2oj7

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|PDB= 2oj7 |SIZE=350|CAPTION= <scene name='initialview01'>2oj7</scene>
|PDB= 2oj7 |SIZE=350|CAPTION= <scene name='initialview01'>2oj7</scene>
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|LIGAND= <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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|ACTIVITY=
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2oj7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2oj7 OCA], [http://www.ebi.ac.uk/pdbsum/2oj7 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2oj7 RCSB]</span>
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[[Category: uguu]]
[[Category: uguu]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 18:00:33 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 04:18:35 2008''

Revision as of 01:18, 31 March 2008

Image:2oj7.gif


PDB ID 2oj7

Drag the structure with the mouse to rotate
Ligands: , ,
Resources: FirstGlance, OCA, PDBsum, RCSB
Coordinates: save as pdb, mmCIF, xml



NMR structure of the UGUU tetraloop of Duck Epsilon apical stem loop


Overview

Hepatitis B virus (HBV) replication is initiated by binding of its reverse transcriptase (P) to the apical stem-loop (AL) and primer loop (PL) of epsilon, a highly conserved RNA element at the 5'-end of the RNA pregenome. Mutation studies on duck/heron and human in vitro systems have shown similarities but also differences between their P-epsilon interaction. Here, NMR and UV thermodynamic data on AL (and PL) from these three species are presented. The stabilities of the duck and heron ALs were found to be similar, and much lower than that of human. NMR data show that this low stability stems from an 11-nt internal bulge destabilizing the stem of heron AL. In duck, although structured at low temperature, this region also forms a weak point as its imino resonances broaden to disappearance between 30 and 35 degrees C well below the overall AL melting temperature. Surprisingly, the duck- and heron ALs were both found to be capped by a stable well-structured UGUU tetraloop. All avian ALs are expected to adhere to this because of their conserved sequence. Duck PL is stable and structured and, in view of sequence similarities, the same is expected for heron - and human PL.

About this Structure

2OJ7 is a Protein complex structure of sequences from [1]. Full crystallographic information is available from OCA.

Reference

Thermodynamics and NMR studies on Duck, Heron and Human HBV encapsidation signals., Girard FC, Ottink OM, Ampt KA, Tessari M, Wijmenga SS, Nucleic Acids Res. 2007;35(8):2800-11. Epub 2007 Apr 11. PMID:17430968

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