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User:Wayne Decatur/kink-turn motif
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==Structures Containing the Motif== | ==Structures Containing the Motif== | ||
* [[1e7k]] – the spliceosomal and snoRNP 15.5kD protein bound to a U4 snRNA fragment<ref>PMID: 11163207</ref> | * [[1e7k]] – the spliceosomal and snoRNP 15.5kD protein bound to a U4 snRNA fragment<ref>PMID: 11163207</ref> | ||
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| + | * The structure of the large ribosomal subunit revealed many motifs now known to be common in other rRNAs. The kink-turn, or k-turn, is one such example<sup><nowiki>[</nowiki>[[#cite note-22|23]]<nowiki>]</nowiki></sup>. Those in the ''Haloarcula'' large ribosomal subunit are shown clearly in Jmol by following the appropriate links on [http://www.dundee.ac.uk/biocentre/nasg/kturn/kturns_known.php this page at a structural database for k-turn motifs in RNA by the Lilley group], although where they are in the context of the entire subunit is not presented. | ||
==See Also== | ==See Also== | ||
| + | * The structure of the large ribosomal subunit revealed many motifs now known to be common in other rRNAs. The kink-turn, or k-turn, is one such example<sup><nowiki>[</nowiki>[[#cite note-22|23]]<nowiki>]</nowiki></sup>. Those in the ''Haloarcula'' large ribosomal subunit are shown clearly in Jmol by following the appropriate links on [http://www.dundee.ac.uk/biocentre/nasg/kturn/kturns_known.php this page at a structural database for k-turn motifs in RNA by the Lilley group], although where they are in the context of the entire subunit is not presented. | ||
* [[Ribosome]] | * [[Ribosome]] | ||
* [[Large Ribosomal Subunit of Haloarcula]] | * [[Large Ribosomal Subunit of Haloarcula]] | ||
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*[http://www.pdb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb121_1.html 70S Ribosome: January 2010 Molecule of the Month] as part of the series of tutorials that are at [http://www.pdb.org/pdb/home/home.do the RCSB Protein Data Bank] and written by [[User:David_S._Goodsell|David Goodsell]] | *[http://www.pdb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb121_1.html 70S Ribosome: January 2010 Molecule of the Month] as part of the series of tutorials that are at [http://www.pdb.org/pdb/home/home.do the RCSB Protein Data Bank] and written by [[User:David_S._Goodsell|David Goodsell]] | ||
*[http://www.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb10_1.html Ribosome: October 2000 Molecule of the Month] as part of the series of tutorials that are at [http://www.pdb.org/pdb/home/home.do the RCSB Protein Data Bank] and written by [[User:David_S._Goodsell|David Goodsell]] | *[http://www.rcsb.org/pdb/static.do?p=education_discussion/molecule_of_the_month/pdb10_1.html Ribosome: October 2000 Molecule of the Month] as part of the series of tutorials that are at [http://www.pdb.org/pdb/home/home.do the RCSB Protein Data Bank] and written by [[User:David_S._Goodsell|David Goodsell]] | ||
| - | * The structure of the large ribosomal subunit revealed many motifs now known to be common in other rRNAs. The kink-turn, or k-turn, is one such example<sup><nowiki>[</nowiki>[[#cite note-22|23]]<nowiki>]</nowiki></sup>. Those in the ''Haloarcula'' large ribosomal subunit are shown clearly in Jmol by following the appropriate links on [http://www.dundee.ac.uk/biocentre/nasg/kturn/kturns_known.php this page at a structural database for k-turn motifs in RNA by the Lilley group], although where they are in the context of the entire subunit is not presented. | ||
Revision as of 22:38, 30 July 2010
- add Redirect from K-turn motif
- add redirect from GA motif
- add redirect from kink-turn
- add redirect from k-turn
The kink-turn motif
A common RNA structural motif that consists of helix–internal loop–helix motif .
Contents |
Introduction
Originally identified in the course of analyzing the large ribosomal subunit[1], the motif was identified in other RNAs. Particular instances are referred to as the the GA motif [2] A motif that includes the A-minor motif. Many K-turns bind proteins; however, they also mediate RNA tertiary structure interactions.
Structures Containing the Motif
- The structure of the large ribosomal subunit revealed many motifs now known to be common in other rRNAs. The kink-turn, or k-turn, is one such example[23]. Those in the Haloarcula large ribosomal subunit are shown clearly in Jmol by following the appropriate links on this page at a structural database for k-turn motifs in RNA by the Lilley group, although where they are in the context of the entire subunit is not presented.
See Also
- The structure of the large ribosomal subunit revealed many motifs now known to be common in other rRNAs. The kink-turn, or k-turn, is one such example[23]. Those in the Haloarcula large ribosomal subunit are shown clearly in Jmol by following the appropriate links on this page at a structural database for k-turn motifs in RNA by the Lilley group, although where they are in the context of the entire subunit is not presented.
- Ribosome
- Large Ribosomal Subunit of Haloarcula
- Small Ribosomal Subunit
- 1cn7, 1go1, 1go0, 1w3e and 1h7m – the yeast ribosomal protein L30[4][5][6] binds a kink-turn motif
- 1nkw – The Large Ribosomal Subunit From Deinococcus radiodurans
References
- ↑ Klein DJ, Schmeing TM, Moore PB, Steitz TA. The kink-turn: a new RNA secondary structure motif. EMBO J. 2001 Aug 1;20(15):4214-21. PMID:11483524 doi:http://dx.doi.org/10.1093/emboj/20.15.4214
- ↑ Winkler WC, Grundy FJ, Murphy BA, Henkin TM. The GA motif: an RNA element common to bacterial antitermination systems, rRNA, and eukaryotic RNAs. RNA. 2001 Aug;7(8):1165-72. PMID:11497434
- ↑ Vidovic I, Nottrott S, Hartmuth K, Luhrmann R, Ficner R. Crystal structure of the spliceosomal 15.5kD protein bound to a U4 snRNA fragment. Mol Cell. 2000 Dec;6(6):1331-42. PMID:11163207
- ↑ Mao H, White SA, Williamson JR. A novel loop-loop recognition motif in the yeast ribosomal protein L30 autoregulatory RNA complex. Nat Struct Biol. 1999 Dec;6(12):1139-47. PMID:10581556 doi:10.1038/70081
- ↑ Chen YW, Bycroft M, Wong KB. Crystal structure of ribosomal protein L30e from the extreme thermophile Thermococcus celer: thermal stability and RNA binding. Biochemistry. 2003 Mar 18;42(10):2857-65. PMID:12627951 doi:10.1021/bi027131s
- ↑ Wong KB, Lee CF, Chan SH, Leung TY, Chen YW, Bycroft M. Solution structure and thermal stability of ribosomal protein L30e from hyperthermophilic archaeon Thermococcus celer. Protein Sci. 2003 Jul;12(7):1483-95. PMID:12824494 doi:10.1110/ps.0302303
Additional Literature and Resources
- Moore PB. The ribosome returned. J Biol. 2009;8(1):8. Epub 2009 Jan 26. PMID:19222865 doi:10.1186/jbiol103
- Steitz TA. A structural understanding of the dynamic ribosome machine. Nat Rev Mol Cell Biol. 2008 Mar;9(3):242-53. PMID:18292779 doi:10.1038/nrm2352
- Rodnina MV, Wintermeyer W. The ribosome goes Nobel. Trends Biochem Sci. 2010 Jan;35(1):1-5. Epub 2009 Dec 2. PMID:19962317 doi:10.1016/j.tibs.2009.11.003
- Schmeing TM, Ramakrishnan V. What recent ribosome structures have revealed about the mechanism of translation. Nature. 2009 Oct 29;461(7268):1234-42. Epub 2009 Oct 18. PMID:19838167 doi:10.1038/nature08403
- Ramakrishnan V, Moore PB. Atomic structures at last: the ribosome in 2000. Curr Opin Struct Biol. 2001 Apr;11(2):144-54. PMID:11297922
- Schroeder KT, McPhee SA, Ouellet J, Lilley DM. A structural database for k-turn motifs in RNA. RNA. 2010 Aug;16(8):1463-8. Epub 2010 Jun 18. PMID:20562215 doi:10.1261/rna.2207910
- RCSB Protein Data Bank coverage of the 2009 Nobel Prizes in Chemistry
- 70S Ribosome: January 2010 Molecule of the Month as part of the series of tutorials that are at the RCSB Protein Data Bank and written by David Goodsell
- Ribosome: October 2000 Molecule of the Month as part of the series of tutorials that are at the RCSB Protein Data Bank and written by David Goodsell
