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1m5l

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[[Image:1m5l.jpg|left|200px]]
[[Image:1m5l.jpg|left|200px]]
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{{Structure
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|PDB= 1m5l |SIZE=350|CAPTION= <scene name='initialview01'>1m5l</scene>
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The line below this paragraph, containing "STRUCTURE_1m5l", creates the "Structure Box" on the page.
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|LIGAND= <scene name='pdbligand=A:ADENOSINE-5&#39;-MONOPHOSPHATE'>A</scene>, <scene name='pdbligand=C:CYTIDINE-5&#39;-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=G:GUANOSINE-5&#39;-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=U:URIDINE-5&#39;-MONOPHOSPHATE'>U</scene>
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{{STRUCTURE_1m5l| PDB=1m5l | SCENE= }}
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=1m5l FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1m5l OCA], [http://www.ebi.ac.uk/pdbsum/1m5l PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=1m5l RCSB]</span>
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'''Structure of wild-type and mutant internal loops from the SL-1 domain of the HIV-1 packaging signal'''
'''Structure of wild-type and mutant internal loops from the SL-1 domain of the HIV-1 packaging signal'''
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==About this Structure==
==About this Structure==
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1M5L 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=1M5L OCA].
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Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1M5L OCA].
==Reference==
==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:[http://www.ncbi.nlm.nih.gov/pubmed/12225748 12225748]
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:[http://www.ncbi.nlm.nih.gov/pubmed/12225748 12225748]
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[[Category: Protein complex]]
 
[[Category: Gallego, J.]]
[[Category: Gallego, J.]]
[[Category: Greatorex, J.]]
[[Category: Greatorex, J.]]
[[Category: Lever, A.]]
[[Category: Lever, A.]]
[[Category: Varani, G.]]
[[Category: Varani, G.]]
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[[Category: base triplet]]
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[[Category: Base triplet]]
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[[Category: hiv]]
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[[Category: Hiv]]
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[[Category: internal loop]]
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[[Category: Internal loop]]
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[[Category: packaging signal]]
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[[Category: Packaging signal]]
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[[Category: s-turn]]
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[[Category: S-turn]]
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[[Category: sl-1]]
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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 Sun Mar 30 22:11:37 2008''
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Revision as of 21:39, 2 May 2008

Image:1m5l.jpg

Template:STRUCTURE 1m5l

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


Overview

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.

About this Structure

Full crystallographic 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 Sat May 3 00:39:41 2008

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