Brownian Dynamics Simulation Of A Five-site Model for a Motor Protein on a Bead-Spring Substrate
| Main Author: | |
|---|---|
| Language: | English |
| Published: |
University of Akron / OhioLINK
2014
|
| Subjects: | |
| Online Access: | http://rave.ohiolink.edu/etdc/view?acc_num=akron1415390064 |
| id |
ndltd-OhioLink-oai-etd.ohiolink.edu-akron1415390064 |
|---|---|
| record_format |
oai_dc |
| spelling |
ndltd-OhioLink-oai-etd.ohiolink.edu-akron14153900642021-08-03T06:27:54Z Brownian Dynamics Simulation Of A Five-site Model for a Motor Protein on a Bead-Spring Substrate Paudyal, Nabina Physics Motor proteins play an important role in many biological processes. For example,kinesin molecules are responsible for the transport of vesicles in nerve cells and theirmalfunction has been linked to neurodegenerative diseases. Unfortunately, the complexityof motor proteins and their environment makes it dicult to model the detaileddynamics of molecular motors over long time scales. In this work, we develop asimple coarse-grained model for a motor protein on a bead-spring substrate under tension.In our model, different pair potentials describe interactions between substrateand motor, motor components and substrate components. The movement of motorproteins entails ATP hydrolysis, which is modeled in terms of mechano-chemicalstates that couple positional and chemical degrees of freedom. We have identifiedmodel parameters corresponding to protein and chain conformations of a walkingprotein as well as transition rates for the states and apply our model to simulate amotor protein walker with cargo. 2014 English text University of Akron / OhioLINK http://rave.ohiolink.edu/etdc/view?acc_num=akron1415390064 http://rave.ohiolink.edu/etdc/view?acc_num=akron1415390064 unrestricted This thesis or dissertation is protected by copyright: all rights reserved. It may not be copied or redistributed beyond the terms of applicable copyright laws. |
| collection |
NDLTD |
| language |
English |
| sources |
NDLTD |
| topic |
Physics |
| spellingShingle |
Physics Paudyal, Nabina Brownian Dynamics Simulation Of A Five-site Model for a Motor Protein on a Bead-Spring Substrate |
| author |
Paudyal, Nabina |
| author_facet |
Paudyal, Nabina |
| author_sort |
Paudyal, Nabina |
| title |
Brownian Dynamics Simulation Of A Five-site Model for a Motor Protein on a Bead-Spring Substrate |
| title_short |
Brownian Dynamics Simulation Of A Five-site Model for a Motor Protein on a Bead-Spring Substrate |
| title_full |
Brownian Dynamics Simulation Of A Five-site Model for a Motor Protein on a Bead-Spring Substrate |
| title_fullStr |
Brownian Dynamics Simulation Of A Five-site Model for a Motor Protein on a Bead-Spring Substrate |
| title_full_unstemmed |
Brownian Dynamics Simulation Of A Five-site Model for a Motor Protein on a Bead-Spring Substrate |
| title_sort |
brownian dynamics simulation of a five-site model for a motor protein on a bead-spring substrate |
| publisher |
University of Akron / OhioLINK |
| publishDate |
2014 |
| url |
http://rave.ohiolink.edu/etdc/view?acc_num=akron1415390064 |
| work_keys_str_mv |
AT paudyalnabina browniandynamicssimulationofafivesitemodelforamotorproteinonabeadspringsubstrate |
| _version_ |
1719437098467983360 |