462d

From Proteopedia

(Difference between revisions)
Jump to: navigation, search
Line 1: Line 1:
[[Image:462d.jpg|left|200px]]
[[Image:462d.jpg|left|200px]]
-
{{Structure
+
<!--
-
|PDB= 462d |SIZE=350|CAPTION= <scene name='initialview01'>462d</scene>, resolution 2.30&Aring;
+
The line below this paragraph, containing "STRUCTURE_462d", 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=C:CYTIDINE-5&#39;-MONOPHOSPHATE'>C</scene>, <scene name='pdbligand=G:GUANOSINE-5&#39;-MONOPHOSPHATE'>G</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</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=
+
-->
-
|DOMAIN=
+
{{STRUCTURE_462d| PDB=462d | SCENE= }}
-
|RELATEDENTRY=
+
-
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=462d FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=462d OCA], [http://www.ebi.ac.uk/pdbsum/462d PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=462d RCSB]</span>
+
-
}}
+
'''CRYSTAL STRUCTURE OF THE HIV-1 GENOMIC RNA DIMERIZATION INITIATION SITE'''
'''CRYSTAL STRUCTURE OF THE HIV-1 GENOMIC RNA DIMERIZATION INITIATION SITE'''
Line 19: Line 16:
==About this Structure==
==About this Structure==
-
462D 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=462D OCA].
+
Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=462D OCA].
==Reference==
==Reference==
The crystal structure of the dimerization initiation site of genomic HIV-1 RNA reveals an extended duplex with two adenine bulges., Ennifar E, Yusupov M, Walter P, Marquet R, Ehresmann B, Ehresmann C, Dumas P, Structure. 1999 Nov 15;7(11):1439-49. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10574792 10574792]
The crystal structure of the dimerization initiation site of genomic HIV-1 RNA reveals an extended duplex with two adenine bulges., Ennifar E, Yusupov M, Walter P, Marquet R, Ehresmann B, Ehresmann C, Dumas P, Structure. 1999 Nov 15;7(11):1439-49. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/10574792 10574792]
-
[[Category: Protein complex]]
 
[[Category: Dumas, P.]]
[[Category: Dumas, P.]]
[[Category: Ehresmann, B.]]
[[Category: Ehresmann, B.]]
Line 31: Line 27:
[[Category: Walter, P.]]
[[Category: Walter, P.]]
[[Category: Yusupov, M.]]
[[Category: Yusupov, M.]]
-
[[Category: bulge]]
+
[[Category: Bulge]]
-
[[Category: hiv]]
+
[[Category: Hiv]]
-
[[Category: magnesium binding]]
+
[[Category: Magnesium binding]]
-
[[Category: mismatch]]
+
[[Category: Mismatch]]
-
[[Category: rna duplex]]
+
[[Category: Rna duplex]]
-
 
+
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 22:19:01 2008''
-
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:37:31 2008''
+

Revision as of 19:19, 4 May 2008

Image:462d.jpg

Template:STRUCTURE 462d

CRYSTAL STRUCTURE OF THE HIV-1 GENOMIC RNA DIMERIZATION INITIATION SITE


Overview

BACKGROUND: An important step in retroviral replication is dimerization of the genomic RNA prior to encapsidation. Dimerization is initiated by the formation of a transient 'kissing-loop complex' that is thought to be subsequently matured into an extended duplex by the nucleocapsid protein (NCp). Although chemical probing and nuclear magnetic resonance spectroscopy have provided insight into the structure of the kissing-loop structure, no structural information concerning the extended-duplex state is available so far. RESULTS: The structure of a minimal HIV-1 RNA dimerization initiation site has been solved at 2.3 A resolution in two different space groups. It reveals a 22 base pair extended duplex with two noncanonical Watson-Crick-like G-A mismatches, each adjacent to a bulged-out adenine. The structure shows significant asymmetry in deep groove width and G-A base-pair conformations. A network of eight magnesium cations was clearly identified, one being unusually chelated by the 3' phosphate of each bulge across an extremely narrowed deep major groove. CONCLUSIONS: These crystal structures represent the putative matured form of the initial kissing-loop complex. They show the ability of this self-complementary RNA hairpin loop to acquire a more stable extended duplex structure. Both bulged adenines form a striking 'base grip' that could be a recognition signal, either in cis for another viral RNA sequence, or in trans for a protein, possibly the NCp. Magnesium binding might be important to promote and stabilize the observed extrahelical conformation of these bulges.

About this Structure

Full crystallographic information is available from OCA.

Reference

The crystal structure of the dimerization initiation site of genomic HIV-1 RNA reveals an extended duplex with two adenine bulges., Ennifar E, Yusupov M, Walter P, Marquet R, Ehresmann B, Ehresmann C, Dumas P, Structure. 1999 Nov 15;7(11):1439-49. PMID:10574792 Page seeded by OCA on Sun May 4 22:19:01 2008

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/462d"
Personal tools