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| Type |
Poster Presentation |
| Area |
Physical Chemistry |
| Room No. |
Event Hall |
| Time |
4월 20일 (금요일) 11:00~12:30 |
| Code |
PHYS.P-157 |
| Subject |
DNA ejection rate is determined by the initial conformation of DNA in a viral capsid |
| Authors |
JungBin Park, Bong June Sung*
Department of Chemistry, Sogang University, Korea
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| Abstract |
DNA ejection out of a viral capsid is an irreversible process such that the DNA stays out of equilibrium during the ejection. Especially, the conformation of DNA in the viral capsid hardly relaxes to its equilibrium conformation due to confinement effects and entanglements. Therefore, scientific questions remain: how the non-equilibrium conformation of a polymer in a capsid influences the ejection and how important the conformation relaxation is in the ejection process. We demonstrate that initial conformations of DNA in a viral capsid should change the ejection rate significantly and delineate the importance of conformational relaxation via strand-crossings during ejection process. We carry out Langevin Dynamics simulations of a single chain made of 1024 monomers. In order to investigate the effect of the initial conformation of a polymer on the ejection rate, we employ two types of initial conformations; 1) highly entangled 2) less entangled. We find that the ejection process becomes slow by a factor of two or more when the polymer is highly entangled in the viral capsid. In these cases, entanglements make the polymer backbone highly tensed, which hinder the polymer from being pulled out from the capsid. We also find that strand-crossings can make the ejection fast despite of the entangled initial conditions. To delineate the effects of strand-crossings, we set two types of polymer models. By tuning the force constant of FENE (Finitely Extensible Non-linear Elastic) bead-spring model for the chain, we either allow or disallow the chain to undergo strand-crossings. As a result, if the strand-crossings are allowed, they make the polymer to relax its conformation during ejection, thus driving the ejection process fast regardless of its initial conformation. |
| E-mail |
jungbin919191@gmail.com |
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121st General Meeting of the KCS