IDENTIFICATION OF RNA-BINDING SITES IN ARTEMIN BASED ON DOCKING ENERGY LANDSCAPES AND MOLECULAR DYNAMICS SIMULATION

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RASTI BEHNAM; SHAHANGIAN SEYEDEH SHIRIN; TAGHDIR MAJID; HASANNIA SADEGH; HASAN SAJEDI REZA

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Journal: Iranian Journal of Biotechnology Year:2012 | Volume:10 | Issue:1 Page(s): 8-15

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Title

IDENTIFICATION OF RNA-BINDING SITES IN ARTEMIN BASED ON DOCKING ENERGY LANDSCAPES AND MOLECULAR DYNAMICS SIMULATION

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Keywords

ARTEMINQ2

DOCKING ENERGY LANDSCAPESQ2

MOLECULAR DYNAMICS SIMULATIONQ2

RNA-PROTECTING ROLEQ2

Abstract

There are questions concerning the functions of ARTEMIN, an abundant stress protein found inArtemia during embryo development. It has been reported that ARTEMIN binds RNA at high temperaturesin vitro, suggesting an RNA protective role. In this study, we investigated the possibility of the presence of RNA-binding sites and their structural properties in ARTEMIN, using DOCKING ENERGY LANDSCAPES and MOLECULAR DYNAMICS SIMULATION. Analysis of DOCKING ENERGY LANDSCAPES revealed sites in ARTEMIN with the potential of binding RNAs. We found a good agreement between RNA-binding sites of ARTEMIN and RNA-interacting sites of a specific group of RNA-binding proteins called PUF, as regards to the type of their interactions with RNA molecules. Furthermore, the results from MOLECULAR DYNAMICS SIMULATION showed that firstly, the presence of RNA molecule and its interaction with ARTEMIN cause significant decrease in the secondary structure content of ARTEMIN; secondly, RNA-binding sites are mostly located in the low flexible regions. Finally, it seems that these binding sites are distributed in such a way that leads RNA molecule into the interior of the protein, strengthening the previous suggestion for RNA-PROTECTING ROLE of ARTEMIN.

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APA: Copy

RASTI, BEHNAM, SHAHANGIAN, SEYEDEH SHIRIN, TAGHDIR, MAJID, HASANNIA, SADEGH, & HASAN SAJEDI, REZA. (2012). IDENTIFICATION OF RNA-BINDING SITES IN ARTEMIN BASED ON DOCKING ENERGY LANDSCAPES AND MOLECULAR DYNAMICS SIMULATION. IRANIAN JOURNAL OF BIOTECHNOLOGY, 10(1), 8-15. SID. https://sid.ir/paper/139249/en

Vancouver: Copy

RASTI BEHNAM, SHAHANGIAN SEYEDEH SHIRIN, TAGHDIR MAJID, HASANNIA SADEGH, HASAN SAJEDI REZA. IDENTIFICATION OF RNA-BINDING SITES IN ARTEMIN BASED ON DOCKING ENERGY LANDSCAPES AND MOLECULAR DYNAMICS SIMULATION. IRANIAN JOURNAL OF BIOTECHNOLOGY[Internet]. 2012;10(1):8-15. Available from: https://sid.ir/paper/139249/en

IEEE: Copy

BEHNAM RASTI, SEYEDEH SHIRIN SHAHANGIAN, MAJID TAGHDIR, SADEGH HASANNIA, and REZA HASAN SAJEDI, “IDENTIFICATION OF RNA-BINDING SITES IN ARTEMIN BASED ON DOCKING ENERGY LANDSCAPES AND MOLECULAR DYNAMICS SIMULATION,” IRANIAN JOURNAL OF BIOTECHNOLOGY, vol. 10, no. 1, pp. 8–15, 2012, [Online]. Available: https://sid.ir/paper/139249/en

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