3D reconstruction and comparison of shapes of DNA minicircles observed by cryo-electron microscopy

We use cryo-electron microscopy to compare 3D shapes of 158 bp long DNA minicircles that differ only in the sequence within an 18 bp block containing either a TATA box or a catabolite activator protein binding site. We present a sorting algorithm that correlates the reconstructed shapes and groups t...

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Detalles Bibliográficos
Autores principales: Amzallag, Arnaud, Vaillant, Cédric, Jacob, Mathews, Unser, Michael, Bednar, Jan, Kahn, Jason D., Dubochet, Jacques, Stasiak, Andrzej, Maddocks, John H.
Formato: Texto
Lenguaje:English
Publicado: Oxford University Press 2006
Materias:
Methods Online
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1635295/
https://www.ncbi.nlm.nih.gov/pubmed/17012274
http://dx.doi.org/10.1093/nar/gkl675
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author Amzallag, Arnaud
Vaillant, Cédric
Jacob, Mathews
Unser, Michael
Bednar, Jan
Kahn, Jason D.
Dubochet, Jacques
Stasiak, Andrzej
Maddocks, John H.
author_facet Amzallag, Arnaud
Vaillant, Cédric
Jacob, Mathews
Unser, Michael
Bednar, Jan
Kahn, Jason D.
Dubochet, Jacques
Stasiak, Andrzej
Maddocks, John H.
author_sort Amzallag, Arnaud
collection PubMed
description We use cryo-electron microscopy to compare 3D shapes of 158 bp long DNA minicircles that differ only in the sequence within an 18 bp block containing either a TATA box or a catabolite activator protein binding site. We present a sorting algorithm that correlates the reconstructed shapes and groups them into distinct categories. We conclude that the presence of the TATA box sequence, which is believed to be easily bent, does not significantly affect the observed shapes.
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spelling pubmed-16352952006-11-29 3D reconstruction and comparison of shapes of DNA minicircles observed by cryo-electron microscopy Amzallag, Arnaud Vaillant, Cédric Jacob, Mathews Unser, Michael Bednar, Jan Kahn, Jason D. Dubochet, Jacques Stasiak, Andrzej Maddocks, John H. Nucleic Acids Res Methods Online We use cryo-electron microscopy to compare 3D shapes of 158 bp long DNA minicircles that differ only in the sequence within an 18 bp block containing either a TATA box or a catabolite activator protein binding site. We present a sorting algorithm that correlates the reconstructed shapes and groups them into distinct categories. We conclude that the presence of the TATA box sequence, which is believed to be easily bent, does not significantly affect the observed shapes. Oxford University Press 2006-10 2006-09-29 /pmc/articles/PMC1635295/ /pubmed/17012274 http://dx.doi.org/10.1093/nar/gkl675 Text en © 2006 The Author(s)
spellingShingle Methods Online
Amzallag, Arnaud
Vaillant, Cédric
Jacob, Mathews
Unser, Michael
Bednar, Jan
Kahn, Jason D.
Dubochet, Jacques
Stasiak, Andrzej
Maddocks, John H.
3D reconstruction and comparison of shapes of DNA minicircles observed by cryo-electron microscopy
title 3D reconstruction and comparison of shapes of DNA minicircles observed by cryo-electron microscopy
title_full 3D reconstruction and comparison of shapes of DNA minicircles observed by cryo-electron microscopy
title_fullStr 3D reconstruction and comparison of shapes of DNA minicircles observed by cryo-electron microscopy
title_full_unstemmed 3D reconstruction and comparison of shapes of DNA minicircles observed by cryo-electron microscopy
title_short 3D reconstruction and comparison of shapes of DNA minicircles observed by cryo-electron microscopy
title_sort 3d reconstruction and comparison of shapes of dna minicircles observed by cryo-electron microscopy
topic Methods Online
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1635295/
https://www.ncbi.nlm.nih.gov/pubmed/17012274
http://dx.doi.org/10.1093/nar/gkl675
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