Molecular Modeling the Proteins from the exo-xis Region of Lambda and Shigatoxigenic Bacteriophages

Despite decades of intensive research on bacteriophage lambda, a relatively uncharacterized region remains between the exo and xis genes. Collectively, exo-xis region genes are expressed during the earliest stages of the lytic developmental cy...

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Autor principal:	Logan W. Donaldson
Formato:	article
Lenguaje:	EN
Publicado:	MDPI AG 2021
Materias:	protein structure bioinformatics gene regulation virus-host relationships dark-matter Therapeutics. Pharmacology RM1-950
Acceso en línea:	https://doaj.org/article/48b2590acda844dd8f2f0e3be3f01cca
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spelling	oai:doaj.org-article:48b2590acda844dd8f2f0e3be3f01cca2021-11-25T16:21:54ZMolecular Modeling the Proteins from the <i>exo-xis</i> Region of Lambda and Shigatoxigenic Bacteriophages10.3390/antibiotics101112822079-6382https://doaj.org/article/48b2590acda844dd8f2f0e3be3f01cca2021-10-01T00:00:00Zhttps://www.mdpi.com/2079-6382/10/11/1282https://doaj.org/toc/2079-6382Despite decades of intensive research on bacteriophage lambda, a relatively uncharacterized region remains between the <i>exo</i> and <i>xis</i> genes. Collectively, <i>exo-xis</i> region genes are expressed during the earliest stages of the lytic developmental cycle and are capable of affecting the molecular events associated with the lysogenic-lytic developmental decision. In Shiga toxin-producing <i>E. coli</i> (STEC) and enterohemorragic <i>E. coli</i> (EHEC) that are responsible for food- and water-borne outbreaks throughout the world, there are distinct differences of <i>exo-xis</i> region genes from their counterparts in lambda phage. Together, these differences may help EHEC-specific phage and their bacterial hosts adapt to the complex environment within the human intestine. Only one <i>exo-xis</i> region protein, Ea8.5, has been solved to date. Here, I have used the AlphaFold and RoseTTAFold machine learning algorithms to predict the structures of six <i>exo-xis</i> region proteins from lambda and STEC/EHEC phages. Together, the models suggest possible roles for <i>exo-xis</i> region proteins in transcription and the regulation of RNA polymerase.Logan W. DonaldsonMDPI AGarticleprotein structurebioinformaticsgene regulationvirus-host relationshipsdark-matterTherapeutics. PharmacologyRM1-950ENAntibiotics, Vol 10, Iss 1282, p 1282 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	protein structure bioinformatics gene regulation virus-host relationships dark-matter Therapeutics. Pharmacology RM1-950
spellingShingle	protein structure bioinformatics gene regulation virus-host relationships dark-matter Therapeutics. Pharmacology RM1-950 Logan W. Donaldson Molecular Modeling the Proteins from the <i>exo-xis</i> Region of Lambda and Shigatoxigenic Bacteriophages
description	Despite decades of intensive research on bacteriophage lambda, a relatively uncharacterized region remains between the <i>exo</i> and <i>xis</i> genes. Collectively, <i>exo-xis</i> region genes are expressed during the earliest stages of the lytic developmental cycle and are capable of affecting the molecular events associated with the lysogenic-lytic developmental decision. In Shiga toxin-producing <i>E. coli</i> (STEC) and enterohemorragic <i>E. coli</i> (EHEC) that are responsible for food- and water-borne outbreaks throughout the world, there are distinct differences of <i>exo-xis</i> region genes from their counterparts in lambda phage. Together, these differences may help EHEC-specific phage and their bacterial hosts adapt to the complex environment within the human intestine. Only one <i>exo-xis</i> region protein, Ea8.5, has been solved to date. Here, I have used the AlphaFold and RoseTTAFold machine learning algorithms to predict the structures of six <i>exo-xis</i> region proteins from lambda and STEC/EHEC phages. Together, the models suggest possible roles for <i>exo-xis</i> region proteins in transcription and the regulation of RNA polymerase.
format	article
author	Logan W. Donaldson
author_facet	Logan W. Donaldson
author_sort	Logan W. Donaldson
title	Molecular Modeling the Proteins from the <i>exo-xis</i> Region of Lambda and Shigatoxigenic Bacteriophages
title_short	Molecular Modeling the Proteins from the <i>exo-xis</i> Region of Lambda and Shigatoxigenic Bacteriophages
title_full	Molecular Modeling the Proteins from the <i>exo-xis</i> Region of Lambda and Shigatoxigenic Bacteriophages
title_fullStr	Molecular Modeling the Proteins from the <i>exo-xis</i> Region of Lambda and Shigatoxigenic Bacteriophages
title_full_unstemmed	Molecular Modeling the Proteins from the <i>exo-xis</i> Region of Lambda and Shigatoxigenic Bacteriophages
title_sort	molecular modeling the proteins from the <i>exo-xis</i> region of lambda and shigatoxigenic bacteriophages
publisher	MDPI AG
publishDate	2021
url	https://doaj.org/article/48b2590acda844dd8f2f0e3be3f01cca
work_keys_str_mv	AT loganwdonaldson molecularmodelingtheproteinsfromtheiexoxisiregionoflambdaandshigatoxigenicbacteriophages
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Molecular Modeling the Proteins from the <i>exo-xis</i> Region of Lambda and Shigatoxigenic Bacteriophages

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