1ykv: Difference between revisions

Revision as of 16:26, 3 May 2008

Crystal structure of the Diels-Alder ribozyme complexed with the product of the reaction between N-pentylmaleimide and covalently attached 9-hydroxymethylanthracene

OverviewOverview

The majority of structural efforts addressing RNA's catalytic function have focused on natural ribozymes, which catalyze phosphodiester transfer reactions. By contrast, little is known about how RNA catalyzes other types of chemical reactions. We report here the crystal structures of a ribozyme that catalyzes enantioselective carbon-carbon bond formation by the Diels-Alder reaction in the unbound state and in complex with a reaction product. The RNA adopts a lambda-shaped nested pseudoknot architecture whose preformed hydrophobic pocket is precisely complementary in shape to the reaction product. RNA folding and product binding are dictated by extensive stacking and hydrogen bonding, whereas stereoselection is governed by the shape of the catalytic pocket. Catalysis is apparently achieved by a combination of proximity, complementarity and electronic effects. We observe structural parallels in the independently evolved catalytic pocket architectures for ribozyme- and antibody-catalyzed Diels-Alder carbon-carbon bond-forming reactions.

About this StructureAbout this Structure

Full crystallographic information is available from OCA.

ReferenceReference

Structural basis for Diels-Alder ribozyme-catalyzed carbon-carbon bond formation., Serganov A, Keiper S, Malinina L, Tereshko V, Skripkin E, Hobartner C, Polonskaia A, Phan AT, Wombacher R, Micura R, Dauter Z, Jaschke A, Patel DJ, Nat Struct Mol Biol. 2005 Mar;12(3):218-24. Epub 2005 Feb 20. PMID:15723077 Page seeded by OCA on Sat May 3 16:26:56 2008

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OCA

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 [[Image:1ykv.gif|left|200px]]
- {{Structure
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-|RELATEDENTRY=[[1ykq|1YKQ]]
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1ykv FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1ykv OCA], [http://www.ebi.ac.uk/pdbsum/1ykv PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1ykv RCSB]</span>
-}}
 '''Crystal structure of the Diels-Alder ribozyme complexed with the product of the reaction between N-pentylmaleimide and covalently attached 9-hydroxymethylanthracene'''
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 ==About this Structure==
-YKV is a [[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=1YKV OCA].
+Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YKV OCA].
 ==Reference==
 Structural basis for Diels-Alder ribozyme-catalyzed carbon-carbon bond formation., Serganov A, Keiper S, Malinina L, Tereshko V, Skripkin E, Hobartner C, Polonskaia A, Phan AT, Wombacher R, Micura R, Dauter Z, Jaschke A, Patel DJ, Nat Struct Mol Biol. 2005 Mar;12(3):218-24. Epub 2005 Feb 20. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15723077 15723077]
-[[Category: Protein complex]]
 [[Category: Dauter, Z.]]
 [[Category: Hobartner, C.]]
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 [[Category: Tereshko, V.]]
 [[Category: Wombacher, R.]]
-[[Category: carbon-carbon bond]]
+[[Category: Carbon-carbon bond]]
-[[Category: catalytic mechanism]]
+[[Category: Catalytic mechanism]]
-[[Category: crystal structure]]
+[[Category: Crystal structure]]
-[[Category: diels-alder reaction]]
+[[Category: Diels-alder reaction]]
-[[Category: ribozyme]]
+[[Category: Ribozyme]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 16:26:56 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 01:11:28 2008''