopia Crioeletrônica , Proteínas de Escherichia coli , Química , Metabolismo , Canais Iônicos , Química , Metabolismo , Mecanotransdução Celular , Modelos Moleculares , Teoria Quântica
10.
Protein & Cell ; (12): 834-847, 2017.
Artigo em Inglês | WPRIM | ID: wpr-756924

RESUMO

TRPML1 channel is a non-selective group-2 transient receptor potential (TRP) channel with Ca permeability. Located mainly in late endosome and lysosome of all mammalian cell types, TRPML1 is indispensable in the processes of endocytosis, membrane trafficking, and lysosome biogenesis. Mutations of TRPML1 cause a severe lysosomal storage disorder called mucolipidosis type IV (MLIV). In the present study, we determined the cryo-electron microscopy (cryo-EM) structures of Mus musculus TRPML1 (mTRPML1) in lipid nanodiscs and Amphipols. Two distinct states of mTRPML1 in Amphipols are added to the closed state, on which could represent two different confirmations upon activation and regulation. The polycystin-mucolipin domain (PMD) may sense the luminal/extracellular stimuli and undergo a "move upward" motion during endocytosis, thus triggering the overall conformational change in TRPML1. Based on the structural comparisons, we propose TRPML1 is regulated by pH, Ca, and phosphoinositides in a combined manner so as to accommodate the dynamic endocytosis process.


Assuntos
Animais , Humanos , Camundongos , Cálcio , Metabolismo , Microscopia Crioeletrônica , Endocitose , Endossomos , Metabolismo , Expressão Gênica , Células HEK293 , Concentração de Íons de Hidrogênio , Lisossomos , Metabolismo , Modelos Biológicos , Mucolipidoses , Genética , Metabolismo , Patologia , Nanoestruturas , Química , Fosfatidilinositóis , Metabolismo , Transgenes , Canais de Potencial de Receptor Transitório , Química , Genética , Metabolismo
11.
Protein & Cell ; (12): 46-62, 2016.
Artigo em Inglês | WPRIM | ID: wpr-757162

RESUMO

Single particle analysis, which can be regarded as an average of signals from thousands or even millions of particle projections, is an efficient method to study the three-dimensional structures of biological macromolecules. An intrinsic assumption in single particle analysis is that all the analyzed particles must have identical composition and conformation. Thus specimen heterogeneity in either composition or conformation has raised great challenges for high-resolution analysis. For particles with multiple conformations, inaccurate alignments and orientation parameters will yield an averaged map with diminished resolution and smeared density. Besides extensive classification approaches, here based on the assumption that the macromolecular complex is made up of multiple rigid modules whose relative orientations and positions are in slight fluctuation around equilibriums, we propose a new method called as local optimization refinement to address this conformational heterogeneity for an improved resolution. The key idea is to optimize the orientation and shift parameters of each rigid module and then reconstruct their three-dimensional structures individually. Using simulated data of 80S/70S ribosomes with relative fluctuations between the large (60S/50S) and the small (40S/30S) subunits, we tested this algorithm and found that the resolutions of both subunits are significantly improved. Our method provides a proof-of-principle solution for high-resolution single particle analysis of macromolecular complexes with dynamic conformations.


Assuntos
Humanos , Algoritmos , Simulação por Computador , Microscopia Crioeletrônica , Métodos , Cristalografia por Raios X , Substâncias Macromoleculares , Química , Modelos Moleculares , Conformação Proteica , Ribossomos , Química
12.
Protein & Cell ; (12): 878-887, 2016.
Artigo em Inglês | WPRIM | ID: wpr-757348

RESUMO

Mechanistic target of rapamycin (mTOR) complex 1 (mTORC1) integrates signals from growth factors, cellular energy levels, stress and amino acids to control cell growth and proliferation through regulating translation, autophagy and metabolism. Here we determined the cryo-electron microscopy structure of human mTORC1 at 4.4 Å resolution. The mTORC1 comprises a dimer of heterotrimer (mTOR-Raptor-mLST8) mediated by the mTOR protein. The complex adopts a hollow rhomboid shape with 2-fold symmetry. Notably, mTORC1 shows intrinsic conformational dynamics. Within the complex, the conserved N-terminal caspase-like domain of Raptor faces toward the catalytic cavity of the kinase domain of mTOR. Raptor shows no caspase activity and therefore may bind to TOS motif for substrate recognition. Structural analysis indicates that FKBP12-Rapamycin may generate steric hindrance for substrate entry to the catalytic cavity of mTORC1. The structure provides a basis to understand the assembly of mTORC1 and a framework to characterize the regulatory mechanism of mTORC1 pathway.


Assuntos
Humanos , Linhagem Celular , Microscopia Crioeletrônica , Métodos , Alvo Mecanístico do Complexo 1 de Rapamicina , Complexos Multiproteicos , Química , Estrutura Quaternária de Proteína , Serina-Treonina Quinases TOR , Química
13.
Int. braz. j. urol ; 41(2): 367-372, Mar-Apr/2015. tab, graf
Artigo em Inglês | LILACS | ID: lil-748287

RESUMO

Objective The aim of active surveillance of early prostate cancer is to individualize therapy by selecting for curative treatment only patients with significant cancer. Epstein’s criteria for prediction of clinically insignificant cancer in surgical specimens are widely used. Epstein’s criterion “no single core with >50% cancer” has no correspondence in linear extent. The aim of this study is to find a possible correspondence. Materials and Methods From a total of 401 consecutive patients submitted to radical prostatectomy, 17 (4.2%) met criteria for insignificant cancer in the surgical specimen. The clinicopathologic findings in the correspondent biopsies were compared with Epstein’s criteria for insignificant cancer. Cancer in a single core was evaluated in percentage as well as linear extent in mm. Results Comparing the clinicopathologic findings with Epstein’s criteria predictive of insignificant cancer, there was 100% concordance for clinical stage T1c, no Gleason pattern 4 or 5, ≤2 cores with cancer, and no single core with >50% cancer. However, only 25% had density ≤0.15. The mean, median and range of the maximum length of cancer in a single core in mm were 1.19, 1, and 0.5-2.5, respectively. Additionally, the mean, median, and range of length of cancer in all cores in mm were 1.47, 1.5, and 0.5-3, respectively. Conclusion To pathologists that use Epstein’s criteria predictive of insignificant cancer and measure linear extent in mm, our study favors that “no single core with >50% cancer” may correspond to >2.5 mm in linear extent. .


Assuntos
Policetídeo Sintases/química , Policetídeo Sintases/ultraestrutura , Streptomyces/enzimologia , Biocatálise , Domínio Catalítico , Microscopia Crioeletrônica , Ácido Graxo Sintases/química , Modelos Moleculares , Macrolídeos/metabolismo , Policetídeo Sintases/metabolismo
14.
Protein & Cell ; (12): 394-407, 2014.
Artigo em Inglês | WPRIM | ID: wpr-757494

RESUMO

The in vivo assembly of ribosomal subunits is a highly complex process, with a tight coordination between protein assembly and rRNA maturation events, such as folding and processing of rRNA precursors, as well as modifications of selected bases. In the cell, a large number of factors are required to ensure the efficiency and fidelity of subunit production. Here we characterize the immature 30S subunits accumulated in a factor-null Escherichia coli strain (∆rsgA∆rbfA). The immature 30S subunits isolated with varying salt concentrations in the buffer system show interesting differences on both protein composition and structure. Specifically, intermediates derived under the two contrasting salt conditions (high and low) likely reflect two distinctive assembly stages, the relatively early and late stages of the 3' domain assembly, respectively. Detailed structural analysis demonstrates a mechanistic coupling between the maturation of the 5' end of the 17S rRNA and the assembly of the 30S head domain, and attributes a unique role of S5 in coordinating these two events. Furthermore, our structural results likely reveal the location of the unprocessed terminal sequences of the 17S rRNA, and suggest that the maturation events of the 17S rRNA could be employed as quality control mechanisms on subunit production and protein translation.


Assuntos
Microscopia Crioeletrônica , Escherichia coli , Metabolismo , Proteínas de Escherichia coli , Genética , Metabolismo , GTP Fosfo-Hidrolases , Genética , Metabolismo , Espectrometria de Massas , Estrutura Secundária de Proteína , Estrutura Terciária de Proteína , RNA Ribossômico , Metabolismo , Proteínas Ribossômicas , Química , Genética , Metabolismo , Subunidades Ribossômicas Menores de Bactérias , Química , Metabolismo , Sais , Química
15.
Protein & Cell ; (12): 432-444, 2013.
Artigo em Inglês | WPRIM | ID: wpr-757791

RESUMO

Group II chaperonins, which assemble as double-ring complexes, assist in the refolding of nascent peptides or denatured proteins in an ATP-dependent manner. The molecular mechanism of group II chaperonin assembly and thermal stability is yet to be elucidated. Here, we selected the group II chaperonins (cpn-α and cpn-β), also called thermosomes, from Acidianus tengchongensis and investigated their assembly and thermal stability. We found that the binding of ATP or its analogs contributed to the successful assembly of thermosomes and enhanced their thermal stabilities. Cpn-β is more thermally stable than cpn-α, while the thermal stability of the hetero thermosome cpn-αβ is intermediate. Cryo-electron microscopy reconstructions of cpn-α and cpn-β revealed the interwoven densities of their non-conserved flexible N/C-termini around the equatorial planes. The deletion or swapping of their termini and pH-dependent thermal stability assays revealed the key role of the termini electrostatic interactions in the assembly and thermal stability of the thermosomes.


Assuntos
Acidianus , Metabolismo , Trifosfato de Adenosina , Metabolismo , Sequência de Aminoácidos , Microscopia Crioeletrônica , Concentração de Íons de Hidrogênio , Dados de Sequência Molecular , Mutação , Nucleotídeos , Metabolismo , Ligação Proteica , Dobramento de Proteína , Estabilidade Proteica , Estrutura Quaternária de Proteína , Alinhamento de Sequência , Eletricidade Estática , Temperatura , Termossomos , Química , Genética , Metabolismo
16.
Protein & Cell ; (12): 833-845, 2013.
Artigo em Inglês | WPRIM | ID: wpr-757562

RESUMO

Cytomegalovirus (CMV) is distinct among members of the Herpesviridae family for having the largest dsDNA genome (230 kb). Packaging of large dsDNA genome is known to give rise to a highly pressurized viral capsid, but molecular interactions conducive to the formation of CMV capsid resistant to pressurization have not been described. Here, we report a cryo electron microscopy (cryoEM) structure of the murine cytomegalovirus (MCMV) capsid at a 9.1 Å resolution and describe the molecular interactions among the ∼3000 protein molecules in the MCMV capsid at the secondary structure level. Secondary structural elements are resolved to provide landmarks for correlating with results from sequence-based prediction and for structure-based homology modeling. The major capsid protein (MCP) upper domain (MCPud) contains α-helices and β-sheets conserved with those in MCPud of herpes simplex virus type 1 (HSV-1), with the largest differences identified as a "saddle loop" region, located at the tip of MCPud and involved in interaction with the smallest capsid protein (SCP). Interactions among the bacteriophage HK97-like floor domain of MCP, the middle domain of MCP, the hook and clamp domains of the triplex proteins (hoop and clamp domains of TRI-1 and clamp domain of TRI-2) contribute to the formation of a mature capsid. These results offer a framework for understanding how cytomegalovirus uses various secondary structural elements of its capsid proteins to build a robust capsid for packaging its large dsDNA genome inside and for attaching unique functional tegument proteins outside.


Assuntos
Sequência de Aminoácidos , Proteínas do Capsídeo , Química , Metabolismo , Microscopia Crioeletrônica , Modelos Moleculares , Dados de Sequência Molecular , Muromegalovirus , Química , Ligação Proteica , Multimerização Proteica , Estrutura Quaternária de Proteína , Estrutura Terciária de Proteína
17.
Journal of Biomedical Engineering ; (6): 1178-1182, 2010.
Artigo em Chinês | WPRIM | ID: wpr-260914

RESUMO

Advances in cryo-electron microscopy (Cryo-EM) and single-particle reconstruction have led to increasingly high resolutions of macromolecular three-dimensional reconstruction. However, for keeping up the continuing improvements in resolution, it is necessary to increase the number of particles included in performing reconstructions. Manual selection of particles, even assisted by computer, is a bottleneck of single-particle reconstruction. Cryo-EM image has low signal-to-noise ratio and low contrast, which leads to difficulty in particle picking. Various approaches have been developed to address the problem of automatic particle. This paper describes the application of template-based method, edge based method, feature-based method, neural network, DoG-based and simulated annealing approach in particle picking. The characteristics of various approaches are discussed, and the future development is presented.


Assuntos
Animais , Humanos , Processamento Eletrônico de Dados , Microscopia Crioeletrônica , Métodos , Processamento de Imagem Assistida por Computador , Métodos , Imageamento Tridimensional , Substâncias Macromoleculares , Conformação Molecular , Tamanho da Partícula , Ribossomos , Química
18.
Protein & Cell ; (12): 48-58, 2010.
Artigo em Inglês | WPRIM | ID: wpr-757707

RESUMO

Rabbit hemorrhagic disease was described in China in 1984 and can cause hemorrhagic necrosis of the liver within two or three days after infection. The etiological agent, rabbit hemorrhagic disease virus (RHDV), belongs to the Lagovirus genus in the Caliciviridae family. Compared to other calicivirus, such as rNV and SMSV, the structure of Lagovirus members is not well characterized. In this report, structures of two types of wild RHDV particles, the intact virion and the core-like particle (CLP), were reconstructed by cryo-electron microscopy at 11 &0A and 17 &0A, respectively. This is the first time the 3D structure of wild caliciviruses CLP has been provided, and the 3D structure of intact RHDV virion is the highest resolution structure in Lagovirus. Comparison of the intact virion and CLP structures clearly indicated that CLP was produced from the intact virion with the protrusion dissociated. In contrast with the crystal structures of recombinant Norovirus and San Miguel sea lion virus, the capsomers of RHDV virion exhibited unique structural features and assembly modes. Both P1 and P2 subdomains have interactions inside the AB capsomer, while only P2 subdomains have interaction inside CC capsomer. The pseudo atomic models of RHDV capsomers were constructed by homology modeling and density map fitting, and the rotation of RHDV VP60 P domain with respect to its S domain, compared with SMSV, was observed. Collectively, our cryo-electron microscopic studies of RHDV provide close insight into the structure of Lagovirus, which is important for functional analysis and better vaccine development in the future.


Assuntos
Animais , Coelhos , Sequência de Aminoácidos , Infecções por Caliciviridae , Virologia , China , Microscopia Crioeletrônica , Vírus da Doença Hemorrágica de Coelhos , Dados de Sequência Molecular , Alinhamento de Sequência , Proteínas Estruturais Virais , Química , Vírion
19.
Arch. venez. farmacol. ter ; 27(1): 2-4, 2008. ilus
Artigo em Espanhol | LILACS | ID: lil-517094

RESUMO

La estructura de los filamentos gruesos de músculo estriado en el estado relajado ha sido finalmente comprendida a nivel molecular. La estructura revela interacciones intra- e intermoleculares que mantienen las cabezas de miosina unidas formando hélices adosadas a la superficie del filamento grueso. La fosforilación de las cadenas ligeras reguladoras de la miosina induce el debilitamiento de estas interacciones permitiendo la activación de los filamentos gruesos, produciendo el desorden y la liberación de las cabezas de miosina, y permitiendo su interacción con los filamentos delgados. Estos resultados abren las puertas para la comprensión del mecanismo molecular de la regulación ligada a miosina de la contracción muscular, de relevancia ya que las mutaciones asociadas a la cardiomiopatía hipertrófica medioventricular están ubicadas cercanas al sitio de fosforilación en las cadenas ligeras reguladoras de miosina.


Assuntos
Microscopia Crioeletrônica , Contração Muscular , Músculos , Miosinas , Fosforilação
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