1m5k: Difference between revisions

Revision as of 00:39, 3 May 2008

CRYSTAL STRUCTURE OF A HAIRPIN RIBOZYME IN THE CATALYTICALLY-ACTIVE CONFORMATION

OverviewOverview

The hairpin ribozyme catalyses sequence-specific cleavage of RNA. The active site of this natural RNA results from the docking of two irregular helices: stems A and B. One strand of stem A harbours the scissile bond. The 2.4 A resolution structure of a hairpin ribozyme-inhibitor complex reveals that the ribozyme aligns the 2'-OH nucleophile and the 5'-oxo leaving group by twisting apart the nucleotides that flank the scissile phosphate. The base of the nucleotide preceding the cleavage site is stacked within stem A; the next nucleotide, a conserved guanine, is extruded from stem A and accommodated by a highly complementary pocket in the minor groove of stem B. Metal ions are absent from the active site. The bases of four conserved purines are positioned potentially to serve as acid-base catalysts. This is the first structure determination of a fully assembled ribozyme active site that catalyses a phosphodiester cleavage without recourse to metal ions.

About this StructureAbout this Structure

1M5K is a Single protein structure of sequence from Homo sapiens. This structure supersedes the now removed PDB entry 1hp6. Full crystallographic information is available from OCA.

ReferenceReference

Crystal structure of a hairpin ribozyme-inhibitor complex with implications for catalysis., Rupert PB, Ferre-D'Amare AR, Nature. 2001 Apr 12;410(6830):780-6. PMID:11298439 Page seeded by OCA on Sat May 3 00:39:39 2008

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OCA

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 [[Image:1m5k.gif|left|200px]]
- {{Structure
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-|GENE= SNRPA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])
+-->
-|DOMAIN=
+{{STRUCTURE_1m5k|  PDB=1m5k  |  SCENE=  }}
-|RELATEDENTRY=[[1m5k|1M5K]], [[1m5o|1M5O]], [[1m5p|1M5P]], [[1m5v|1M5V]]
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1m5k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1m5k OCA], [http://www.ebi.ac.uk/pdbsum/1m5k PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1m5k RCSB]</span>
-}}
 '''CRYSTAL STRUCTURE OF A HAIRPIN RIBOZYME IN THE CATALYTICALLY-ACTIVE CONFORMATION'''
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 ==About this Structure==
-M5K is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. This structure supersedes the now removed PDB entry 1HP6. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1M5K OCA].
+M5K is a [[Single protein]] structure of sequence from [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. This structure supersedes the now removed PDB entry [http://oca.weizmann.ac.il/oca-bin/send-pdb?obs=1&id=1hp6 1hp6]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1M5K OCA].
 ==Reference==
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 [[Category: Amare, A R.Ferre-D.]]
 [[Category: Rupert, P B.]]
-[[Category: catalytic rna]]
+[[Category: Catalytic rna]]
-[[Category: hairpin ribozyme]]
+[[Category: Hairpin ribozyme]]
-[[Category: substrate inhibitor strand]]
+[[Category: Substrate inhibitor strand]]
-[[Category: u1a rna binding protein docked conformation]]
+[[Category: U1a rna binding protein docked conformation]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 00:39:39 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 22:11:33 2008''