2dd1
From Proteopedia
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[[Image:2dd1.gif|left|200px]] | [[Image:2dd1.gif|left|200px]] | ||
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'''Three consecutive sheared GA pairs in 5'GGUGGAGGCU/3'PCCAAAGCCG''' | '''Three consecutive sheared GA pairs in 5'GGUGGAGGCU/3'PCCAAAGCCG''' | ||
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==About this Structure== | ==About this Structure== | ||
| - | + | Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2DD1 OCA]. | |
==Reference== | ==Reference== | ||
An alternating sheared AA pair and elements of stability for a single sheared purine-purine pair flanked by sheared GA pairs in RNA., Chen G, Kennedy SD, Qiao J, Krugh TR, Turner DH, Biochemistry. 2006 Jun 6;45(22):6889-903. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16734425 16734425] | An alternating sheared AA pair and elements of stability for a single sheared purine-purine pair flanked by sheared GA pairs in RNA., Chen G, Kennedy SD, Qiao J, Krugh TR, Turner DH, Biochemistry. 2006 Jun 6;45(22):6889-903. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/16734425 16734425] | ||
| - | [[Category: Protein complex]] | ||
[[Category: Chen, G.]] | [[Category: Chen, G.]] | ||
[[Category: Kennedy, S D.]] | [[Category: Kennedy, S D.]] | ||
[[Category: Krugh, T R.]] | [[Category: Krugh, T R.]] | ||
[[Category: Turner, D H.]] | [[Category: Turner, D H.]] | ||
| - | [[Category: | + | [[Category: A-minor motif]] |
| - | [[Category: | + | [[Category: K-turn motif]] |
| - | [[Category: | + | [[Category: Secondary structure of rna]] |
| - | [[Category: | + | [[Category: Thermodynamics of molecular recognition]] |
| - | [[Category: | + | [[Category: Three consecutive sheared ga pair]] |
| - | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 00:11:40 2008'' | |
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | |
Revision as of 21:11, 3 May 2008
Three consecutive sheared GA pairs in 5'GGUGGAGGCU/3'PCCAAAGCCG
Overview
A previous NMR structure of the duplex 5'GGU GGA GGCU/PCCG AAG CCG5' revealed an unusually stable RNA internal loop with three consecutive sheared GA pairs. Here, we report NMR studies of two duplexes, 5'GGU GGA GGCU/PCCA AAG CCG5' (replacing the UG pair with a UA closing pair) and 5'GGU GAA GGCU/PCCG AAG CCG5' (replacing the middle GA pair with an AA pair). An unusually stable loop with three consecutive sheared GA pairs forms in the duplex 5'GGU GGA GGCU/PCCA AAG CCG5'. The structure contrasts with that reported for this loop in the crystal structure of the large ribosomal subunit of Deinococcus radiodurans [Harms, J., Schluenzen, F., Zarivach, R., Bashan, A., Gat, S., Agmon, I., Bartels, H., Franceschi, F., and Yonath, A. (2001) Cell 107, 679-688]. The middle AA pair in the duplex 5'GGU GAA GGCU/PCCG AAG CCG5' rapidly exchanges orientations, resulting in alternative base stacking and pseudosymmetry with exclusively sheared pairs. The U GAA G/G AAG C internal loop is 2.1 kcal/mol less stable than the U GGA G/G AAG C internal loop at 37 degrees C. Structural, energetic, and dynamic consequences upon functional group substitutions within related 3 x 3 and 3 x 6 internal loops are also reported.
About this Structure
Full crystallographic information is available from OCA.
Reference
An alternating sheared AA pair and elements of stability for a single sheared purine-purine pair flanked by sheared GA pairs in RNA., Chen G, Kennedy SD, Qiao J, Krugh TR, Turner DH, Biochemistry. 2006 Jun 6;45(22):6889-903. PMID:16734425 Page seeded by OCA on Sun May 4 00:11:40 2008
