2qwy
From Proteopedia
(New page: 200px<br /><applet load="2qwy" size="350" color="white" frame="true" align="right" spinBox="true" caption="2qwy, resolution 2.80Å" /> '''SAM-II riboswitch bo...) |
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caption="2qwy, resolution 2.80Å" /> | caption="2qwy, resolution 2.80Å" /> | ||
'''SAM-II riboswitch bound to S-adenosylmethionine'''<br /> | '''SAM-II riboswitch bound to S-adenosylmethionine'''<br /> | ||
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| + | ==Overview== | ||
| + | In bacteria, numerous genes harbor regulatory elements in the 5' untranslated regions of their mRNA, termed riboswitches, which control gene expression by binding small-molecule metabolites. These sequences influence the secondary and tertiary structure of the RNA in a ligand-dependent manner, thereby directing its transcription or translation. The crystal structure of an S-adenosylmethionine-responsive riboswitch found predominantly in proteobacteria, SAM-II, has been solved to reveal a second means by which RNA interacts with this important cellular metabolite. Notably, this is the first structure of a complete riboswitch containing all sequences associated with both the ligand binding aptamer domain and the regulatory expression platform. Chemical probing of this RNA in the absence and presence of ligand shows how the structure changes in response to S-adenosylmethionine to sequester the ribosomal binding site and affect translational gene regulation. | ||
==About this Structure== | ==About this Structure== | ||
| - | 2QWY is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=PO4:'>PO4</scene>, <scene name='pdbligand= | + | 2QWY is a [http://en.wikipedia.org/wiki/Single_protein Single protein] structure of sequence from [http://en.wikipedia.org/wiki/ ] with <scene name='pdbligand=PO4:'>PO4</scene>, <scene name='pdbligand=CS:'>CS</scene>, <scene name='pdbligand=MG:'>MG</scene> and <scene name='pdbligand=SAM:'>SAM</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Known structural/functional Sites: <scene name='pdbsite=AC1:Po4+Binding+Site+For+Residue+A+0'>AC1</scene>, <scene name='pdbsite=AC2:Po4+Binding+Site+For+Residue+B+0'>AC2</scene>, <scene name='pdbsite=AC3:Po4+Binding+Site+For+Residue+B+53'>AC3</scene>, <scene name='pdbsite=AC4:Po4+Binding+Site+For+Residue+C+53'>AC4</scene>, <scene name='pdbsite=AC5:Mg+Binding+Site+For+Residue+A+102'>AC5</scene>, <scene name='pdbsite=AC6:Cs+Binding+Site+For+Residue+A+101'>AC6</scene>, <scene name='pdbsite=AC7:Cs+Binding+Site+For+Residue+C+501'>AC7</scene>, <scene name='pdbsite=AC8:Sam+Binding+Site+For+Residue+A+100'>AC8</scene>, <scene name='pdbsite=AC9:Sam+Binding+Site+For+Residue+B+300'>AC9</scene> and <scene name='pdbsite=BC1:Sam+Binding+Site+For+Residue+C+500'>BC1</scene>. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2QWY OCA]. |
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| + | ==Reference== | ||
| + | Structure of the SAM-II riboswitch bound to S-adenosylmethionine., Gilbert SD, Rambo RP, Van Tyne D, Batey RT, Nat Struct Mol Biol. 2008 Feb;15(2):177-82. Epub 2008 Jan 20. PMID:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=18204466 18204466] | ||
[[Category: Single protein]] | [[Category: Single protein]] | ||
| - | [[Category: Batey, R | + | [[Category: Batey, R T.]] |
| - | [[Category: Gilbert, S | + | [[Category: Gilbert, S D.]] |
| - | [[Category: Rambo, R | + | [[Category: Rambo, R P.]] |
| - | [[Category: Tyne, D | + | [[Category: Tyne, D Van.]] |
[[Category: CS]] | [[Category: CS]] | ||
[[Category: MG]] | [[Category: MG]] | ||
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[[Category: sam]] | [[Category: sam]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 18:43:01 2008'' |
Revision as of 16:43, 21 February 2008
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SAM-II riboswitch bound to S-adenosylmethionine
Overview
In bacteria, numerous genes harbor regulatory elements in the 5' untranslated regions of their mRNA, termed riboswitches, which control gene expression by binding small-molecule metabolites. These sequences influence the secondary and tertiary structure of the RNA in a ligand-dependent manner, thereby directing its transcription or translation. The crystal structure of an S-adenosylmethionine-responsive riboswitch found predominantly in proteobacteria, SAM-II, has been solved to reveal a second means by which RNA interacts with this important cellular metabolite. Notably, this is the first structure of a complete riboswitch containing all sequences associated with both the ligand binding aptamer domain and the regulatory expression platform. Chemical probing of this RNA in the absence and presence of ligand shows how the structure changes in response to S-adenosylmethionine to sequester the ribosomal binding site and affect translational gene regulation.
About this Structure
2QWY is a Single protein structure of sequence from [1] with , , and as ligands. Known structural/functional Sites: , , , , , , , , and . Full crystallographic information is available from OCA.
Reference
Structure of the SAM-II riboswitch bound to S-adenosylmethionine., Gilbert SD, Rambo RP, Van Tyne D, Batey RT, Nat Struct Mol Biol. 2008 Feb;15(2):177-82. Epub 2008 Jan 20. PMID:18204466
Page seeded by OCA on Thu Feb 21 18:43:01 2008
Categories: Single protein | Batey, R T. | Gilbert, S D. | Rambo, R P. | Tyne, D Van. | CS | MG | PO4 | SAM | Adomet | Base triple | Double helix | Mrna | Pseudoknot | Riboswitch | Rna-ligand complex | S-adenosylmethionine | Sam
