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1m5l

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{{STRUCTURE_1m5l| PDB=1m5l | SCENE= }}
{{STRUCTURE_1m5l| PDB=1m5l | SCENE= }}
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'''Structure of wild-type and mutant internal loops from the SL-1 domain of the HIV-1 packaging signal'''
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===Structure of wild-type and mutant internal loops from the SL-1 domain of the HIV-1 packaging signal===
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==Overview==
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The packaging signal (Psi) of the human immunodeficiency virus type 1 (HIV-1) enables encapsidation of the full-length genomic RNA against a background of a vast excess of cellular mRNAs. The core HIV-1 Psi is approximately 109 nucleotides and contains sequences critical for viral genomic dimerisation and splicing, in addition to the packaging signal. It consists of a series of stem-loops (termed SL-1 to SL-4), which can be arranged in a cloverleaf secondary structure. Using a combination of NMR spectroscopy, UV melting experiments, molecular modeling and phylogenetic analyses, we have explored the structure of two conserved internal loops proximal to the palindromic sequence of SL-1. Internal loop A, composed of six purines, forms a flexible structure that is strikingly similar to the Rev responsive element motif when bound to Rev protein. This result suggests that it may function as a protein-binding site. The absolutely conserved four-purine internal loop B is instead conformationally and thermodynamically unstable, and exhibits multiple conformations in solution. By introducing a double AGG to GGA mutation within this loop, its conformation is stabilised to form a new intra-molecular G:A:G base-triplet. The structure of the GGA mutant explains the relative instability of the wild-type loop. In a manner analogous to SL-3, we propose that conformational flexibility at this site may facilitate melting of the structure during Gag protein capture or genomic RNA dimerisation.
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(as it appears on PubMed at http://www.pubmed.gov), where 12225748 is the PubMed ID number.
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{{ABSTRACT_PUBMED_12225748}}
==About this Structure==
==About this Structure==
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1M5L OCA].
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Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1M5L OCA].
==Reference==
==Reference==
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[[Category: S-turn]]
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[[Category: Sl-1]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sat May 3 00:39:41 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jul 2 23:15:53 2008''

Revision as of 20:15, 2 July 2008

Image:1m5l.png

Template:STRUCTURE 1m5l

Structure of wild-type and mutant internal loops from the SL-1 domain of the HIV-1 packaging signal

Template:ABSTRACT PUBMED 12225748

About this Structure

Full experimental information is available from OCA.

Reference

Structure and stability of wild-type and mutant RNA internal loops from the SL-1 domain of the HIV-1 packaging signal., Greatorex J, Gallego J, Varani G, Lever A, J Mol Biol. 2002 Sep 20;322(3):543-57. PMID:12225748

Page seeded by OCA on Wed Jul 2 23:15:53 2008

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