Hydrodynamic effects on the translocation rate of a polymer through a pore
The translocation of large DNA molecules through narrow pores has been examined in the context of multiscale simulations that include a full coupling of fluctuating hydrodynamic interactions, boundary effects, and molecular conformation. The actual rate constants for this process are determined for...
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| Veröffentlicht in: | The Journal of chemical physics 2009-07, Vol.131 (4), p.044904-044904-8 |
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| container_end_page | 044904-8 |
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| container_issue | 4 |
| container_start_page | 044904 |
| container_title | The Journal of chemical physics |
| container_volume | 131 |
| creator | Hernández-Ortiz, Juan P. Chopra, Manan Geier, Stephanie de Pablo, Juan J. |
| description | The translocation of large DNA molecules through narrow pores has been examined in the context of multiscale simulations that include a full coupling of fluctuating hydrodynamic interactions, boundary effects, and molecular conformation. The actual rate constants for this process are determined for the first time, and it is shown that hydrodynamic interactions can lead to translocation rates that vary by multiple orders of magnitude when molecular weights are only changed by a factor of 10, in stark contrast to predictions from widely used free draining calculations. |
| doi_str_mv | 10.1063/1.3184798 |
| format | Article |
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The actual rate constants for this process are determined for the first time, and it is shown that hydrodynamic interactions can lead to translocation rates that vary by multiple orders of magnitude when molecular weights are only changed by a factor of 10, in stark contrast to predictions from widely used free draining calculations.</description><subject>Biological Transport</subject><subject>Computer Simulation</subject><subject>DNA - chemistry</subject><subject>Kinetics</subject><subject>Polymers - chemistry</subject><subject>Porosity</subject><issn>0021-9606</issn><issn>1089-7690</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2009</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNp1kMFKxDAURYMozji68AekK8FFx5emTZqNIIM6yoAbXYc0eXUqbTMm7aJ_b50p6MbVg8vhct8h5JLCkgJnt3TJaJ4KmR-ROYVcxoJLOCZzgITGkgOfkbMQPgGAiiQ9JTMqeZZJyufkZT1Y7-zQ6qYyEZYlmi5Ero26LUad122ondFdNSZedxi5MtLRztVDg35kvOs_tvvE4zk5KXUd8GK6C_L--PC2Wseb16fn1f0mNimkXUwFoLRZYbKCgmBAx1WcJxlYq4W0uTAipbrUCYLUTKTW8kQUiU1KxAxZxhbk-tC78-6rx9CppgoG61q36PqguBh_SxM2gjcH0HgXgsdS7XzVaD8oCupHnKJqEjeyV1NpXzRof8nJ1AjcHYBgqm4v5P-2v07V5JR9A1LwfS0</recordid><startdate>20090728</startdate><enddate>20090728</enddate><creator>Hernández-Ortiz, Juan P.</creator><creator>Chopra, Manan</creator><creator>Geier, Stephanie</creator><creator>de Pablo, Juan J.</creator><general>American Institute of Physics</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope></search><sort><creationdate>20090728</creationdate><title>Hydrodynamic effects on the translocation rate of a polymer through a pore</title><author>Hernández-Ortiz, Juan P. ; Chopra, Manan ; Geier, Stephanie ; de Pablo, Juan J.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c404t-170e9d5bc5b10730100166250dda79d87c741afa2e09a374dd627b2d2fee5e353</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2009</creationdate><topic>Biological Transport</topic><topic>Computer Simulation</topic><topic>DNA - chemistry</topic><topic>Kinetics</topic><topic>Polymers - chemistry</topic><topic>Porosity</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Hernández-Ortiz, Juan P.</creatorcontrib><creatorcontrib>Chopra, Manan</creatorcontrib><creatorcontrib>Geier, Stephanie</creatorcontrib><creatorcontrib>de Pablo, Juan J.</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><jtitle>The Journal of chemical physics</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Hernández-Ortiz, Juan P.</au><au>Chopra, Manan</au><au>Geier, Stephanie</au><au>de Pablo, Juan J.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Hydrodynamic effects on the translocation rate of a polymer through a pore</atitle><jtitle>The Journal of chemical physics</jtitle><addtitle>J Chem Phys</addtitle><date>2009-07-28</date><risdate>2009</risdate><volume>131</volume><issue>4</issue><spage>044904</spage><epage>044904-8</epage><pages>044904-044904-8</pages><issn>0021-9606</issn><eissn>1089-7690</eissn><coden>JCPSA6</coden><abstract>The translocation of large DNA molecules through narrow pores has been examined in the context of multiscale simulations that include a full coupling of fluctuating hydrodynamic interactions, boundary effects, and molecular conformation. 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| identifier | ISSN: 0021-9606 |
| ispartof | The Journal of chemical physics, 2009-07, Vol.131 (4), p.044904-044904-8 |
| issn | 0021-9606 1089-7690 |
| language | eng |
| recordid | cdi_proquest_miscellaneous_67559423 |
| source | MEDLINE; AIP Journals Complete; AIP Digital Archive; Alma/SFX Local Collection |
| subjects | Biological Transport Computer Simulation DNA - chemistry Kinetics Polymers - chemistry Porosity |
| title | Hydrodynamic effects on the translocation rate of a polymer through a pore |
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