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Computational studies on the cognate and non-cognate aminoacyl-tRNAs

Although kinetic proofreading plays a major role in the fidelity of protein synthesis, it only includes the codon-anticodon interaction without considering the amino acid side chain. It is not known whether the ribosome has a specific interaction with the amino acid side chain or if the correctly ch...

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Main Authors: Monajemi, H., Abdullah, W.A.T.W., Zain, Sharifuddin Md
Format: Article
Published: Faculty of Science, University of Malaya 2011
Subjects:
QD Chemistry
Online Access:http://eprints.um.edu.my/6068/
http://www.scopus.com/inward/record.url?eid=2-s2.0-80054122918&partnerID=40&md5=cf93825b877dcc9e9576c81900f3d45d
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spelling my.um.eprints.60682021-04-27T08:09:27Z http://eprints.um.edu.my/6068/ Computational studies on the cognate and non-cognate aminoacyl-tRNAs Monajemi, H. Abdullah, W.A.T.W. Zain, Sharifuddin Md QD Chemistry Although kinetic proofreading plays a major role in the fidelity of protein synthesis, it only includes the codon-anticodon interaction without considering the amino acid side chain. It is not known whether the ribosome has a specific interaction with the amino acid side chain or if the correctly charged tRNA behaves in such a way that brings this fidelity to protein synthesis process. To answer this question, we performed some preliminary calculations using numerical analysis on the misacylated tRNAs and compared the results with that of the cognate aminoacyl-tRNAs. Due to the large size of the molecule, we used 2-layered ONIOM (QM/MM) calculations. Interestingly, it was observed that only the initiator tRNA, mat has a specific interaction with the amino acid side chain. Faculty of Science, University of Malaya 2011 Article PeerReviewed Monajemi, H. and Abdullah, W.A.T.W. and Zain, Sharifuddin Md (2011) Computational studies on the cognate and non-cognate aminoacyl-tRNAs. Malaysian Journal of Science, 30 (2). pp. 127-132. ISSN 1394-3065 http://www.scopus.com/inward/record.url?eid=2-s2.0-80054122918&partnerID=40&md5=cf93825b877dcc9e9576c81900f3d45d
institution Universiti Malaya
building UM Library
collection Institutional Repository
continent Asia
country Malaysia
content_provider Universiti Malaya
content_source UM Research Repository
url_provider http://eprints.um.edu.my/
topic QD Chemistry
spellingShingle QD Chemistry
Monajemi, H.
Abdullah, W.A.T.W.
Zain, Sharifuddin Md
Computational studies on the cognate and non-cognate aminoacyl-tRNAs
description Although kinetic proofreading plays a major role in the fidelity of protein synthesis, it only includes the codon-anticodon interaction without considering the amino acid side chain. It is not known whether the ribosome has a specific interaction with the amino acid side chain or if the correctly charged tRNA behaves in such a way that brings this fidelity to protein synthesis process. To answer this question, we performed some preliminary calculations using numerical analysis on the misacylated tRNAs and compared the results with that of the cognate aminoacyl-tRNAs. Due to the large size of the molecule, we used 2-layered ONIOM (QM/MM) calculations. Interestingly, it was observed that only the initiator tRNA, mat has a specific interaction with the amino acid side chain.
format Article
author Monajemi, H.
Abdullah, W.A.T.W.
Zain, Sharifuddin Md
author_facet Monajemi, H.
Abdullah, W.A.T.W.
Zain, Sharifuddin Md
author_sort Monajemi, H.
title Computational studies on the cognate and non-cognate aminoacyl-tRNAs
title_short Computational studies on the cognate and non-cognate aminoacyl-tRNAs
title_full Computational studies on the cognate and non-cognate aminoacyl-tRNAs
title_fullStr Computational studies on the cognate and non-cognate aminoacyl-tRNAs
title_full_unstemmed Computational studies on the cognate and non-cognate aminoacyl-tRNAs
title_sort computational studies on the cognate and non-cognate aminoacyl-trnas
publisher Faculty of Science, University of Malaya
publishDate 2011
url http://eprints.um.edu.my/6068/
http://www.scopus.com/inward/record.url?eid=2-s2.0-80054122918&partnerID=40&md5=cf93825b877dcc9e9576c81900f3d45d
_version_ 1698697303842357248
score 13.211869

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