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Curved DNA molecules migrate anomalously slowly in free solution
The electrophoretic mobility of a curved DNA restriction fragment taken from the VP1 gene in the SV40 minichromosome has been measured in polyacrylamide gels and free solution, using capillary electrophoresis. The 199 bp restriction fragment has an apparent bend angle of 46 ± 2° located at SV40 sequ...
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Formato: | Texto |
Lenguaje: | English |
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Oxford University Press
2005
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1183105/ https://www.ncbi.nlm.nih.gov/pubmed/16085753 http://dx.doi.org/10.1093/nar/gki748 |
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author | Stellwagen, Earle Lu, Yongjun Stellwagen, Nancy C. |
author_facet | Stellwagen, Earle Lu, Yongjun Stellwagen, Nancy C. |
author_sort | Stellwagen, Earle |
collection | PubMed |
description | The electrophoretic mobility of a curved DNA restriction fragment taken from the VP1 gene in the SV40 minichromosome has been measured in polyacrylamide gels and free solution, using capillary electrophoresis. The 199 bp restriction fragment has an apparent bend angle of 46 ± 2° located at SV40 sequence position 1922 ± 2 bp [Lu Y.J., Weers B.D. and Stellwagen N. C. (2005) Biophys. J., 88, 1191–1206]. The ‘curvature module’ surrounding the apparent bend center contains five unevenly spaced A- and T-tracts, which are responsible for the observed curvature. The parent 199 bp fragment and sequence mutants containing at least one A-tract in the curvature module migrate anomalously slowly in free solution, as well as in polyacrylamide gels. Hence, the anomalously slow mobilities observed for curved DNA molecules in polyacrylamide gels are due in part to their anomalously slow mobilities in free solution. Analysis of the gel and free solution mobility decrements indicates that each A- or T-tract contributes independently, but not equally, to the curvature of the 199 bp fragment and its A-tract mutants. The relative contribution of each A- or T-tract to the observed curvature depends on its spacing with respect to the first A-tract in the curvature module. |
format | Text |
id | pubmed-1183105 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2005 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-11831052005-08-05 Curved DNA molecules migrate anomalously slowly in free solution Stellwagen, Earle Lu, Yongjun Stellwagen, Nancy C. Nucleic Acids Res Article The electrophoretic mobility of a curved DNA restriction fragment taken from the VP1 gene in the SV40 minichromosome has been measured in polyacrylamide gels and free solution, using capillary electrophoresis. The 199 bp restriction fragment has an apparent bend angle of 46 ± 2° located at SV40 sequence position 1922 ± 2 bp [Lu Y.J., Weers B.D. and Stellwagen N. C. (2005) Biophys. J., 88, 1191–1206]. The ‘curvature module’ surrounding the apparent bend center contains five unevenly spaced A- and T-tracts, which are responsible for the observed curvature. The parent 199 bp fragment and sequence mutants containing at least one A-tract in the curvature module migrate anomalously slowly in free solution, as well as in polyacrylamide gels. Hence, the anomalously slow mobilities observed for curved DNA molecules in polyacrylamide gels are due in part to their anomalously slow mobilities in free solution. Analysis of the gel and free solution mobility decrements indicates that each A- or T-tract contributes independently, but not equally, to the curvature of the 199 bp fragment and its A-tract mutants. The relative contribution of each A- or T-tract to the observed curvature depends on its spacing with respect to the first A-tract in the curvature module. Oxford University Press 2005 2005-08-05 /pmc/articles/PMC1183105/ /pubmed/16085753 http://dx.doi.org/10.1093/nar/gki748 Text en © The Author 2005. Published by Oxford University Press. All rights reserved |
spellingShingle | Article Stellwagen, Earle Lu, Yongjun Stellwagen, Nancy C. Curved DNA molecules migrate anomalously slowly in free solution |
title | Curved DNA molecules migrate anomalously slowly in free solution |
title_full | Curved DNA molecules migrate anomalously slowly in free solution |
title_fullStr | Curved DNA molecules migrate anomalously slowly in free solution |
title_full_unstemmed | Curved DNA molecules migrate anomalously slowly in free solution |
title_short | Curved DNA molecules migrate anomalously slowly in free solution |
title_sort | curved dna molecules migrate anomalously slowly in free solution |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1183105/ https://www.ncbi.nlm.nih.gov/pubmed/16085753 http://dx.doi.org/10.1093/nar/gki748 |
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