1q9a
From Proteopedia
(New page: 200px<br /><applet load="1q9a" size="450" color="white" frame="true" align="right" spinBox="true" caption="1q9a, resolution 1.04Å" /> '''Crystal structure of...) |
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| - | [[Image:1q9a.gif|left|200px]]<br /><applet load="1q9a" size=" | + | [[Image:1q9a.gif|left|200px]]<br /><applet load="1q9a" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="1q9a, resolution 1.04Å" /> | caption="1q9a, resolution 1.04Å" /> | ||
'''Crystal structure of the sarcin/ricin domain from E.coli 23S rRNA at 1.04 resolution'''<br /> | '''Crystal structure of the sarcin/ricin domain from E.coli 23S rRNA at 1.04 resolution'''<br /> | ||
==Overview== | ==Overview== | ||
| - | Bulged-G motifs are ubiquitous internal RNA loops that provide specific | + | Bulged-G motifs are ubiquitous internal RNA loops that provide specific recognition sites for proteins and RNAs. To establish the common and distinctive features of the motif we determined the structures of three variants and compared them with related structures. The variants are 27-nt mimics of the sarcin/ricin loop (SRL) from Escherichia coli 23S ribosomal RNA that is an essential part of the binding site for elongation factors (EFs). The wild-type SRL has now been determined at 1.04 A resolution, supplementing data obtained before at 1.11 A and allowing the first calculation of coordinate error for an RNA motif. The other two structures, having a viable (C2658U*G2663A) or a lethal mutation (C2658G*G2663C), were determined at 1.75 and 2.25 A resolution, respectively. Comparisons reveal that bulged-G motifs have a common hydration and geometry, with flexible junctions at flanking structural elements. Six conserved nucleotides preserve the fold of the motif; the remaining seven to nine vary in sequence and alter contacts in both grooves. Differences between accessible functional groups of the lethal mutation and those of the viable mutation and wild-type SRL may account for the impaired elongation factor binding to ribosomes with the C2658G*G2663C mutation and may underlie the lethal phenotype. |
==About this Structure== | ==About this Structure== | ||
| - | 1Q9A is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http:// | + | 1Q9A is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/ ]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1Q9A OCA]. |
==Reference== | ==Reference== | ||
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[[Category: Single protein]] | [[Category: Single protein]] | ||
[[Category: Beneken, J.]] | [[Category: Beneken, J.]] | ||
| - | [[Category: Chan, Y | + | [[Category: Chan, Y L.]] |
| - | [[Category: Correll, C | + | [[Category: Correll, C C.]] |
[[Category: Lubbers, M.]] | [[Category: Lubbers, M.]] | ||
| - | [[Category: Plantinga, M | + | [[Category: Plantinga, M J.]] |
[[Category: high resolution]] | [[Category: high resolution]] | ||
[[Category: ribonucleic acid]] | [[Category: ribonucleic acid]] | ||
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[[Category: sarcin/ricin domain]] | [[Category: sarcin/ricin domain]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 14:37:12 2008'' |
Revision as of 12:37, 21 February 2008
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Crystal structure of the sarcin/ricin domain from E.coli 23S rRNA at 1.04 resolution
Overview
Bulged-G motifs are ubiquitous internal RNA loops that provide specific recognition sites for proteins and RNAs. To establish the common and distinctive features of the motif we determined the structures of three variants and compared them with related structures. The variants are 27-nt mimics of the sarcin/ricin loop (SRL) from Escherichia coli 23S ribosomal RNA that is an essential part of the binding site for elongation factors (EFs). The wild-type SRL has now been determined at 1.04 A resolution, supplementing data obtained before at 1.11 A and allowing the first calculation of coordinate error for an RNA motif. The other two structures, having a viable (C2658U*G2663A) or a lethal mutation (C2658G*G2663C), were determined at 1.75 and 2.25 A resolution, respectively. Comparisons reveal that bulged-G motifs have a common hydration and geometry, with flexible junctions at flanking structural elements. Six conserved nucleotides preserve the fold of the motif; the remaining seven to nine vary in sequence and alter contacts in both grooves. Differences between accessible functional groups of the lethal mutation and those of the viable mutation and wild-type SRL may account for the impaired elongation factor binding to ribosomes with the C2658G*G2663C mutation and may underlie the lethal phenotype.
About this Structure
1Q9A is a Single protein structure of sequence from [1]. Full crystallographic information is available from OCA.
Reference
The common and the distinctive features of the bulged-G motif based on a 1.04 A resolution RNA structure., Correll CC, Beneken J, Plantinga MJ, Lubbers M, Chan YL, Nucleic Acids Res. 2003 Dec 1;31(23):6806-18. PMID:14627814
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