405d

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{{STRUCTURE_405d| PDB=405d | SCENE= }}
{{STRUCTURE_405d| PDB=405d | SCENE= }}
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'''STRUCTURE OF A 16-MER RNA DUPLEX R(GCAGACUUAAAUCUGC)2 WITH WOBBLE LIKE A.C MISMATCHES'''
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===STRUCTURE OF A 16-MER RNA DUPLEX R(GCAGACUUAAAUCUGC)2 WITH WOBBLE LIKE A.C MISMATCHES===
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==Overview==
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The crystal structure of a 16-mer, the longest known RNA duplex, has been determined at 2.5 A resolution. The hexadecamer r(GCAGACUUAAAUCUGC) contains isolated C.A/A.C mismatches with two hydrogen bonds. The two hydrogen bonds in the mismatches suggests that N1 of A is protonated even though the crystallization was done at neutral pH. Therefore, the C.A mismatch is a C.A+ wobble similar to the G.U wobble. The two C.A+ pairs are isolated by four Watson-Crick pairs and flanked by five Watson-Crick base-pairs on either sides. Kinks/bends of 20 degrees are observed at the wobble sites. The Watson-Crick base-pair A5.U26 on the 5'-side of the first C6.A27(+) wobble has a twist angle of 27 degrees compared to the 3'-side U7.A28 pair of 36 degrees. The twist angles are reversed (37 degrees and 26 degrees) in the second A11(+).C22 wobble because of the approximate dyad in the molecule, the flanking base-pair sequences are A.U pairs. The wobbles expand the major groove to 7.1 A/7.3 A. The duplexes form helical columns and are tightly packed around the 31-screw axis. The minor grooves of adjacent columns in juxtaposition interact through the O2' atoms and the anionic phosphate oxygen atoms.Copyright 1998 Academic Press.
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{{ABSTRACT_PUBMED_9799637}}
==About this Structure==
==About this Structure==
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[[Category: Pan, M Sundaralingam B.]]
[[Category: Pan, M Sundaralingam B.]]
[[Category: A-rna double helix]]
[[Category: A-rna double helix]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Jul 3 13:15:03 2008''

Revision as of 10:15, 3 July 2008

Image:405d.png

Template:STRUCTURE 405d

STRUCTURE OF A 16-MER RNA DUPLEX R(GCAGACUUAAAUCUGC)2 WITH WOBBLE LIKE A.C MISMATCHES

Template:ABSTRACT PUBMED 9799637

About this Structure

Full crystallographic information is available from OCA.

Reference

Structure of a 16-mer RNA duplex r(GCAGACUUAAAUCUGC)2 with wobble C.A+ mismatches., Pan B, Mitra SN, Sundaralingam M, J Mol Biol. 1998 Nov 13;283(5):977-84. PMID:9799637

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