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1.
J Chem Inf Model ; 64(13): 5262-5272, 2024 Jul 08.
Artigo em Inglês | MEDLINE | ID: mdl-38869471

RESUMO

Venezuelan equine encephalitis virus (VEEV) is a highly virulent pathogen whose nuclear localization signal (NLS) sequence from capsid protein binds to the host importin-α transport protein and blocks nuclear import. We studied the molecular mechanisms by which two small ligands, termed I1 and I2, interfere with the binding of VEEV's NLS peptide to importin-α protein. To this end, we performed all-atom replica exchange molecular dynamics simulations probing the competitive binding of the VEEV coreNLS peptide and I1 or I2 ligand to the importin-α major NLS binding site. As a reference, we used our previous simulations, which examined noncompetitive binding of the coreNLS peptide or the inhibitors to importin-α. We found that both inhibitors completely abrogate the native binding of the coreNLS peptide, forcing it to adopt a manifold of nonnative loosely bound poses within the importin-α major NLS binding site. Both inhibitors primarily destabilize the native coreNLS binding by masking its amino acids rather than competing with it for binding to importin-α. Because I2, in contrast to I1, binds off-site localizing on the edge of the major NLS binding site, it inhibits fewer coreNLS native binding interactions than I1. Structural analysis is supported by computations of the free energies of the coreNLS peptide binding to importin-α with or without competition from the inhibitors. Specifically, both inhibitors reduce the free energy gain from coreNLS binding, with I1 causing significantly larger loss than I2. To test our simulations, we performed AlphaScreen experiments measuring IC50 values for both inhibitors. Consistent with in silico results, the IC50 value for I1 was found to be lower than that for I2. We hypothesize that the inhibitory action of I1 and I2 ligands might be specific to the NLS from VEEV's capsid protein.


Assuntos
Ligação Competitiva , Simulação de Dinâmica Molecular , Sinais de Localização Nuclear , alfa Carioferinas , alfa Carioferinas/metabolismo , alfa Carioferinas/química , alfa Carioferinas/antagonistas & inibidores , Ligantes , Sinais de Localização Nuclear/química , Vírus da Encefalite Equina Venezuelana/metabolismo , Vírus da Encefalite Equina Venezuelana/química , Ligação Proteica , Peptídeos/química , Peptídeos/metabolismo , Peptídeos/farmacologia , Sequência de Aminoácidos
2.
Nature ; 598(7882): 677-681, 2021 10.
Artigo em Inglês | MEDLINE | ID: mdl-34646021

RESUMO

Venezuelan equine encephalitis virus (VEEV) is an enveloped RNA virus that causes encephalitis and potentially mortality in infected humans and equines1. At present, no vaccines or drugs are available that prevent or cure diseases caused by VEEV. Low-density lipoprotein receptor class A domain-containing 3 (LDLRAD3) was recently identified as a receptor for the entry of VEEV into host cells2. Here we present the cryo-electron microscopy structure of the LDLRAD3 extracellular domain 1 (LDLRAD3-D1) in complex with VEEV virus-like particles at a resolution of 3.0 Å. LDLRAD3-D1 has a cork-like structure and is inserted into clefts formed between adjacent VEEV E2-E1 heterodimers in the viral-surface trimer spikes through hydrophobic and polar contacts. Mutagenesis studies of LDLRAD3-D1 identified residues that are involved in the key interactions with VEEV. Of note, some of the LDLRAD3-D1 mutants showed a significantly increased binding affinity for VEEV, suggesting that LDLRAD3-D1 may serve as a potential scaffold for the development of inhibitors of VEEV entry. Our structures provide insights into alphavirus assembly and the binding of receptors to alphaviruses, which may guide the development of therapeutic countermeasures against alphaviruses.


Assuntos
Vírus da Encefalite Equina Venezuelana/química , Receptores de LDL/química , Receptores Virais/química , Microscopia Crioeletrônica , Humanos , Modelos Moleculares , Estrutura Secundária de Proteína , Internalização do Vírus
3.
Nature ; 598(7882): 672-676, 2021 10.
Artigo em Inglês | MEDLINE | ID: mdl-34646020

RESUMO

LDLRAD3 is a recently defined attachment and entry receptor for Venezuelan equine encephalitis virus (VEEV)1, a New World alphavirus that causes severe neurological disease in humans. Here we present near-atomic-resolution cryo-electron microscopy reconstructions of VEEV virus-like particles alone and in a complex with the ectodomains of LDLRAD3. Domain 1 of LDLRAD3 is a low-density lipoprotein receptor type-A module that binds to VEEV by wedging into a cleft created by two adjacent E2-E1 heterodimers in one trimeric spike, and engages domains A and B of E2 and the fusion loop in E1. Atomic modelling of this interface is supported by mutagenesis and anti-VEEV antibody binding competition assays. Notably, VEEV engages LDLRAD3 in a manner that is similar to the way that arthritogenic alphaviruses bind to the structurally unrelated MXRA8 receptor, but with a much smaller interface. These studies further elucidate the structural basis of alphavirus-receptor interactions, which could inform the development of therapies to mitigate infection and disease against multiple members of this family.


Assuntos
Vírus da Encefalite Equina Venezuelana/química , Receptores de LDL/química , Receptores Virais/química , Sequência de Aminoácidos , Animais , Linhagem Celular , Microscopia Crioeletrônica , Humanos , Camundongos , Modelos Moleculares , Estrutura Secundária de Proteína , Alinhamento de Sequência , Internalização do Vírus
4.
Antiviral Res ; 182: 104905, 2020 10.
Artigo em Inglês | MEDLINE | ID: mdl-32800880

RESUMO

There is a pressing need for new vaccines against alphaviruses, which can cause fatal encephalitis (Venezuelan equine encephalitis virus (VEEV) and others) and severe arthralgia (e.g. Chikungunya virus, CHIKV). These positive-strand RNA viruses are diverse and evolve rapidly, meaning that the sequence of any vaccine should cover multiple strains that may be quite different from any previous isolate. Here, consensus proteins were produced to represent the common physicochemical properties (PCPs) of the epitope rich, B domain of the E2 envelope protein. PCP-consensus proteins were based on multiple strains of VEEV (VEEVcon) and CHIKV (CHIKVcon) or the conserved PCPs of 24 different alphaviruses (AllAVcon). The AllAVcon was altered to include binding sites for neutralizing antibodies of both VEEV and CHIKV strains (Mosaikcon). All four designed proteins were produced solubly in E. coli and purified. They formed the ß-strand core expected from experimental structures of this region of the wild type E2 proteins as indicated by circular dichroism (CD) spectra. Furthermore, the CHIKVcon protein bound to a structure dependent, CHIKV neutralizing monoclonal antibody. The AllAVcon and Mosaikcon proteins bound to polyclonal antibodies generated during natural infection with either VEEV or CHIKV, indicating they contained epitopes of both serotypes. The Mosaikcon antigen induced antibodies in rabbit sera that recognized both the VEEVcon and CHIKVcon spike proteins. These PCP-consensus antigens are promising starting points for novel, broad-spectrum alphavirus vaccines.


Assuntos
Alphavirus/química , Alphavirus/imunologia , Anticorpos Antivirais/sangue , Proteínas Virais/química , Proteínas Virais/imunologia , Vacinas Virais/imunologia , Animais , Antígenos Virais/química , Antígenos Virais/imunologia , Vírus Chikungunya/química , Vírus Chikungunya/imunologia , Dicroísmo Circular , Consenso , Desenho de Fármacos , Vírus da Encefalite Equina Venezuelana/química , Vírus da Encefalite Equina Venezuelana/imunologia , Epitopos/imunologia , Adjuvante de Freund/administração & dosagem , Masculino , Espectrometria de Massas , Coelhos , Vacinas Virais/administração & dosagem
5.
Nucleic Acids Res ; 46(7): 3657-3670, 2018 04 20.
Artigo em Inglês | MEDLINE | ID: mdl-29361131

RESUMO

Alphaviruses are mosquito-borne pathogens that cause human diseases ranging from debilitating arthritis to lethal encephalitis. Studies with Sindbis virus (SINV), which causes fever, rash, and arthralgia in humans, and Venezuelan equine encephalitis virus (VEEV), which causes encephalitis, have identified RNA structural elements that play key roles in replication and pathogenesis. However, a complete genomic structural profile has not been established for these viruses. We used the structural probing technique SHAPE-MaP to identify structured elements within the SINV and VEEV genomes. Our SHAPE-directed structural models recapitulate known RNA structures, while also identifying novel structural elements, including a new functional element in the nsP1 region of SINV whose disruption causes a defect in infectivity. Although RNA structural elements are important for multiple aspects of alphavirus biology, we found the majority of RNA structures were not conserved between SINV and VEEV. Our data suggest that alphavirus RNA genomes are highly divergent structurally despite similar genomic architecture and sequence conservation; still, RNA structural elements are critical to the viral life cycle. These findings reframe traditional assumptions about RNA structure and evolution: rather than structures being conserved, alphaviruses frequently evolve new structures that may shape interactions with host immune systems or co-evolve with viral proteins.


Assuntos
Vírus da Encefalite Equina Venezuelana/genética , RNA/genética , Sindbis virus/genética , Replicação Viral/genética , Alphavirus/química , Alphavirus/genética , Alphavirus/patogenicidade , Animais , Encefalite/genética , Encefalite/virologia , Vírus da Encefalite Equina Venezuelana/química , Vírus da Encefalite Equina Venezuelana/patogenicidade , Genoma Viral/genética , Cavalos/virologia , Humanos , Conformação de Ácido Nucleico , RNA/química , Sindbis virus/química , Sindbis virus/patogenicidade
6.
Antiviral Res ; 131: 49-60, 2016 07.
Artigo em Inglês | MEDLINE | ID: mdl-27105836

RESUMO

The mosquito-borne New World alphavirus, Venezuelan equine encephalitis virus (VEEV) is a Category B select agent with no approved vaccines or therapies to treat infected humans. Therefore it is imperative to identify novel targets that can be targeted for effective therapeutic intervention. We aimed to identify and validate interactions of VEEV nonstructural protein 3 (nsP3) with host proteins and determine the consequences of these interactions to viral multiplication. We used a HA tagged nsP3 infectious clone (rTC-83-nsP3-HA) to identify and validate two RNA helicases: DDX1 and DDX3 that interacted with VEEV-nsP3. In addition, DDX1 and DDX3 knockdown resulted in a decrease in infectious viral titers. Furthermore, we propose a functional model where the nsP3:DDX3 complex interacts with the host translational machinery and is essential in the viral life cycle. This study will lead to future investigations in understanding the importance of VEEV-nsP3 to viral multiplication and apply the information for the discovery of novel host targets as therapeutic options.


Assuntos
RNA Helicases DEAD-box/metabolismo , Vírus da Encefalite Equina Venezuelana/metabolismo , Interações Hospedeiro-Patógeno , Proteínas não Estruturais Virais/metabolismo , Animais , Linhagem Celular , Chlorocebus aethiops , RNA Helicases DEAD-box/deficiência , RNA Helicases DEAD-box/genética , Vírus da Encefalite Equina Venezuelana/química , Técnicas de Silenciamento de Genes , Humanos , RNA Helicases/metabolismo , Células Vero , Carga Viral , Replicação Viral
7.
J Virol ; 88(17): 9616-23, 2014 Sep 01.
Artigo em Inglês | MEDLINE | ID: mdl-24920796

RESUMO

UNLABELLED: Alphaviruses are serious, sometimes lethal human pathogens that belong to the family Togaviridae. The structures of human Venezuelan equine encephalitis virus (VEEV), an alphavirus, in complex with two strongly neutralizing antibody Fab fragments (F5 and 3B4C-4) have been determined using a combination of cryo-electron microscopy and homology modeling. We characterize these monoclonal antibody Fab fragments, which are known to abrogate VEEV infectivity by binding to the E2 (envelope) surface glycoprotein. Both of these antibody Fab fragments cross-link the surface E2 glycoproteins and therefore probably inhibit infectivity by blocking the conformational changes that are required for making the virus fusogenic. The F5 Fab fragment cross-links E2 proteins within one trimeric spike, whereas the 3B4C-4 Fab fragment cross-links E2 proteins from neighboring spikes. Furthermore, F5 probably blocks the receptor-binding site, whereas 3B4C-4 sterically hinders the exposure of the fusion loop at the end of the E2 B-domain. IMPORTANCE: Alphaviral infections are transmitted mainly by mosquitoes. Venezuelan equine encephalitis virus (VEEV) is an alphavirus with a wide distribution across the globe. No effective vaccines exist for alphaviral infections. Therefore, a better understanding of VEEV and its associated neutralizing antibodies will help with the development of effective drugs and vaccines.


Assuntos
Anticorpos Neutralizantes/química , Anticorpos Antivirais/química , Vírus da Encefalite Equina Venezuelana/química , Substâncias Macromoleculares/química , Anticorpos Neutralizantes/imunologia , Anticorpos Antivirais/imunologia , Simulação por Computador , Microscopia Crioeletrônica , Vírus da Encefalite Equina Venezuelana/imunologia , Fragmentos Fab das Imunoglobulinas/química , Fragmentos Fab das Imunoglobulinas/imunologia , Modelos Moleculares , Ligação Proteica , Proteínas do Envelope Viral/química , Proteínas do Envelope Viral/imunologia
8.
Appl Microbiol Biotechnol ; 97(14): 6359-72, 2013 Jul.
Artigo em Inglês | MEDLINE | ID: mdl-23512478

RESUMO

The Eastern equine encephalitis virus (EEEV) E2 protein is one of the main targets of the protective immune response against EEEV. Although some efforts have done to elaborate the structure and immune molecular basis of Alphaviruses E2 protein, the published data of EEEV E2 are limited. Preparation of EEEV E2 protein-specific antibodies and define MAbs-binding epitopes on E2 protein will be conductive to the antibody-based prophylactic and therapeutic and to the study on structure and function of EEEV E2 protein. In this study, 51 EEEV E2 protein-reactive monoclonal antibodies (MAbs) and antisera (polyclonal antibodies, PAbs) were prepared and characterized. By pepscan with MAbs and PAbs using enzyme-linked immunosorbent assay, we defined 18 murine linear B-cell epitopes. Seven peptide epitopes were recognized by both MAbs and PAbs, nine epitopes were only recognized by PAbs, and two epitopes were only recognized by MAbs. Among the epitopes recognized by MAbs, seven epitopes were found only in EEEV and two epitopes were found both in EEEV and Venezuelan equine encephalitis virus (VEEV). Four of the EEEV antigenic complex-specific epitopes were commonly held by EEEV subtypes I/II/III/IV (1-16aa, 248-259aa, 271-286aa, 321-336aa probably located in E2 domain A, domain B, domain C, domain C, respectively). The remaining three epitopes were EEEV type-specific epitopes: a subtype I-specific epitope at amino acids 108-119 (domain A), a subtype I/IV-specific epitope at amino acids 211-226 (domain B) and a subtype I/II/III-specific epitope at amino acids 231-246 (domain B). The two common epitopes of EEEV and VEEV were located at amino acids 131-146 and 241-256 (domain B). The generation of EEEV E2-specific MAbs with defined specificities and binding epitopes will inform the development of differential diagnostic approaches and structure study for EEEV and associated alphaviruses.


Assuntos
Vírus da Encefalite Equina do Leste/imunologia , Encefalomielite Equina/virologia , Epitopos de Linfócito B/imunologia , Proteínas do Envelope Viral/imunologia , Sequência de Aminoácidos , Animais , Anticorpos Monoclonais/imunologia , Anticorpos Antivirais/imunologia , Vírus da Encefalite Equina do Leste/química , Vírus da Encefalite Equina do Leste/classificação , Vírus da Encefalite Equina do Leste/genética , Vírus da Encefalite Equina Venezuelana/química , Vírus da Encefalite Equina Venezuelana/classificação , Vírus da Encefalite Equina Venezuelana/genética , Vírus da Encefalite Equina Venezuelana/imunologia , Encefalomielite Equina/imunologia , Mapeamento de Epitopos , Epitopos de Linfócito B/química , Epitopos de Linfócito B/genética , Humanos , Camundongos , Especificidade da Espécie , Spodoptera , Proteínas do Envelope Viral/química , Proteínas do Envelope Viral/genética
9.
J Vis Exp ; (70): e4429, 2012 Dec 02.
Artigo em Inglês | MEDLINE | ID: mdl-23222916

RESUMO

Modern advancements in imaging technology encourage further development and refinement in the way viral research is accomplished. Initially proposed by Russel and Burch in Hume's 3Rs (replacement, reduction, refinement), the utilization of animal models in scientific research is under constant pressure to identify new methodologies to reduce animal usage while improving scientific accuracy and speed. A major challenge to Hume's principals however, is how to ensure the studies are statistically accurate while reducing animal disease morbidity and overall numbers. Vaccine efficacy studies currently require a large number of animals in order to be considered statistically significant and often result in high morbidity and mortality endpoints for identification of immune protection. We utilized in vivo imaging systems (IVIS) in conjunction with a firefly bioluminescent enzyme to progressively track the invasion of the central nervous system (CNS) by an encephalitic virus in a murine model. Typically, the disease progresses relatively slowly, however virus replication is rapid, especially within the CNS, and can lead to an often, lethal outcome. Following intranasal infection of the mice with TC83-Luc, an attenuated Venezuelan equine encephalitis virus strain modified to expresses a luciferase gene; we are able to visualize virus replication within the brain at least three days before the development of clinical disease symptoms. Utilizing CNS invasion as a key encephalitic disease development endpoint we are able to quickly identify therapeutic and vaccine protection against TC83-Luc infection before clinical symptoms develop. With IVIS technology we are able to demonstrate the rapid and accurate testing of drug therapeutics and vaccines while reducing animal numbers and morbidity.


Assuntos
Sistema Nervoso Central/virologia , Vírus da Encefalite Equina Venezuelana/fisiologia , Medições Luminescentes/métodos , Animais , Encéfalo/virologia , Vírus da Encefalite Equina Venezuelana/química , Vírus da Encefalite Equina Venezuelana/genética , Vírus da Encefalite Equina Venezuelana/imunologia , Luciferases de Vaga-Lume/biossíntese , Luciferases de Vaga-Lume/química , Luciferases de Vaga-Lume/genética , Camundongos , Vacinas Atenuadas/química , Vacinas Atenuadas/imunologia , Vacinas Virais/química , Vacinas Virais/imunologia , Replicação Viral
10.
J Mol Model ; 18(1): 39-51, 2012 Jan.
Artigo em Inglês | MEDLINE | ID: mdl-21445710

RESUMO

To date, no suitable vaccine or specific antiviral drug is available to treat Chikungunya viral (CHIKV) fever. Hence, it is essential to identify drug candidates that could potentially impede CHIKV infection. Here, we present the development of a homology model of nsP2 protein based on the crystal structure of the nsP2 protein of Venezuelan equine encephalitis virus (VEEV). The protein modeled was optimized using molecular dynamics simulation; the junction peptides of a nonstructural protein complex were then docked in order to investigate the possible protein-protein interactions between nsP2 and the proteins cleaved by nsP2. The modeling studies conducted shed light on the binding modes, and the critical interactions with the peptides provide insight into the chemical features needed to inhibit the CHIK virus infection. Energy-optimized pharmacophore mapping was performed using the junction peptides. Based on the results, we propose the pharmacophore features that must be present in an inhibitor of nsP2 protease. The resulting pharmacophore model contained an aromatic ring, a hydrophobic and three hydrogen-bond donor sites. Using these pharmacophore features, we screened a large public library of compounds (Asinex, Maybridge, TOSLab, Binding Database) to find a potential ligand that could inhibit the nsP2 protein. The compounds that yielded a fitness score of more than 1.0 were further subjected to Glide HTVS and Glide XP. Here, we report the best four compounds based on their docking scores; these compounds have IDs of 27943, 21362, ASN 01107557 and ASN 01541696. We propose that these compounds could bind to the active site of nsP2 protease and inhibit this enzyme. Furthermore, the backbone structural scaffolds of these four lead compounds could serve as building blocks when designing drug-like molecules for the treatment of Chikungunya viral fever.


Assuntos
Vírus Chikungunya/química , Vírus Chikungunya/enzimologia , Cisteína Endopeptidases/química , Simulação de Dinâmica Molecular , Infecções por Alphavirus/tratamento farmacológico , Sequência de Aminoácidos , Sítios de Ligação , Febre de Chikungunya , Vírus da Encefalite Equina Venezuelana/química , Vírus da Encefalite Equina Venezuelana/enzimologia , Ligação de Hidrogênio , Interações Hidrofóbicas e Hidrofílicas , Modelos Moleculares , Dados de Sequência Molecular , Ligação Proteica , Relação Quantitativa Estrutura-Atividade , Alinhamento de Sequência
11.
J Mol Graph Model ; 29(3): 347-53, 2010 Nov.
Artigo em Inglês | MEDLINE | ID: mdl-21036084

RESUMO

The outbreaks of chikungunya (CHIKV) and venezuelan equine encephalitis (VEEV) viral infections in humans have emerged or re-emerged in various countries of "Africa and southeast Asia", and "central and south America", respectively. At present, no drug or vaccine is available for the treatment and therapy of both viral infections, but the non-structural protein, nsP3, is a potential target for the design of potent inhibitors that fit at the adenosine-binding site of its macro domain. Here, so as to understand the fundamental basis of the particular interactions between the ADP-ribose bound to the nsP3 amino acid residues at the binding site, molecular dynamics simulations were applied. The results show that these two nsP3 domains share a similar binding pattern for accommodating the ADP-ribose. The ADP-ribose phosphate unit showed the highest degree of stabilization through hydrogen bond interactions with the nsP3 V33 residue and the consequent amino acid residues 110-114. The adenine base of ADP-ribose was specifically recognized by the conserved nsP3 residue D10. Additionally, the ribose and the diphosphate units were found to play more important roles in the CHIKV nsP3-ADP-ribose complex, while the ter-ribose was more important in the VEEV complex. The slightly higher binding affinity of ADP-ribose toward the nsP3 macro domain of VEEV, as predicted by the simulation results, is in good agreement with previous experimental data. These simulation results provide useful information to further assist in drug design and development for these two important viruses.


Assuntos
Adenosina Difosfato Ribose/química , Adenosina Difosfato Ribose/metabolismo , Vírus Chikungunya/química , Vírus da Encefalite Equina Venezuelana/química , Vírus da Encefalite Equina Venezuelana/metabolismo , Proteínas não Estruturais Virais/química , Proteínas não Estruturais Virais/metabolismo , Animais , Humanos , Modelos Moleculares , Simulação de Dinâmica Molecular , Estrutura Molecular , Termodinâmica , Proteínas não Estruturais Virais/genética
12.
Virology ; 406(2): 261-9, 2010 Oct 25.
Artigo em Inglês | MEDLINE | ID: mdl-20701942

RESUMO

Venezuelan equine encephalitis virus (VEEV) is a prototypical enveloped ssRNA virus of the family Togaviridae. To better understand alphavirus assembly, we analyzed newly formed nucleocapsid particles (termed pre-viral nucleocapsids) isolated from infected cells. These particles were intermediates along the virus assembly pathway, and ultimately bind membrane-associated viral glycoproteins to bud as mature infectious virus. Purified pre-viral nucleocapsids were spherical with a unimodal diameter distribution. The structure of one class of pre-viral nucleocapsids was determined with single particle reconstruction of cryo-electron microscopy images. These studies showed that pre-viral nucleocapsids assembled into an icosahedral structure with a capsid stoichiometry similar to the mature nucleocapsid. However, the individual capsomers were organized significantly differently within the pre-viral and mature nucleocapsids. The pre-viral nucleocapsid structure implies that nucleocapsids are highly plastic and undergo glycoprotein and/or lipid-driven rearrangements during virus self-assembly. This mechanism of self-assembly may be general for other enveloped viruses.


Assuntos
Vírus da Encefalite Equina Venezuelana/química , Vírus da Encefalite Equina Venezuelana/fisiologia , Encefalomielite Equina Venezuelana/virologia , Montagem de Vírus , Alphavirus/química , Alphavirus/isolamento & purificação , Alphavirus/fisiologia , Alphavirus/ultraestrutura , Animais , Cricetinae , Vírus da Encefalite Equina Venezuelana/isolamento & purificação , Vírus da Encefalite Equina Venezuelana/ultraestrutura , Humanos , Modelos Moleculares , Nucleocapsídeo/química , Nucleocapsídeo/isolamento & purificação , Nucleocapsídeo/ultraestrutura
13.
J Virol ; 83(13): 6534-45, 2009 Jul.
Artigo em Inglês | MEDLINE | ID: mdl-19386706

RESUMO

Macro domains (also called "X domains") constitute a protein module family present in all kingdoms of life, including viruses of the Coronaviridae and Togaviridae families. Crystal structures of the macro domain from the Chikungunya virus (an "Old World" alphavirus) and the Venezuelan equine encephalitis virus (a "New World" alphavirus) were determined at resolutions of 1.65 and 2.30 A, respectively. These domains are active as adenosine di-phosphoribose 1''-phosphate phosphatases. Both the Chikungunya and the Venezuelan equine encephalitis virus macro domains are ADP-ribose binding modules, as revealed by structural and functional analysis. A single aspartic acid conserved through all macro domains is responsible for the specific binding of the adenine base. Sequence-unspecific binding to long, negatively charged polymers such as poly(ADP-ribose), DNA, and RNA is observed and attributed to positively charged patches outside of the active site pocket, as judged by mutagenesis and binding studies. The crystal structure of the Chikungunya virus macro domain with an RNA trimer shows a binding mode utilizing the same adenine-binding pocket as ADP-ribose, but avoiding the ADP-ribose 1''-phosphate phosphatase active site. This leaves the AMP binding site as the sole common feature in all macro domains.


Assuntos
Vírus Chikungunya/química , Vírus da Encefalite Equina Venezuelana/química , Proteínas não Estruturais Virais/química , Adenosina Difosfato Ribose/análogos & derivados , Adenosina Difosfato Ribose/metabolismo , Sequência de Aminoácidos , Sítios de Ligação , Vírus Chikungunya/genética , Sequência Conservada , Vírus da Encefalite Equina Venezuelana/genética , Dados de Sequência Molecular , Mutagênese Sítio-Dirigida , Estrutura Terciária de Proteína , RNA Viral/metabolismo , Relação Estrutura-Atividade , Proteínas não Estruturais Virais/genética
14.
J Mol Model ; 12(6): 921-9, 2006 Sep.
Artigo em Inglês | MEDLINE | ID: mdl-16607494

RESUMO

A new method for predicting interacting residues in protein complexes, InterProSurf, was applied to the E1 envelope protein of Venezuelan equine encephalitis (VEEV). Monomeric and trimeric models of VEEV-E1 were constructed with our MPACK program, using the crystal structure of the E1 protein of Semliki forest virus as a template. An alignment of the E1 sequences from representative alphavirus sequences was used to determine physical chemical property motifs (likely functional areas) with our PCPMer program. Information on residue variability, propensity to be in protein interfaces, and surface exposure on the model was combined to predict surface clusters likely to interact with other viral or cellular proteins. Mutagenesis of these clusters indicated that the predictions accurately detected areas crucial for virus infection. In addition to the fusion peptide area in domain 2, at least two other surface areas play an important role in virus infection. We propose that these may be sites of interaction between the E1-E1 and E1-E2 subdomains of the envelope proteins that are required to assemble the functional unit. The InterProSurf method is, thus, an important new tool for predicting viral protein interactions. These results can aid in the design of new vaccines against alphaviruses and other viruses.


Assuntos
Vírus da Encefalite Equina Venezuelana/química , Proteínas do Envelope Viral/química , Aminoácidos , Animais , Sítios de Ligação , Dimerização , Vírus da Encefalite Equina Venezuelana/patogenicidade , Cavalos , Complexos Multiproteicos/química
15.
Bioorg Khim ; 25(4): 253-6, 1999 Apr.
Artigo em Russo | MEDLINE | ID: mdl-10422590

RESUMO

Homogeneous (according to PAGE) capsid and surface viral proteins were isolated from concentrated purified suspensions of tick-borne encephalitis and Venezuelan equine encephalomyelitis viruses by one-stage reversed-phase HPLC. The amino acid composition and the sequences of their N-terminal parts were determined.


Assuntos
Vírus da Encefalite Equina Venezuelana/química , Vírus da Encefalite Transmitidos por Carrapatos/química , Proteínas Estruturais Virais/isolamento & purificação , Cromatografia Líquida de Alta Pressão , Proteínas Estruturais Virais/química
16.
Anal Chem ; 70(18): 3863-7, 1998 Sep 15.
Artigo em Inglês | MEDLINE | ID: mdl-9751026

RESUMO

Matrix-assisted laser desorption/ionization mass spectrometry has enabled viral coat proteins to be characterized directly from the virus. This analysis, demonstrated here with tobacco mosaic virus U2, a bacteriophage MS2, and equine encephalitis TRD, is achieved with a combination of organic acid, UV-absorbing matrix, and high-energy desorption with a nitrogen laser. The molecular weights of these proteins are determined with sufficient accuracy to allow differentiation among viral species and strains. The abundant hydrophobic MS2 coat protein was analyzed in aliquots of culture medium and of the tobacco mosaic virus coat protein in infected leaves. This method provides rapid detection of coat protein in the low-femtomole range, as estimated by titering plaque-forming units of MS2.


Assuntos
Proteínas do Capsídeo , Capsídeo/análise , Vírus/química , Vírus da Encefalite Equina Venezuelana/química , Especificidade da Espécie , Espectrometria de Massas por Ionização e Dessorção a Laser Assistida por Matriz , Vírus do Mosaico do Tabaco/química , Proteínas Virais/análise
17.
Virology ; 219(1): 314-20, 1996 May 01.
Artigo em Inglês | MEDLINE | ID: mdl-8623548

RESUMO

The complete nuleotide and predicted amino acid sequences of Venezuelan equine encephalitis (VEE) virus subtype IE (isolate 68U201) were determined and compared to those of other antigenic variants within the VEE complex, strains IAB-TrD, IC-P676, ID-3880, IE-Menall, and II-Fe3-7c. The 68U201 structural proteins were most closely related to their Menall counterparts (97--100% identity) and more distantly related to VEE strains of other antigenic varieties (83--93% identity). With the exception of nsP3, the 68U201 nonstructural proteins were 94--95% identical to those of TrD, P676, and 3880 (nonstructural gene sequences are not available for Menall and Fe3-7c). The amino-terminal region of nsP3 (aa 1--329), which is highly conserved among all alphaviruses, was 93--94% identical for all VEE strains. The nsP3 carboxyl region is highly divergent among alphaviruses in general, but well conserved among previously sequenced VEE strains (>90% identity). Surprisingly, the carboxyl region of 68U201 nsP3 (aa 330--563) was only 59--61% identical to that of subtype IAB, IC, and ID viruses, with large insertions and deletions in addition to numerous substitutions. The differences between the 68U201 and other VEE nsP3 carboxyl regions were not randomly distributed, as there were four domains of high similarity within the nonconserved region. To examine this divergence more closely, we sequenced a portion of the Menall ns3 gene. The 68U201 and Menall nsP3 nonconserved regions were 85.3% identical and had the same basic domain structure, which was distinct from the IAB, IC, and ID nsP3 proteins, suggesting that the domain structure of nsP3 may be subtype/variety-specific. VEE nsP3 sequence diversity may reflect ecological differences such as adaptation to different mosquito vectors or vertebrate hosts.


Assuntos
Sequência Conservada , Vírus da Encefalite Equina Venezuelana/genética , Proteínas não Estruturais Virais/genética , Sequência de Aminoácidos , Animais , Vírus da Encefalite Equina Venezuelana/química , Dados de Sequência Molecular , Homologia de Sequência de Aminoácidos , Proteínas não Estruturais Virais/química , Proteínas Estruturais Virais/química , Proteínas Estruturais Virais/genética
18.
Vopr Virusol ; 38(4): 162-7, 1993.
Artigo em Russo | MEDLINE | ID: mdl-7694427

RESUMO

Nine peptides were synthesized for detailed mapping of VEE virus E2-2 and E2-6 sites responsible for the formation of protective antibodies that neutralize the virus and block hemagglutination. The sequence of the peptides over-lapped the regions of amino acid residues 30-75 and 202-250 of VEE virus E2 protein in which antigenic mutations caused by monoclonal antibodies to E2-2 and E2-6 sites had been mapped. None of the synthesized peptides reacted in the enzyme immunoassay with a panel of 17 Mabs to VEE virus E2 protein. However, eight peptides reacted with polyclonal antiviral serum and two of them elicited antiviral antibody production. The E2-2 site might be associated with amino acid residues 30-45, and the region of E2 residues 57-62 in which antigenic mutations are observed is not a linear type antigenic determinant, but participates in the formation of antigenic determinants of the conformational type. The mapping of residues 202-250 demonstrated that all the peptides in this region were well recognized by polyclonal antiviral serum. The residues 235-240 were shown to form a linear epitope which provided a crossover between VEE and EEE viruses and was not recognized by 19 types of monoclonal antibodies cross-reacting with VEE and EEE viruses.


Assuntos
Sítios de Ligação de Anticorpos/imunologia , Vírus da Encefalite Equina Venezuelana/química , Mapeamento de Peptídeos/métodos , Proteínas do Envelope Viral/análise , Proteínas Virais de Fusão/análise , Sequência de Aminoácidos , Animais , Anticorpos Monoclonais/isolamento & purificação , Antígenos Virais/análise , Antígenos Virais/imunologia , Vírus da Encefalite Equina Venezuelana/imunologia , Epitopos/análise , Epitopos/imunologia , Hibridomas/imunologia , Imunização , Técnicas Imunológicas , Camundongos , Camundongos Endogâmicos BALB C , Dados de Sequência Molecular , Mutação/imunologia , Peptídeos/síntese química , Ratos , Proteínas do Envelope Viral/imunologia , Proteínas Virais de Fusão/imunologia
19.
J Gen Virol ; 74 ( Pt 3): 519-23, 1993 Mar.
Artigo em Inglês | MEDLINE | ID: mdl-8445371

RESUMO

Enzootic strains of Venezuelan equine encephalitis (VEE) virus occur in the United States (Florida), Mexico, Central America and South America. Epizootic VEE first occurred in North and Central America in a widespread outbreak between 1969 and 1972. To investigate the likelihood that this epizootic VEE virus, identified as VEE antigenic subtype I-AB, evolved from enzootic viruses extant in the region, we cloned and sequenced the 26S mRNA region of the genomes of the Florida VEE subtype II virus, strain Everglades Fe3-7c, and the Middle American subtype I-E virus, strain Mena II. This region of the genome encodes the viral structural proteins. The sequences of the 26S mRNA regions of the Everglades and Mena virus genomes differed from that of the reference epizootic VEE subtype I-AB virus, Trinidad donkey strain, by 453 and 887 nucleotides and by 66 and 131 amino acids, respectively. These data confirm previous reports demonstrating significant antigenic and genetic distance between VEE I-AB virus and viruses of subtypes I-E and II. It is unlikely that the epizootic VEE I-AB virus responsible for the 1969 outbreak originated from mutation of enzootic VEE viruses in North or Middle America.


Assuntos
Vírus da Encefalite Equina Venezuelana/genética , RNA Mensageiro/genética , RNA Viral/genética , Proteínas Estruturais Virais/genética , Sequência de Aminoácidos , Evolução Biológica , Vírus da Encefalite Equina Venezuelana/química , Vírus da Encefalite Equina Venezuelana/classificação , Genoma Viral , Dados de Sequência Molecular , Homologia de Sequência de Aminoácidos
20.
J Gen Virol ; 72 ( Pt 10): 2431-5, 1991 Oct.
Artigo em Inglês | MEDLINE | ID: mdl-1919525

RESUMO

Four monoclonal antibody-resistant variants (MARVs) of Venezuelan equine encephalitis (VEE) virus were used to study mosquito-virus interactions. In vitro experiments using an Aedes albopictus cell line, C6/36, demonstrated that an amino acid change in the glycoprotein E2h epitope (MARV 1A3B-7) decreased virus growth when compared with the wild-type, Trinidad donkey virus, and its vaccine derivative, TC-83. The MARVs replicated as efficiently as the parent virus when inoculated into Aedes aegypti mosquitoes, but MARV 1A3B-7 was restricted in its ability to infect and disseminate from the midgut following oral infection. These results demonstrate that a single amino acid change in the E2 glycoprotein can affect the ability of VEE virus to replicate and disseminate in Ae. aegypti mosquitoes.


Assuntos
Vírus da Encefalite Equina Venezuelana/genética , Proteínas do Envelope Viral/genética , Replicação Viral , Aedes/microbiologia , Animais , Anticorpos Monoclonais/imunologia , Linhagem Celular , Cricetinae , Vírus da Encefalite Equina Venezuelana/química , Vírus da Encefalite Equina Venezuelana/fisiologia , Insetos Vetores/microbiologia , Cinética , Células Vero , Proteínas do Envelope Viral/química , Proteínas do Envelope Viral/imunologia
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