1m5v: Difference between revisions

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[[Image:1m5v.gif|left|200px]]
[[Image:1m5v.gif|left|200px]]


{{Structure
<!--
|PDB= 1m5v |SIZE=350|CAPTION= <scene name='initialview01'>1m5v</scene>, resolution 2.40&Aring;
The line below this paragraph, containing "STRUCTURE_1m5v", creates the "Structure Box" on the page.
|SITE=
You may change the PDB parameter (which sets the PDB file loaded into the applet)  
|LIGAND= <scene name='pdbligand=A:ADENOSINE-5&#39;-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=A23:ADENOSINE-5&#39;-PHOSPHATE-2&#39;,3&#39;-CYCLIC+PHOSPHATE'>A23</scene>, <scene name='pdbligand=C:CYTIDINE-5&#39;-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=CA:CALCIUM+ION'>CA</scene>, <scene name='pdbligand=G:GUANOSINE-5&#39;-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=MPD:(4S)-2-METHYL-2,4-PENTANEDIOL'>MPD</scene>, <scene name='pdbligand=U:URIDINE-5&#39;-MONOPHOSPHATE'>U</scene>
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
|ACTIVITY=
or leave the SCENE parameter empty for the default display.
|GENE= SNRPA ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])
-->
|DOMAIN=
{{STRUCTURE_1m5v|  PDB=1m5v |  SCENE= }}  
|RELATEDENTRY=[[1m5k|1M5K]], [[1m5o|1M5O]], [[1m5p|1M5P]]
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1m5v FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1m5v OCA], [http://www.ebi.ac.uk/pdbsum/1m5v PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1m5v RCSB]</span>
}}


'''Transition State Stabilization by a Catalytic RNA'''
'''Transition State Stabilization by a Catalytic RNA'''
Line 29: Line 26:
[[Category: Rupert, P B.]]
[[Category: Rupert, P B.]]
[[Category: Sigurdsson, S T.]]
[[Category: Sigurdsson, S T.]]
[[Category: catalytic rna]]
[[Category: Catalytic rna]]
[[Category: cleaved substrate]]
[[Category: Cleaved substrate]]
[[Category: hairpin ribozyme]]
[[Category: Hairpin ribozyme]]
[[Category: u1a rna binding protein 2'3'cyclic phosphate]]
[[Category: U1a rna binding protein 2'3'cyclic phosphate]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May  3 00:40:20 2008''
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun Mar 30 22:11:44 2008''

Revision as of 21:40, 2 May 2008

File:1m5v.gif

Template:STRUCTURE 1m5v

Transition State Stabilization by a Catalytic RNA


Overview

The hairpin ribozyme catalyzes sequence-specific cleavage of RNA through transesterification of the scissile phosphate. Vanadate has previously been used as a transition state mimic of protein enzymes that catalyze the same reaction. Comparison of the 2.2 angstrom resolution structure of a vanadate-hairpin ribozyme complex with structures of precursor and product complexes reveals a rigid active site that makes more hydrogen bonds to the transition state than to the precursor or product. Because of the paucity of RNA functional groups capable of general acid-base or electrostatic catalysis, transition state stabilization is likely to be an important catalytic strategy for ribozymes.

About this Structure

1M5V is a Single protein structure of sequence from Homo sapiens. Full crystallographic information is available from OCA.

Reference

Transition state stabilization by a catalytic RNA., Rupert PB, Massey AP, Sigurdsson ST, Ferre-D'Amare AR, Science. 2002 Nov 15;298(5597):1421-4. Epub 2002 Oct 10. PMID:12376595 Page seeded by OCA on Sat May 3 00:40:20 2008

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