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- Publisher Website: 10.1021/ct401029k
- Scopus: eid_2-s2.0-84902146276
- WOS: WOS:000337199300032
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Article: Resolution-Adapted All-Atomic and Coarse-Grained Model for Biomolecular Simulations
Title | Resolution-Adapted All-Atomic and Coarse-Grained Model for Biomolecular Simulations |
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Authors | |
Issue Date | 2014 |
Citation | Journal of Chemical Theory and Computation, 2014, v. 10, p. 2528-2536 How to Cite? |
Abstract | We develop here an adaptive multiresolution method for the simulation of complex heterogeneous systems such as the protein molecules. The target molecular system is described with the atomistic structure while maintaining concurrently a mapping to the coarse-grained models. The theoretical model, or force field, used to describe the interactions between two sites is automatically adjusted in the simulation processes according to the interaction distance/strength. Therefore, all-atomic, coarse-grained, or mixed all-atomic and coarse-grained models would be used together to describe the interactions between a group of atoms and its surroundings. Because the choice of theory is made on the force field level while the sampling is always carried out in the atomic space, the new adaptive method preserves naturally the atomic structure and thermodynamic properties of the entire system throughout the simulation processes. The new method will be very useful in many biomolecular simulations where atomistic details are critically needed. |
Persistent Identifier | http://hdl.handle.net/10722/200500 |
ISSN | 2023 Impact Factor: 5.7 2023 SCImago Journal Rankings: 1.457 |
ISI Accession Number ID |
DC Field | Value | Language |
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dc.contributor.author | Shen, L | en_US |
dc.contributor.author | Hu, H | en_US |
dc.date.accessioned | 2014-08-21T06:48:45Z | - |
dc.date.available | 2014-08-21T06:48:45Z | - |
dc.date.issued | 2014 | en_US |
dc.identifier.citation | Journal of Chemical Theory and Computation, 2014, v. 10, p. 2528-2536 | en_US |
dc.identifier.issn | 1549-9618 | - |
dc.identifier.uri | http://hdl.handle.net/10722/200500 | - |
dc.description.abstract | We develop here an adaptive multiresolution method for the simulation of complex heterogeneous systems such as the protein molecules. The target molecular system is described with the atomistic structure while maintaining concurrently a mapping to the coarse-grained models. The theoretical model, or force field, used to describe the interactions between two sites is automatically adjusted in the simulation processes according to the interaction distance/strength. Therefore, all-atomic, coarse-grained, or mixed all-atomic and coarse-grained models would be used together to describe the interactions between a group of atoms and its surroundings. Because the choice of theory is made on the force field level while the sampling is always carried out in the atomic space, the new adaptive method preserves naturally the atomic structure and thermodynamic properties of the entire system throughout the simulation processes. The new method will be very useful in many biomolecular simulations where atomistic details are critically needed. | en_US |
dc.language | eng | en_US |
dc.relation.ispartof | Journal of Chemical Theory and Computation | en_US |
dc.title | Resolution-Adapted All-Atomic and Coarse-Grained Model for Biomolecular Simulations | en_US |
dc.type | Article | en_US |
dc.identifier.email | Shen, L: shenl@hku.hk | en_US |
dc.identifier.email | Hu, H: haohu@hku.hk | en_US |
dc.identifier.authority | Hu, H=rp00707 | en_US |
dc.identifier.doi | 10.1021/ct401029k | en_US |
dc.identifier.scopus | eid_2-s2.0-84902146276 | - |
dc.identifier.hkuros | 234702 | en_US |
dc.identifier.volume | 10 | en_US |
dc.identifier.spage | 2528 | en_US |
dc.identifier.epage | 2536 | en_US |
dc.identifier.eissn | 1549-9626 | - |
dc.identifier.isi | WOS:000337199300032 | - |
dc.identifier.issnl | 1549-9618 | - |