User:Wayne Decatur/kink-turn motif: Difference between revisions

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WHEN MADE INTO AN OFFICIAL PAGE:<br>
WHEN MADE INTO AN OFFICIAL PAGE:<br>
* LINK FROM RNA motifs PAGE!!!!
* LINK FROM RNA motifs PAGE!!!!
* Fix links from and to ribosome page
* Fix link from topic pages and from table of contents
* Fix link from topic pages and from table of contents
* add Redirect from K-turn motif  
* add Redirect from K-turn motif  
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* [[Large Ribosomal Subunit of Haloarcula|The Large Ribosomal Subunit]]:
* [[Large Ribosomal Subunit of Haloarcula|The Large Ribosomal Subunit]]:
:* [[Large Ribosomal Subunit of Haloarcula|The Large Ribosomal Subunit]] contains 9 identified kink-turns<ref name="kleinref" /><ref name="lilleydatabase" />: <scene name='User:Wayne_Decatur/kink-turn_motif/Kt7withproteins/9'>Kt-7</scene> and Kt-7 <scene name='User:Wayne_Decatur/kink-turn_motif/Kt7withproteins/10'>with bound proteins</scene>; <scene name='User:Wayne_Decatur/kink-turn_motif/Kt15/2'>Kt-15</scene> and Kt-15 <scene name='User:Wayne_Decatur/kink-turn_motif/Kt15/3'>with bound proteins</scene>; <scene name='User:Wayne_Decatur/kink-turn_motif/Kt38/2'>Kt-38</scene>; <scene name='User:Wayne_Decatur/kink-turn_motif/Kt42/5'>Kt-42</scene> and Kt-42 <scene name='User:Wayne_Decatur/kink-turn_motif/Kt42/6'>with bound proteins</scene>; <scene name='User:Wayne_Decatur/kink-turn_motif/Kt46/2'>Kt-46</scene> and Kt-46 <scene name='User:Wayne_Decatur/kink-turn_motif/Kt46/3'>with bound proteins</scene>); <scene name='User:Wayne_Decatur/kink-turn_motif/Kt58/3'>Kt-58</scene> and Kt-58 <scene name='User:Wayne_Decatur/kink-turn_motif/Kt58/4'>with bound proteins</scene>; <scene name='User:Wayne_Decatur/kink-turn_motif/Kt4slash5/2'>Kt-4/5</scene> and Kt-4/5 <scene name='User:Wayne_Decatur/kink-turn_motif/Kt4slash5/5'>with bound protein</scene>; <scene name='User:Wayne_Decatur/kink-turn_motif/Kt94slash99/2'>Kt-94/99</scene> and Kt-94/99 with <scene name='User:Wayne_Decatur/kink-turn_motif/Kt94slash99/3'>bound protein</scene> of [[3cc2]]; <scene name='User:Wayne_Decatur/kink-turn_motif/Kt78/2'>Kt-78</scene> as observed in [[2wh2]] (While present based on sequence comparison, Kt-78 is in a portion of the large subunit not visible in the crystal structure of [[3cc2]].)
:* [[Large Ribosomal Subunit of Haloarcula|The Large Ribosomal Subunit]] contains 9 identified kink-turns<ref name="kleinref" /><ref name="lilleydatabase" />: <scene name='User:Wayne_Decatur/kink-turn_motif/Kt7withproteins/9'>Kt-7</scene> and Kt-7 <scene name='User:Wayne_Decatur/kink-turn_motif/Kt7withproteins/10'>with bound proteins</scene>; <scene name='User:Wayne_Decatur/kink-turn_motif/Kt15/2'>Kt-15</scene> and Kt-15 <scene name='User:Wayne_Decatur/kink-turn_motif/Kt15/3'>with bound proteins</scene>; <scene name='User:Wayne_Decatur/kink-turn_motif/Kt38/2'>Kt-38</scene>; <scene name='User:Wayne_Decatur/kink-turn_motif/Kt42/5'>Kt-42</scene> and Kt-42 <scene name='User:Wayne_Decatur/kink-turn_motif/Kt42/6'>with bound proteins</scene>; <scene name='User:Wayne_Decatur/kink-turn_motif/Kt46/2'>Kt-46</scene> and Kt-46 <scene name='User:Wayne_Decatur/kink-turn_motif/Kt46/3'>with bound proteins</scene>); <scene name='User:Wayne_Decatur/kink-turn_motif/Kt58/3'>Kt-58</scene> and Kt-58 <scene name='User:Wayne_Decatur/kink-turn_motif/Kt58/4'>with bound proteins</scene>; <scene name='User:Wayne_Decatur/kink-turn_motif/Kt4slash5/2'>Kt-4/5</scene> and Kt-4/5 <scene name='User:Wayne_Decatur/kink-turn_motif/Kt4slash5/5'>with bound protein</scene>; <scene name='User:Wayne_Decatur/kink-turn_motif/Kt94slash99/2'>Kt-94/99</scene> and Kt-94/99 with <scene name='User:Wayne_Decatur/kink-turn_motif/Kt94slash99/3'>bound protein</scene> of [[3cc2]]; <scene name='User:Wayne_Decatur/kink-turn_motif/Kt78/2'>Kt-78</scene> as observed in [[2wh2]] (While present based on sequence comparison, Kt-78 is in a portion of the large subunit not visible in the crystal structure of [[3cc2]].)
:* <scene name='User:Wayne_Decatur/kink-turn_motif/3cc2withkiturns/7'>The location of the eight kink-turns</scene> observed in the solved structure of [[Large Ribosomal Subunit of Haloarcula|the Haloarcula large ribosomal subunit]] shows they are on the surface of the subunit: <scene name='User:Wayne_Decatur/kink-turn_motif/3cc2withkiturnskt7/1'>Kt-7</scene>, <scene name='User:Wayne_Decatur/kink-turn_motif/3cc2withkiturnskt15/1'>Kt-15</scene>, <scene name='User:Wayne_Decatur/kink-turn_motif/3cc2withkiturnskt42/1'>Kt-42</scene>, <scene name='User:Wayne_Decatur/kink-turn_motif/3cc2withkiturnskt46/1'>Kt-46</scene>, <scene name='User:Wayne_Decatur/kink-turn_motif/3cc2withkiturnskt58/1'>Kt-58</scene>, <scene name='User:Wayne_Decatur/kink-turn_motif/3cc2withkiturns4slash5/1'>Kt-4/5</scene>, , <scene name='User:Wayne_Decatur/kink-turn_motif/3cc2withkiturns4slash5/1'>Kt-94/99</scene>,   (A ninth kink-turn, Kt-78, though present in ''Haloarcula marismortui'' rRNA is in a portion not resolved in the actual ''Haloarcula marismortui'' structure, yet is also on the surface.)
:* <scene name='User:Wayne_Decatur/kink-turn_motif/3cc2withkiturns/7'>The location of the eight kink-turns</scene> observed in the solved structure of [[Large Ribosomal Subunit of Haloarcula|the Haloarcula large ribosomal subunit]] shows they are on the surface of the subunit: <scene name='User:Wayne_Decatur/kink-turn_motif/3cc2withkiturnskt7/1'>Kt-7</scene>, <scene name='User:Wayne_Decatur/kink-turn_motif/3cc2withkiturnskt15/1'>Kt-15</scene>, <scene name='User:Wayne_Decatur/kink-turn_motif/3cc2withkiturnskt42/1'>Kt-42</scene>, <scene name='User:Wayne_Decatur/kink-turn_motif/3cc2withkiturnskt46/1'>Kt-46</scene>, <scene name='User:Wayne_Decatur/kink-turn_motif/3cc2withkiturnskt58/1'>Kt-58</scene>, <scene name='User:Wayne_Decatur/kink-turn_motif/3cc2withkiturns4slash5/1'>Kt-4/5</scene>, and <scene name='User:Wayne_Decatur/kink-turn_motif/3cc2withkiturns94slash99/1'>Kt-94/99</scene>.   (A ninth kink-turn, Kt-78, though present in ''Haloarcula marismortui'' rRNA is in a portion not resolved in the actual ''Haloarcula marismortui'' structure, yet is also on the surface.)
:* See all of the 23S rRNA kink-turns and others on this page in greater detail 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]<ref name="lilleydatabase" />.
:* See all of the 23S rRNA kink-turns and others on this page in greater detail 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]<ref name="lilleydatabase" />.
*  The human spliceosomal and small nucleolar RNA-binding 15.5kD protein bound to the kink-turn of a U4 spliceosomal RNA fragment ([[1e7k]])<ref name="u4xstal">PMID: 11163207</ref>. The fact both the box C/D small nucleolar RNAs and the spliceosomal U4 RNA share this motif, and in fact bind the same protein, was observed<ref>PMID: 11081632</ref><ref name="u4xstal" /> even before the kink-turn was shown to be a widespread [[RNA motifs|RNA motif]].
*  The human spliceosomal and small nucleolar RNA-binding 15.5kD protein bound to the kink-turn of a U4 spliceosomal RNA fragment ([[1e7k]])<ref name="u4xstal">PMID: 11163207</ref>. The fact both the box C/D small nucleolar RNAs and the spliceosomal U4 RNA share this motif, and in fact bind the same protein, was observed<ref>PMID: 11081632</ref><ref name="u4xstal" /> even before the kink-turn was shown to be a widespread [[RNA motifs|RNA motif]].
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