Skip Navigation


Nucleic Acids Research Advance Access originally published online on October 28, 2008
Nucleic Acids Research 2009 37(Database issue):D159-D162; doi:10.1093/nar/gkn772
This Article
Right arrow Full Text Freely available
Right arrow Print PDF (74K) Freely available
Right arrow Screen PDF (84K) Freely available
Right arrowOA All Versions of this Article:
37/suppl_1/D159    most recent
gkn772v1
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrow Commercial Re-use Guidelines
for Open Access NAR Content
Google Scholar
Right arrow Articles by Jühling, F.
Right arrow Articles by Pütz, J.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Jühling, F.
Right arrow Articles by Pütz, J.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Nucleic Acids Research, 2009, Vol. 37, Database issue D159-D162
Published by Oxford University Press 2008
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

This article appears in the following Nucleic Acids Research issue: Database issue [View the issue table of contents]

Articles

tRNAdb 2009: compilation of tRNA sequences and tRNA genes

Frank Jühling1, Mario Mörl2, Roland K. Hartmann3, Mathias Sprinzl4, Peter F. Stadler1,5,6,7 and Joern Pütz8,*

1Bioinformatics Group, Department of Computer Science and Interdisciplinary Center for Bioinformatics, University of Leipzig, Härtelstrasse 16-18, D-04107 Leipzig, 2Institute for Biochemistry, University of Leipzig, Brüderstrasse 34, 04103 Leipzig, 3Institut für Pharmazeutische Chemie, Philipps-Universität Marburg, D-35037 Marburg, 4Laboratorium für Biochemie, Universität Bayreuth, Universitätsstrasse 30, D-95440 Bayreuth, 5RNomics Group, Fraunhofer Institut für Zelltherapie und Immunologie, Perlickstrasse 1, D-04103 Leipzig, Germany, 6Department of Theoretical Chemistry, University of Vienna, Währingerstrasse 17, A-1090 Wien, Austria, 7Santa Fe Institute, 1399 Hyde Park Rd., Santa Fe, NM 87501, USA and 8Architecture et Réactivité de l'ARN, Université Louis Pasteur de Strasbourg, CNRS, IBMC, 15 rue René Descartes, 67084 Strasbourg, France

*To whom correspondence should be addressed. Tel: +33 3 88 41 70 48; Fax: +33 3 88 60 22 18; Email: j.puetz{at}ibmc.u-strasbg.fr

Received September 11, 2008. Accepted October 7, 2008.

One of the first specialized collections of nucleic acid sequences in life sciences was the ‘compilation of tRNA sequences and sequences of tRNA genes’ (http://www.trna.uni-bayreuth.de). Here, an updated and completely restructured version of this compilation is presented (http://trnadb.bioinf.uni-leipzig.de). The new database, tRNAdb, is hosted and maintained in cooperation between the universities of Leipzig, Marburg, and Strasbourg. Reimplemented as a relational database, tRNAdb will be updated periodically and is searchable in a highly flexible and user-friendly way. Currently, it contains more than 12 000 tRNA genes, classified into families according to amino acid specificity. Furthermore, the implementation of the NCBI taxonomy tree facilitates phylogeny-related queries. The database provides various services including graphical representations of tRNA secondary structures, a customizable output of aligned or un-aligned sequences with a variety of individual and combinable search criteria, as well as the construction of consensus sequences for any selected set of tRNAs.


Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 Nucleic Acids ResHome page
M. Messmer, J. Putz, T. Suzuki, T. Suzuki, C. Sauter, M. Sissler, and F. Catherine
Tertiary network in mammalian mitochondrial tRNAAsp revealed by solution probing and phylogeny
Nucleic Acids Res., November 1, 2009; 37(20): 6881 - 6895.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
Y. Itoh, S. Chiba, S.-i. Sekine, and S. Yokoyama
Crystal structure of human selenocysteine tRNA
Nucleic Acids Res., October 1, 2009; 37(18): 6259 - 6268.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
A. Nagao, T. Suzuki, T. Katoh, Y. Sakaguchi, and T. Suzuki
Biogenesis of glutaminyl-mt tRNAGln in human mitochondria
PNAS, September 22, 2009; 106(38): 16209 - 16214.
[Abstract] [Full Text] [PDF]

Home page
 RNAHome page
M. Messmer, A. Gaudry, M. Sissler, and C. Florentz
Pathology-related mutation A7526G (A9G) helps in the understanding of the 3D structural core of human mitochondrial tRNAAsp
RNA, August 1, 2009; 15(8): 1462 - 1468.
[Abstract] [Full Text] [PDF]

Home page
 Proc. Natl. Acad. Sci. USAHome page
H. Nishimasu, R. Ishitani, K. Yamashita, C. Iwashita, A. Hirata, H. Hori, and O. Nureki
Atomic structure of a folate/FAD-dependent tRNA T54 methyltransferase
PNAS, May 19, 2009; 106(20): 8180 - 8185.
[Abstract] [Full Text] [PDF]

Home page
 Nucleic Acids ResHome page
M. Y. Galperin and G. R. Cochrane
Nucleic Acids Research annual Database Issue and the NAR online Molecular Biology Database Collection in 2009
Nucleic Acids Res., January 1, 2009; 37(suppl_1): D1 - D4.
[Abstract] [Full Text] [PDF]


Disclaimer: Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.