2ldz: Difference between revisions

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[[Image:2ldz.gif|left|200px]]
{{Seed}}
[[Image:2ldz.png|left|200px]]


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{{STRUCTURE_2ldz|  PDB=2ldz  |  SCENE=  }}  
{{STRUCTURE_2ldz|  PDB=2ldz  |  SCENE=  }}  


'''SOLUTION STRUCTURE OF THE LEAD-DEPENDENT RIBOZYME, NMR, MINIMIZED AVERAGE STRUCTURE'''
===SOLUTION STRUCTURE OF THE LEAD-DEPENDENT RIBOZYME, NMR, MINIMIZED AVERAGE STRUCTURE===




==Overview==
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The NMR solution structure of a lead-dependent ribozyme, known as the leadzyme, is presented. This ribozyme is among the smallest of the known catalytic RNAs, with an active site consisting of a six-nucleotide asymmetric internal loop. This loop has a roughly double-helical structure, including a protonated adenine-cytosine wobble base-pair, that positions the cytosine base 5' to the cleavage site in a double-helical conformation. The deviations from helical structure consist of two bulged guanosine residues, G7 and G9, where G7 is the residue 3' to the cleavage site. The scissile phosphate group of the leadzyme is not positioned for in-line nucleophilic attack. Therefore, a conformational rearrangement in the active site is required to reach the proposed transition state for this ribozyme. This is similar to previous observations in X-ray studies of the hammerhead ribozyme, and emphasizes the necessity for dynamic structural fluctuations in the catalytic mechanism of small ribozymes. A model for metal-binding in the leadzyme is proposed in which a lead ion binds to a bulged guanine base that is critical for leadzyme function.
The line below this paragraph, {{ABSTRACT_PUBMED_9813122}}, adds the Publication Abstract to the page
(as it appears on PubMed at http://www.pubmed.gov), where 9813122 is the PubMed ID number.
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{{ABSTRACT_PUBMED_9813122}}


==About this Structure==
==About this Structure==
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LDZ OCA].  
Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2LDZ OCA].  


==Reference==
==Reference==
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[[Category: Nmr spectroscopy]]
[[Category: Nmr spectroscopy]]
[[Category: Rna structure]]
[[Category: Rna structure]]
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 09:29:58 2008''
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Tue Jul 29 09:41:48 2008''

Revision as of 06:41, 29 July 2008

File:2ldz.png

Template:STRUCTURE 2ldz

SOLUTION STRUCTURE OF THE LEAD-DEPENDENT RIBOZYME, NMR, MINIMIZED AVERAGE STRUCTURE

Template:ABSTRACT PUBMED 9813122

About this Structure

Full experimental information is available from OCA.

Reference

NMR solution structure of the lead-dependent ribozyme: evidence for dynamics in RNA catalysis., Hoogstraten CG, Legault P, Pardi A, J Mol Biol. 1998 Nov 27;284(2):337-50. PMID:9813122

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