1kd3
From Proteopedia
(New page: 200px<br /><applet load="1kd3" size="450" color="white" frame="true" align="right" spinBox="true" caption="1kd3, resolution 1.80Å" /> '''The Crystal Structur...) |
|||
| Line 1: | Line 1: | ||
| - | [[Image:1kd3.gif|left|200px]]<br /><applet load="1kd3" size=" | + | [[Image:1kd3.gif|left|200px]]<br /><applet load="1kd3" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="1kd3, resolution 1.80Å" /> | caption="1kd3, resolution 1.80Å" /> | ||
'''The Crystal Structure of r(GGUCACAGCCC)2, Thallium form'''<br /> | '''The Crystal Structure of r(GGUCACAGCCC)2, Thallium form'''<br /> | ||
==Overview== | ==Overview== | ||
| - | Crystals of small RNAs, which regularly diffract to very high resolution, can often be readily obtained. Unfortunately, for some RNAs the | + | Crystals of small RNAs, which regularly diffract to very high resolution, can often be readily obtained. Unfortunately, for some RNAs the conformations adopted in the crystalline form are different from those found in solution. For example, short RNAs that form hairpins in solution virtually never crystallize thus; rather, they form duplexes. Nevertheless, these unintended structures have contributed greatly to the understanding of RNA structure. In a similar occurrence, the homodimer r(GGUCACAGCCC)(2) has been crystallized from an 11-mer/12-mer heteroduplex, r(GGCUGAAGUCCG)/r(GGUCACAGCCC). This surprising phenomenon was observed under a variety of crystallization conditions. The structure of the homoduplex was determined from crystals that differed in the precipitant used and the type of metal present. In all cases, the resulting homoduplexes contain ten base pairings, of which the central six are non-canonical pairings. In two of the variants, ordered metal-binding sites were observed: two equivalent octacoordinate Tl(+) sites in one and two equivalent nanocoordinate Ba(2+) sites in another. |
==About this Structure== | ==About this Structure== | ||
| - | 1KD3 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with TL as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http:// | + | 1KD3 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=TL:'>TL</scene> as [http://en.wikipedia.org/wiki/ligand ligand]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1KD3 OCA]. |
==Reference== | ==Reference== | ||
| Line 13: | Line 13: | ||
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Kacer, V.]] | [[Category: Kacer, V.]] | ||
| - | [[Category: Rife, J | + | [[Category: Rife, J P.]] |
| - | [[Category: Scaringe, S | + | [[Category: Scaringe, S A.]] |
| - | [[Category: Scarsdale, J | + | [[Category: Scarsdale, J N.]] |
[[Category: TL]] | [[Category: TL]] | ||
[[Category: metal binding]] | [[Category: metal binding]] | ||
[[Category: rna duplex]] | [[Category: rna duplex]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 13:32:45 2008'' |
Revision as of 11:32, 21 February 2008
|
The Crystal Structure of r(GGUCACAGCCC)2, Thallium form
Overview
Crystals of small RNAs, which regularly diffract to very high resolution, can often be readily obtained. Unfortunately, for some RNAs the conformations adopted in the crystalline form are different from those found in solution. For example, short RNAs that form hairpins in solution virtually never crystallize thus; rather, they form duplexes. Nevertheless, these unintended structures have contributed greatly to the understanding of RNA structure. In a similar occurrence, the homodimer r(GGUCACAGCCC)(2) has been crystallized from an 11-mer/12-mer heteroduplex, r(GGCUGAAGUCCG)/r(GGUCACAGCCC). This surprising phenomenon was observed under a variety of crystallization conditions. The structure of the homoduplex was determined from crystals that differed in the precipitant used and the type of metal present. In all cases, the resulting homoduplexes contain ten base pairings, of which the central six are non-canonical pairings. In two of the variants, ordered metal-binding sites were observed: two equivalent octacoordinate Tl(+) sites in one and two equivalent nanocoordinate Ba(2+) sites in another.
About this Structure
1KD3 is a Protein complex structure of sequences from [1] with as ligand. Full crystallographic information is available from OCA.
Reference
Crystal structures of r(GGUCACAGCCC)2., Kacer V, Scaringe SA, Scarsdale JN, Rife JP, Acta Crystallogr D Biol Crystallogr. 2003 Mar;59(Pt 3):423-32. Epub 2003, Feb 21. PMID:12595698
Page seeded by OCA on Thu Feb 21 13:32:45 2008
