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DNA sequence recognition by an isopropyl substituted thiazole polyamide

DNA sequence recognition by an isopropyl substituted thiazole polyamide
DNA sequence recognition by an isopropyl substituted thiazole polyamide
We have used DNA footprinting and fluorescence melting experiments to study the sequence-specific binding of a novel minor groove binding ligand (thiazotropsin A), containing an isopropyl substituted thiazole polyamide, to DNA. In one fragment, which contains every tetranucleotide sequence, sub-micromolar concentrations of the ligand generate a single footprint at the sequence ACTAGT. This sequence preference is confirmed in melting experiments with fluorescently labelled oligonucleotides. Experiments with DNA fragments that contain variants of this sequence suggest that the ligand also binds, with slightly lower affinity, to sequences of the type XCYRGZ, where X is any base except C, and Z is any base except G.
minor-groove, hairpin polyamide, binding, drug, duplex, specificity, distamycin, netropsin, ligands
0305-1048
3410-3417
James, Peter L.
ff85d76b-958d-428c-b864-f075c9770613
Merkina, Elena E.
e9400ca2-d877-4650-8038-65cfae57fd47
Khalaf, Abedawn I.
2bb236fc-922c-4dc2-827f-888b3ea06d2d
Suckling, Colin J.
3835905c-04e8-4247-9208-44a4d44940b8
Waigh, Roger D.
52a9f68f-1b63-4b33-b202-fe28f55520a3
Brown, Tom
a64aae36-bb30-42df-88a2-11be394e8c89
Fox, Keith R.
9da5debc-4e45-473e-ab8c-550d1104659f
James, Peter L.
ff85d76b-958d-428c-b864-f075c9770613
Merkina, Elena E.
e9400ca2-d877-4650-8038-65cfae57fd47
Khalaf, Abedawn I.
2bb236fc-922c-4dc2-827f-888b3ea06d2d
Suckling, Colin J.
3835905c-04e8-4247-9208-44a4d44940b8
Waigh, Roger D.
52a9f68f-1b63-4b33-b202-fe28f55520a3
Brown, Tom
a64aae36-bb30-42df-88a2-11be394e8c89
Fox, Keith R.
9da5debc-4e45-473e-ab8c-550d1104659f

James, Peter L., Merkina, Elena E., Khalaf, Abedawn I., Suckling, Colin J., Waigh, Roger D., Brown, Tom and Fox, Keith R. (2004) DNA sequence recognition by an isopropyl substituted thiazole polyamide. Nucleic Acids Research, 32 (11), 3410-3417. (doi:10.1093/nar/gkh666).

Record type: Article

Abstract

We have used DNA footprinting and fluorescence melting experiments to study the sequence-specific binding of a novel minor groove binding ligand (thiazotropsin A), containing an isopropyl substituted thiazole polyamide, to DNA. In one fragment, which contains every tetranucleotide sequence, sub-micromolar concentrations of the ligand generate a single footprint at the sequence ACTAGT. This sequence preference is confirmed in melting experiments with fluorescently labelled oligonucleotides. Experiments with DNA fragments that contain variants of this sequence suggest that the ligand also binds, with slightly lower affinity, to sequences of the type XCYRGZ, where X is any base except C, and Z is any base except G.

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More information

Published date: 1 June 2004
Keywords: minor-groove, hairpin polyamide, binding, drug, duplex, specificity, distamycin, netropsin, ligands

Identifiers

Local EPrints ID: 20246
URI: http://eprints.soton.ac.uk/id/eprint/20246
ISSN: 0305-1048
PURE UUID: efc3319c-823f-44a8-8bf6-7c78016a8fa8
ORCID for Keith R. Fox: ORCID iD orcid.org/0000-0002-2925-7315

Catalogue record

Date deposited: 21 Feb 2006
Last modified: 09 Jan 2022 02:35

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Contributors

Author: Peter L. James
Author: Elena E. Merkina
Author: Abedawn I. Khalaf
Author: Colin J. Suckling
Author: Roger D. Waigh
Author: Tom Brown
Author: Keith R. Fox ORCID iD

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