Homology modelling and protein structure based functional analysis of five cucumovirus coat proteins

Gellért, Ákos; Salánki, Katalin; Náray‐Szabó, Gábor; Balázs, Ervin

doi:10.1016/j.jmgm.2005.09.015

Cited by 28 publications

(23 citation statements)

References 24 publications

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“…We noticed that in some of the tested plants (C. amaranticolor, P. sativum, P. vulgaris) ( Table 1) PSV-G induced systemic stunting. Lack of stunting in PSV-P and -Ag may result from satRNA's presence in their genome, or other sequence determinants as it was suggested in case of PSV-Er [30]. However, because of the very high homology of Ag and G CPs we assume that in the case of Ag strain this is rather an effect of symptom modulation by satRNA.…”

Section: Discussionmentioning

confidence: 86%

“…In our study we have undertaken attempts to compare the spatial model of CP protein for Polish PSV with those obtained previously for CMV, TAV, and PSV-Er [30]. Polish strains of PSV differ from other cucumoviruses analyzed before in the CP sequence.…”

Section: Discussionmentioning

confidence: 94%

“…Their conformation has been determined and surface potential was assessed. We have tried to compare data obtained after analysis of the model and greenhouse experiments with results of previous research, connecting the conformation of certain amino acids with infectivity of the virus [10,11,30].…”

Section: Analysis Of the Modelmentioning

confidence: 99%

“…On the basis of the theoretical model and experimental data, aa playing crucial role in infection process [10,30] were identified and the conformation of their surroundings compared to literature data. In the reference publications the following aa were specified: 129 proline/leucine, 162 threonine/alanine, 168 cysteine/tyrosine, 193 asparagine/ lysine (as well as mutants of lysine residue: K193S and K193N), and 214 glycine/arginine in CMV.…”

Section: Analysis Of the Modelmentioning

confidence: 99%

“…Amino acid conservation of 80% and higher is marked by light gray shading. Amino acid residues colored dark gray and indicated in bold are probably responsible for the symptoms evolving (according to [30]). 1F15 sequence represents the aa sequence of the CMV-Fny isolate with resolved X-ray structure.…”

Section: Analysis Of the Modelmentioning

confidence: 99%

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The sequence and model structure analysis of three Polish peanut stunt virus strains

Obrępalska‐Stęplowska¹,

Nowaczyk²,

Budziszewska³

et al. 2007

Virus Genes

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Peanut stunt virus (PSV) belongs to the Cucumovirus genus of the family Bromoviridae and is widely distributed worldwide, also in Poland. PSV is a common pathogen of a wide range of economically important plants. Its coat protein (CP), similarly as in other viruses, plays an important role in many processes during viral life cycle and has great impact on the infectivity. In this study, we present the results of sequence-structure analysis of CP derived from three Polish strains of PSV: PSV Ag, G, and P. Sequences were determined using RT-PCR amplification followed by sequencing and compared with each other and also with CP from other known PSV viruses. We analyzed their phylogenetic relationship, based on CP sequence, using bioinformatic tools as well as their spatial model using homology-modeling approach with combination of ROSETTA algorithm for de novo modeling. We compared our model with those recently obtained for other cucumoviruses including PSV-Er. Our results have shown that all Polish strains probably belong to the first subgroup of PSV viruses. Homology level between strains Ag and G proved very high. Using theoretical modeling approach we obtained a model very similar to the one resolved previously with the differences caused by slightly different amino acid sequence. We have also undertaken an attempt to analyze its distant regions; however, results are not unequivocal. Analysis of symptoms and their correlation with specific amino acid position was also performed on the basis of results published elsewhere. The definite interpretation is impeded by the presence of satellite RNAs in Ag and P strains modulating symptoms' severity, though.

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Section: Discussionmentioning

confidence: 86%

Section: Discussionmentioning

confidence: 94%

Section: Analysis Of the Modelmentioning

confidence: 99%

Section: Analysis Of the Modelmentioning

confidence: 99%

Section: Analysis Of the Modelmentioning

confidence: 99%

See 3 more Smart Citations

The sequence and model structure analysis of three Polish peanut stunt virus strains

Obrępalska‐Stęplowska¹,

Nowaczyk²,

Budziszewska³

et al. 2007

Virus Genes

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Cucumber mosaic virus as a presentation system for a double hepatitis C virus-derived epitope

et al. 2007

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Chimeric plant viruses are emerging as promising vectors for use in innovative vaccination strategies. In this context, cucumber mosaic virus (CMV) has proven to be a suitable carrier of the hepatitis C virus (HCV)-derived R9 mimotope. In the present work, a new chimeric CMV, expressing on its surface the HCV-derived R10 mimotope, was produced but lost the insert after the first passage on tobacco. A comparative analysis between R10- and R9-CMV properties indicated that R9-CMV stability was related to structural features typical of the foreign insert. Thus, in order to combine high virus viability with strong immuno-stimulating activity, we doubled R9 copies on each of the 180 coat protein (CP) subunits of CMV. One of the chimeras produced by this approach (2R9-CMV) was shown to systemically infect the host, stably maintaining both inserts. Notably, it was strongly recognized by sera of HCV-infected patients and, as compared with R9-CMV, displayed an enhanced ability to stimulate lymphocyte IFN-gamma production. The high immunogen levels achievable in plants or fruits infected with 2R9-CMV suggest that this chimeric form of CMV may be useful in the development of oral vaccines against HCV.

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Single amino acid substitutions at residue 129 in the coat protein of cucumber mosaic virus affect symptom expression and thylakoid structure

Mochizuki

Ohki

2011

Arch Virol

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The symptomatic effect of the amino acid type at residue 129 in the coat protein of cucumber mosaic virus was investigated in tobacco using coat protein mutants of the pepo strain in which proline 129 was substituted with 19 other amino acids. These mutants caused six types of symptoms: white mosaic, pale green mosaic, veinal chlorosis, veinal necrosis, systemic necrosis, and necrotic local lesions. Transmission electron microscopy revealed that the chloroplasts of plants showing the three former types of symptoms contained few thylakoid membranes. Cytopathic effects characteristic of cells from plants showing the three latter symptom types were not observed.

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Homology modelling and protein structure based functional analysis of five cucumovirus coat proteins

Cited by 28 publications

References 24 publications

The sequence and model structure analysis of three Polish peanut stunt virus strains

The sequence and model structure analysis of three Polish peanut stunt virus strains

Cucumber mosaic virus as a presentation system for a double hepatitis C virus-derived epitope

Single amino acid substitutions at residue 129 in the coat protein of cucumber mosaic virus affect symptom expression and thylakoid structure

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