405d: Difference between revisions
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[[Image:405d.gif|left|200px]] | [[Image:405d.gif|left|200px]] | ||
'''STRUCTURE OF A 16-MER RNA DUPLEX R(GCAGACUUAAAUCUGC)2 WITH WOBBLE LIKE A.C MISMATCHES''' | {{Structure | ||
|PDB= 405d |SIZE=350|CAPTION= <scene name='initialview01'>405d</scene>, resolution 2.50Å | |||
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|LIGAND= | |||
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'''STRUCTURE OF A 16-MER RNA DUPLEX R(GCAGACUUAAAUCUGC)2 WITH WOBBLE LIKE A.C MISMATCHES''' | |||
==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
405D is a [ | 405D 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=405D OCA]. | ||
==Reference== | ==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:[http:// | 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:[http://www.ncbi.nlm.nih.gov/pubmed/9799637 9799637] | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Mitra, S N.]] | [[Category: Mitra, S N.]] | ||
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[[Category: a-rna double helix]] | [[Category: a-rna double helix]] | ||
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 19:07:57 2008'' | ||
Revision as of 17:07, 20 March 2008
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| Coordinates: | save as pdb, mmCIF, xml | ||||||||||||
STRUCTURE OF A 16-MER RNA DUPLEX R(GCAGACUUAAAUCUGC)2 WITH WOBBLE LIKE A.C MISMATCHES
Overview
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.
About this Structure
405D is a Protein complex structure of sequences from [1]. 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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