dorsal/arxiv
View SchemaStepwise bending of DNA by a single TATA-box Binding Protein
| Authors | Simon F. Tolic-Norrelykke, Mette B. Rasmusssen, Francesco S. Pavone, Kirstine Berg-Sorensen, Lene B. Oddershede |
|---|---|
| Categories | |
| ArXiv ID | physics/0603049 |
| URL | https://arxiv.org/abs/physics/0603049 |
| DOI | 10.1529/biophysj.105.074856 |
| Journal | Biophysical Journal 90:3694-3703 (2006) |
Abstract
The TATA-box Binding Protein (TBP) is required by all three eukaryotic RNA polymerases for the initiation of transcription from most promoters. TBP recognizes, binds to, and bends promoter sequences called ``TATA-boxes'' in the DNA. We present results from the study of individual Saccharomyces cerevisia TBPs interacting with single DNA molecules containing a TATA-box. Using video microscopy, we observed the Brownian motion of beads tethered by short surface-bound DNA. When TBP binds to and bends the DNA, the conformation of the DNA changes and the amplitude of Brownian motion of the tethered bead is reduced compared to that of unbent DNA. We detected individual binding and dissociation events and derived kinetic parameters for the process. Dissociation was induced by increasing the salt concentration or by directly pulling on the tethered bead using optical tweezers. In addition to the well-defined free and bound classes of Brownian motion, we observed another two classes of motion. These extra classes were identified with intermediate states on a three-step, linear binding pathway. Biological implications of the intermediate states are discussed.
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"abstract": "The TATA-box Binding Protein (TBP) is required by all three eukaryotic RNA\npolymerases for the initiation of transcription from most promoters. TBP\nrecognizes, binds to, and bends promoter sequences called ``TATA-boxes\u0027\u0027 in the\nDNA. We present results from the study of individual Saccharomyces cerevisia\nTBPs interacting with single DNA molecules containing a TATA-box. Using video\nmicroscopy, we observed the Brownian motion of beads tethered by short\nsurface-bound DNA. When TBP binds to and bends the DNA, the conformation of the\nDNA changes and the amplitude of Brownian motion of the tethered bead is\nreduced compared to that of unbent DNA. We detected individual binding and\ndissociation events and derived kinetic parameters for the process.\nDissociation was induced by increasing the salt concentration or by directly\npulling on the tethered bead using optical tweezers. In addition to the\nwell-defined free and bound classes of Brownian motion, we observed another two\nclasses of motion. These extra classes were identified with intermediate states\non a three-step, linear binding pathway. Biological implications of the\nintermediate states are discussed.",
"arxiv_id": "physics/0603049",
"authors": [
"Simon F. Tolic-Norrelykke",
"Mette B. Rasmusssen",
"Francesco S. Pavone",
"Kirstine Berg-Sorensen",
"Lene B. Oddershede"
],
"categories": [
"physics.bio-ph",
"q-bio.BM"
],
"doi": "10.1529/biophysj.105.074856",
"journal_ref": "Biophysical Journal 90:3694-3703 (2006)",
"title": "Stepwise bending of DNA by a single TATA-box Binding Protein",
"url": "https://arxiv.org/abs/physics/0603049"
},
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