1bj2
From Proteopedia
(New page: 200px<br /><applet load="1bj2" size="450" color="white" frame="true" align="right" spinBox="true" caption="1bj2" /> '''RNA LOOP-LOOP COMPLEX: THE COLE1 INVERTED LO...) |
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| - | [[Image:1bj2.gif|left|200px]]<br /><applet load="1bj2" size=" | + | [[Image:1bj2.gif|left|200px]]<br /><applet load="1bj2" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="1bj2" /> | caption="1bj2" /> | ||
'''RNA LOOP-LOOP COMPLEX: THE COLE1 INVERTED LOOP SEQUENCE, NMR, 8 STRUCTURES'''<br /> | '''RNA LOOP-LOOP COMPLEX: THE COLE1 INVERTED LOOP SEQUENCE, NMR, 8 STRUCTURES'''<br /> | ||
==Overview== | ==Overview== | ||
| - | BACKGROUND: Replication of the ColE1 plasmid of Escherichia coli is | + | BACKGROUND: Replication of the ColE1 plasmid of Escherichia coli is regulated by the interaction of sense and antisense plasmid-encoded transcripts. The antisense RNA I negatively regulates the replication of the plasmid by duplex formation with complementary RNA II. The interaction is initiated by the formation of a double helix between seven-nucleotide loops from each RNA and is stabilized by binding of the RNA one modulator (ROM) protein. The ROM protein is thought to recognize a specific RNA structure, regardless of sequence. RESULTS: The solution structure of a loop-loop complex between model RNA hairpins that resemble RNA I and RNA II has been determined by nuclear magnetic resonance spectroscopy. The model hairpins have loop sequences inverted 5' to 3' relative to the wild-type sequence and were chosen because of their complex's slow dissociation in comparison to the wild type. The complex has continuous stacking from the 3'-side of one stem helix through the loop-loop helix to the other stem helix. One residue from each hairpin has a unique phosphodiester bond which bridges and narrows the major groove. These bridging phosphates are in close proximity to the phosphate groups of the adjacent bases, forming unique structural motifs called phosphate clusters. The purine residue at the 3'-end of the loop-loop helix of one RNA stacks on a purine residue on the 5'-side of the other RNA stem, and there are strong cross-strand stacking interactions between guanine bases in the stem helices adjacent to the loops. CONCLUSIONS: Unique distortions, such as the strong bend and the phosphate clusters flanking the major groove of the loop-loop helix, provide an attractive nonsequence-specific structural feature for recognition by the ROM protein. The structure provides a basis for rationalizing the sequence dependence of the stability of loop-loop interaction. |
==About this Structure== | ==About this Structure== | ||
| - | 1BJ2 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http:// | + | 1BJ2 is a [http://en.wikipedia.org/wiki/Protein_complex 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=1BJ2 OCA]. |
==Reference== | ==Reference== | ||
The solution structure of an RNA loop-loop complex: the ColE1 inverted loop sequence., Lee AJ, Crothers DM, Structure. 1998 Aug 15;6(8):993-1005. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=9739090 9739090] | The solution structure of an RNA loop-loop complex: the ColE1 inverted loop sequence., Lee AJ, Crothers DM, Structure. 1998 Aug 15;6(8):993-1005. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=9739090 9739090] | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
| - | [[Category: Crothers, D | + | [[Category: Crothers, D M.]] |
| - | [[Category: Lee, A | + | [[Category: Lee, A J.]] |
[[Category: cole1 rna]] | [[Category: cole1 rna]] | ||
[[Category: kiss complex]] | [[Category: kiss complex]] | ||
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[[Category: ribonucleic acid]] | [[Category: ribonucleic acid]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 11:55:48 2008'' |
Revision as of 09:55, 21 February 2008
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RNA LOOP-LOOP COMPLEX: THE COLE1 INVERTED LOOP SEQUENCE, NMR, 8 STRUCTURES
Overview
BACKGROUND: Replication of the ColE1 plasmid of Escherichia coli is regulated by the interaction of sense and antisense plasmid-encoded transcripts. The antisense RNA I negatively regulates the replication of the plasmid by duplex formation with complementary RNA II. The interaction is initiated by the formation of a double helix between seven-nucleotide loops from each RNA and is stabilized by binding of the RNA one modulator (ROM) protein. The ROM protein is thought to recognize a specific RNA structure, regardless of sequence. RESULTS: The solution structure of a loop-loop complex between model RNA hairpins that resemble RNA I and RNA II has been determined by nuclear magnetic resonance spectroscopy. The model hairpins have loop sequences inverted 5' to 3' relative to the wild-type sequence and were chosen because of their complex's slow dissociation in comparison to the wild type. The complex has continuous stacking from the 3'-side of one stem helix through the loop-loop helix to the other stem helix. One residue from each hairpin has a unique phosphodiester bond which bridges and narrows the major groove. These bridging phosphates are in close proximity to the phosphate groups of the adjacent bases, forming unique structural motifs called phosphate clusters. The purine residue at the 3'-end of the loop-loop helix of one RNA stacks on a purine residue on the 5'-side of the other RNA stem, and there are strong cross-strand stacking interactions between guanine bases in the stem helices adjacent to the loops. CONCLUSIONS: Unique distortions, such as the strong bend and the phosphate clusters flanking the major groove of the loop-loop helix, provide an attractive nonsequence-specific structural feature for recognition by the ROM protein. The structure provides a basis for rationalizing the sequence dependence of the stability of loop-loop interaction.
About this Structure
1BJ2 is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
The solution structure of an RNA loop-loop complex: the ColE1 inverted loop sequence., Lee AJ, Crothers DM, Structure. 1998 Aug 15;6(8):993-1005. PMID:9739090
Page seeded by OCA on Thu Feb 21 11:55:48 2008
