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rdf:type |
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lifeskim:mentions |
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pubmed:issue |
12
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pubmed:dateCreated |
2009-12-3
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pubmed:abstractText |
It is known that DNA-binding proteins can slide along the DNA helix while searching for specific binding sites, but their path of motion remains obscure. Do these proteins undergo simple one-dimensional (1D) translational diffusion, or do they rotate to maintain a specific orientation with respect to the DNA helix? We measured 1D diffusion constants as a function of protein size while maintaining the DNA-protein interface. Using bootstrap analysis of single-molecule diffusion data, we compared the results to theoretical predictions for pure translational motion and rotation-coupled sliding along the DNA. The data indicate that DNA-binding proteins undergo rotation-coupled sliding along the DNA helix and can be described by a model of diffusion along the DNA helix on a rugged free-energy landscape. A similar analysis including the 1D diffusion constants of eight proteins of varying size shows that rotation-coupled sliding is a general phenomenon. The average free-energy barrier for sliding along the DNA was 1.1 +/- 0.2 k(B)T. Such small barriers facilitate rapid search for binding sites.
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pubmed:grant |
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pubmed:commentsCorrections |
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-10706276,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-11313499,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-12628933,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-12947199,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-15220401,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-15256661,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-15256668,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-15465864,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-15469913,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-15800616,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-16497933,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-16585517,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-17525339,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-18321088,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-18424488,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-19008444,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-19181848,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-19254550,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-19411704,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-2642903,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-3353365,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-380674,
http://linkedlifedata.com/resource/pubmed/commentcorrection/19898474-7317363
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pubmed:language |
eng
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pubmed:journal |
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pubmed:citationSubset |
IM
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pubmed:chemical |
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pubmed:status |
MEDLINE
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pubmed:month |
Dec
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pubmed:issn |
1545-9985
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pubmed:author |
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pubmed:issnType |
Electronic
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pubmed:volume |
16
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pubmed:owner |
NLM
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pubmed:authorsComplete |
Y
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pubmed:pagination |
1224-9
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pubmed:dateRevised |
2011-9-26
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pubmed:meshHeading |
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pubmed:year |
2009
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pubmed:articleTitle |
Nonspecifically bound proteins spin while diffusing along DNA.
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pubmed:affiliation |
Department of Chemistry and Chemical Biology, Harvard University, Cambridge, Massachusetts, USA.
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pubmed:publicationType |
Journal Article,
Research Support, U.S. Gov't, Non-P.H.S.,
Research Support, Non-U.S. Gov't,
Research Support, N.I.H., Extramural
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