2jse

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{{STRUCTURE_2jse| PDB=2jse | SCENE= }}
{{STRUCTURE_2jse| PDB=2jse | SCENE= }}
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'''NMR reveals absence of hydrogen bonding in adjacent UU and AG mismatches in an isolated internal loop from ribosomal RNA.'''
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===NMR reveals absence of hydrogen bonding in adjacent UU and AG mismatches in an isolated internal loop from ribosomal RNA.===
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==Overview==
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NMR studies provide insights into structural features of internal loops. These insights can be combined with thermodynamic studies to generate models for predicting structure and energetics. The tandem mismatch internal loop, 5'GUGG3'(3'CUAC5'), has been studied by NMR. The NMR structure reveals an internal loop with no hydrogen bonding between the loop bases and with the G in the AG mismatch flipped out of the helix. The sequence of this internal loop is highly conserved in rRNA. The loop is located in the large ribosomal subunit and is part of a conserved 58-nt fragment that is the binding domain of ribosomal protein L11. Structural comparisons between variants of this internal loop in crystal structures of the 58-nt domain complexed with L11 protein and of the large ribosomal subunit (LSU) suggest that this thermodynamically destabilizing internal loop is partially preorganized for tertiary interactions and for binding L11. A model for predicting the base pairing and free energy of 2 x 2 nucleotide internal loops with a purine-purine mismatch next to a pyrimidine-pyrimidine mismatch is proposed on the basis of the present NMR structure and previously reported thermodynamics.
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The line below this paragraph, {{ABSTRACT_PUBMED_17929882}}, adds the Publication Abstract to the page
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(as it appears on PubMed at http://www.pubmed.gov), where 17929882 is the PubMed ID number.
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{{ABSTRACT_PUBMED_17929882}}
==About this Structure==
==About this Structure==
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JSE OCA].
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Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2JSE OCA].
==Reference==
==Reference==
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[[Category: Uu internal loop]]
[[Category: Uu internal loop]]
[[Category: Uu/ag internal loop]]
[[Category: Uu/ag internal loop]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 09:15:24 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 02:48:04 2008''

Revision as of 23:48, 28 July 2008

Image:2jse.png

Template:STRUCTURE 2jse

NMR reveals absence of hydrogen bonding in adjacent UU and AG mismatches in an isolated internal loop from ribosomal RNA.

Template:ABSTRACT PUBMED 17929882

About this Structure

Full experimental information is available from OCA.

Reference

NMR reveals the absence of hydrogen bonding in adjacent UU and AG mismatches in an isolated internal loop from ribosomal RNA., Shankar N, Xia T, Kennedy SD, Krugh TR, Mathews DH, Turner DH, Biochemistry. 2007 Nov 6;46(44):12665-78. Epub 2007 Oct 11. PMID:17929882

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