Sequence specificity of single-stranded DNA-binding proteins: a novel DNA microarray approach

We have developed a novel DNA microarray-based approach for identification of the sequence-specificity of single-stranded nucleic-acid-binding proteins (SNABPs). For verification, we have shown that the major cold shock protein (CspB) from Bacillus subtilis binds with high affinity to pyrimidine-ric...

Full description

Bibliographic Details
Main Authors:	Morgan, Hugh P., Estibeiro, Peter, Wear, Martin A., Max, Klaas E.A., Heinemann, Udo, Cubeddu, Liza, Gallagher, Maurice P., Sadler, Peter J., Walkinshaw, Malcolm D.
Format:	Online
Language:	English
Published:	Oxford University Press 2007
Online Access:	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1904285/

id	pubmed-1904285
recordtype	oai_dc
spelling	pubmed-19042852007-07-03 Sequence specificity of single-stranded DNA-binding proteins: a novel DNA microarray approach Morgan, Hugh P. Estibeiro, Peter Wear, Martin A. Max, Klaas E.A. Heinemann, Udo Cubeddu, Liza Gallagher, Maurice P. Sadler, Peter J. Walkinshaw, Malcolm D. Methods Online We have developed a novel DNA microarray-based approach for identification of the sequence-specificity of single-stranded nucleic-acid-binding proteins (SNABPs). For verification, we have shown that the major cold shock protein (CspB) from Bacillus subtilis binds with high affinity to pyrimidine-rich sequences, with a binding preference for the consensus sequence, 5′-GTCTTTG/T-3′. The sequence was modelled onto the known structure of CspB and a cytosine-binding pocket was identified, which explains the strong preference for a cytosine base at position 3. This microarray method offers a rapid high-throughput approach for determining the specificity and strength of ss DNA–protein interactions. Further screening of this newly emerging family of transcription factors will help provide an insight into their cellular function. Oxford University Press 2007-05 2007-05-08 /pmc/articles/PMC1904285/ /pubmed/17488853 http://dx.doi.org/10.1093/nar/gkm040 Text en © 2007 The Author(s) http://creativecommons.org/licenses/by-nc/2.0/uk/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
repository_type	Open Access Journal
institution_category	Foreign Institution
institution	US National Center for Biotechnology Information
building	NCBI PubMed
collection	Online Access
language	English
format	Online
author	Morgan, Hugh P. Estibeiro, Peter Wear, Martin A. Max, Klaas E.A. Heinemann, Udo Cubeddu, Liza Gallagher, Maurice P. Sadler, Peter J. Walkinshaw, Malcolm D.
spellingShingle	Morgan, Hugh P. Estibeiro, Peter Wear, Martin A. Max, Klaas E.A. Heinemann, Udo Cubeddu, Liza Gallagher, Maurice P. Sadler, Peter J. Walkinshaw, Malcolm D. Sequence specificity of single-stranded DNA-binding proteins: a novel DNA microarray approach
author_facet	Morgan, Hugh P. Estibeiro, Peter Wear, Martin A. Max, Klaas E.A. Heinemann, Udo Cubeddu, Liza Gallagher, Maurice P. Sadler, Peter J. Walkinshaw, Malcolm D.
author_sort	Morgan, Hugh P.
title	Sequence specificity of single-stranded DNA-binding proteins: a novel DNA microarray approach
title_short	Sequence specificity of single-stranded DNA-binding proteins: a novel DNA microarray approach
title_full	Sequence specificity of single-stranded DNA-binding proteins: a novel DNA microarray approach
title_fullStr	Sequence specificity of single-stranded DNA-binding proteins: a novel DNA microarray approach
title_full_unstemmed	Sequence specificity of single-stranded DNA-binding proteins: a novel DNA microarray approach
title_sort	sequence specificity of single-stranded dna-binding proteins: a novel dna microarray approach
description	We have developed a novel DNA microarray-based approach for identification of the sequence-specificity of single-stranded nucleic-acid-binding proteins (SNABPs). For verification, we have shown that the major cold shock protein (CspB) from Bacillus subtilis binds with high affinity to pyrimidine-rich sequences, with a binding preference for the consensus sequence, 5′-GTCTTTG/T-3′. The sequence was modelled onto the known structure of CspB and a cytosine-binding pocket was identified, which explains the strong preference for a cytosine base at position 3. This microarray method offers a rapid high-throughput approach for determining the specificity and strength of ss DNA–protein interactions. Further screening of this newly emerging family of transcription factors will help provide an insight into their cellular function.
publisher	Oxford University Press
publishDate	2007
url	https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1904285/
_version_	1611397788388556800

Sequence specificity of single-stranded DNA-binding proteins: a novel DNA microarray approach

Similar Items