1k9w
From Proteopedia
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| - | [[Image:1k9w.gif|left|200px]] | + | [[Image:1k9w.gif|left|200px]] |
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| - | '''HIV-1(MAL) RNA Dimerization Initiation Site''' | + | {{Structure |
| + | |PDB= 1k9w |SIZE=350|CAPTION= <scene name='initialview01'>1k9w</scene>, resolution 3.10Å | ||
| + | |SITE= | ||
| + | |LIGAND= <scene name='pdbligand=MG:MAGNESIUM ION'>MG</scene> | ||
| + | |ACTIVITY= | ||
| + | |GENE= | ||
| + | }} | ||
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| + | '''HIV-1(MAL) RNA Dimerization Initiation Site''' | ||
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==Overview== | ==Overview== | ||
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==About this Structure== | ==About this Structure== | ||
| - | 1K9W is a [ | + | 1K9W 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=1K9W OCA]. |
==Reference== | ==Reference== | ||
| - | Crystal structures of coaxially stacked kissing complexes of the HIV-1 RNA dimerization initiation site., Ennifar E, Walter P, Ehresmann B, Ehresmann C, Dumas P, Nat Struct Biol. 2001 Dec;8(12):1064-8. PMID:[http:// | + | Crystal structures of coaxially stacked kissing complexes of the HIV-1 RNA dimerization initiation site., Ennifar E, Walter P, Ehresmann B, Ehresmann C, Dumas P, Nat Struct Biol. 2001 Dec;8(12):1064-8. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/11702070 11702070] |
[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Dumas, P.]] | [[Category: Dumas, P.]] | ||
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[[Category: rna]] | [[Category: rna]] | ||
| - | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 12:14:38 2008'' |
Revision as of 10:14, 20 March 2008
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| Coordinates: | save as pdb, mmCIF, xml | ||||||
HIV-1(MAL) RNA Dimerization Initiation Site
Overview
We describe the crystal structures of the RNA dimerization initiation sites (DIS) of HIV-1 subtypes A and B. Both molecules adopt a hairpin conformation, with loop sequences consisting of 272-AGGUGCACA-280 and 272-AAGCGCGCA-280, respectively. This includes a six-base self-complementary stretch (underlined) that allows homodimerization through the formation of a loop-loop, or 'kissing-loop', complex. The DISs for the two sequences have identical conformations, and the two interacting hairpins show a perfect coaxial alignment. The conserved purines, A272 and R273, are stacked in a bulged-out conformation and symmetrically join the upward and downward strands of each hairpin by crossing the helix major groove. There is good agreement between these structures and previous results from chemical probing in solution, as well as with differences in magnesium dependence for dimerization. The overall shape of the kissing-loop complex is very similar to that of the previously determined subtype A DIS duplex form. Unexpectedly, the purine R273 is the only base seen at a different position and is responsible for the difference in topology between the two forms. We propose that the transition from kissing-loop duplex could occur by a recombination mechanism based on symmetrical chain cleavage at R273 of each hairpin and subsequent cross-religation, rather than by base-pair melting and subsequent reannealing.
About this Structure
1K9W is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.
Reference
Crystal structures of coaxially stacked kissing complexes of the HIV-1 RNA dimerization initiation site., Ennifar E, Walter P, Ehresmann B, Ehresmann C, Dumas P, Nat Struct Biol. 2001 Dec;8(12):1064-8. PMID:11702070
Page seeded by OCA on Thu Mar 20 12:14:38 2008
Categories: Protein complex | Dumas, P. | Ehresmann, B. | Ehresmann, C. | Ennifar, E. | Walter, P. | MG | Hairpin | Hiv | Rna
