1tut

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[[Image:1tut.gif|left|200px]]
[[Image:1tut.gif|left|200px]]
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{{Structure
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<!--
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|PDB= 1tut |SIZE=350|CAPTION= <scene name='initialview01'>1tut</scene>
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The line below this paragraph, containing "STRUCTURE_1tut", creates the "Structure Box" on the page.
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|SITE=
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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|LIGAND= <scene name='pdbligand=A:ADENOSINE-5&#39;-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5&#39;-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=G:GUANOSINE-5&#39;-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=U:URIDINE-5&#39;-MONOPHOSPHATE'>U</scene>
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{{STRUCTURE_1tut| PDB=1tut | SCENE= }}
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|RELATEDENTRY=
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1tut FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1tut OCA], [http://www.ebi.ac.uk/pdbsum/1tut PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1tut RCSB]</span>
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'''J4/5 Loop from the Candida albicans and Candida dubliniensis Group I Introns'''
'''J4/5 Loop from the Candida albicans and Candida dubliniensis Group I Introns'''
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==About this Structure==
==About this Structure==
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1TUT is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TUT OCA].
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1TUT OCA].
==Reference==
==Reference==
Structural features and thermodynamics of the J4/5 loop from the Candida albicans and Candida dubliniensis group I introns., Znosko BM, Kennedy SD, Wille PC, Krugh TR, Turner DH, Biochemistry. 2004 Dec 21;43(50):15822-37. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15595837 15595837]
Structural features and thermodynamics of the J4/5 loop from the Candida albicans and Candida dubliniensis group I introns., Znosko BM, Kennedy SD, Wille PC, Krugh TR, Turner DH, Biochemistry. 2004 Dec 21;43(50):15822-37. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15595837 15595837]
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[[Category: Protein complex]]
 
[[Category: Kennedy, S D.]]
[[Category: Kennedy, S D.]]
[[Category: Krugh, T R.]]
[[Category: Krugh, T R.]]
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[[Category: Wille, P C.]]
[[Category: Wille, P C.]]
[[Category: Znosko, B M.]]
[[Category: Znosko, B M.]]
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[[Category: aa pair]]
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[[Category: Aa pair]]
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[[Category: gu pair]]
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[[Category: Gu pair]]
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[[Category: internal loop]]
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[[Category: Internal loop]]
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[[Category: nmr]]
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[[Category: Nmr]]
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[[Category: rna]]
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[[Category: Rna]]
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[[Category: tandem mismatch]]
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[[Category: Tandem mismatch]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 10:23:41 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 00:01:20 2008''
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Revision as of 07:23, 3 May 2008

Image:1tut.gif

Template:STRUCTURE 1tut

J4/5 Loop from the Candida albicans and Candida dubliniensis Group I Introns


Overview

The J4/5 loop of group I introns has tertiary interactions with the P1 helix that position the P1 substrate for the self-splicing reaction. The J4/5 loop of Candida albicans and Candida dubliniensis, 5'GAAGG3'/3'UAAUU5', potentially contains two A.A pairs flanked by one G.U pair on one side and two G.U pairs on the other side. Results from optical melting, nuclear magnetic resonance spectroscopy, and functional group substitution experiments with a mimic of the C. albicans and C. dubliniensis J4/5 loop are consistent with the adenosines forming tandem sheared A.A pairs with a cross-strand stack and only the G.U pair not adjacent to an A.A pair forming a static wobble G.U pair. The two G.U pairs adjacent to the tandem A.A pairs are likely in a dynamic equilibrium between multiple conformations. Although Co(NH(3))(6)(3+) stabilizes the loop by several kilocalories per mole at 37 degrees C, addition of Mg(2+) or Co(NH(3))(6)(3+) has no effect on the structure of the loop. The tandem G.U pairs provide a pocket of negative charge for Co(NH(3))(6)(3+) to bind. The results contribute to understanding the structure and dynamics of purine-rich internal loops and potential G.U pairs adjacent to internal loops.

About this Structure

Full crystallographic information is available from OCA.

Reference

Structural features and thermodynamics of the J4/5 loop from the Candida albicans and Candida dubliniensis group I introns., Znosko BM, Kennedy SD, Wille PC, Krugh TR, Turner DH, Biochemistry. 2004 Dec 21;43(50):15822-37. PMID:15595837 Page seeded by OCA on Sat May 3 10:23:41 2008

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