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2xbm

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Revision as of 15:09, 8 July 2020

Crystal structure of the dengue virus methyltransferase bound to a 5'- capped octameric RNA

Structural highlights

2xbm is a 6 chain structure with sequence from Dengue virus. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	, ,
NonStd Res:
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

Publication Abstract from PubMed

The N-terminal domain of the flavivirus NS5 protein functions as a methyltransferase (MTase). It sequentially methylates the N7 and 2'-O positions of the viral RNA cap structure (GpppA-->(7me)GpppA-->(7me)GpppA(2'-O-me)). The same NS5 domain could also have a guanylyltransferase activity (GTP+ppA-RNA-->GpppA). The mechanism by which this protein domain catalyzes these three distinct functions is currently unknown. Here we report the crystallographic structure of DENV-3 MTase in complex with a 5'-capped RNA octamer (G(ppp)AGAACCUG) at a resolution of 2.9 A. Two RNA octamers arranged as kissing loops are encircled by four MTase monomers around a 2-fold non-crystallography symmetry axis. Only two of the four monomers make direct contact with the 5' end of RNA. The RNA structure is stabilised by the formation of several intra and intermolecular base stacking and non-canonical base pairs. The structure may represent the product of guanylylation of the viral genome prior to the subsequent methylation events that require repositioning of the RNA substrate to reach to the methyl-donor sites. The crystal structure provides a structural explanation for the observed trans-complementation of MTases with different methylation defects.

Crystal structure of the dengue virus methyltransferase bound to a 5'-capped octameric RNA.,Yap LJ, Luo D, Chung KY, Lim SP, Bodenreider C, Noble C, Shi PY, Lescar J PLoS One. 2010 Sep 17;5(9). pii: e12836. PMID:20862256^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Yap LJ, Luo D, Chung KY, Lim SP, Bodenreider C, Noble C, Shi PY, Lescar J. Crystal structure of the dengue virus methyltransferase bound to a 5'-capped octameric RNA. PLoS One. 2010 Sep 17;5(9). pii: e12836. PMID:20862256 doi:10.1371/journal.pone.0012836

1 Structural highlights
2 Evolutionary Conservation
3 Publication Abstract from PubMed
4 See Also
5 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/2xbm"

@@ Line 1: / Line 1: @@
 ==Crystal structure of the dengue virus methyltransferase bound to a 5'- capped octameric RNA==
-<StructureSection load='2xbm' size='340' side='right' caption='[[2xbm]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
+<StructureSection load='2xbm' size='340' side='right'caption='[[2xbm]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[2xbm]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Dengue_virus Dengue virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XBM OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XBM FirstGlance]. <br>
+<table><tr><td colspan='2'>[[2xbm]] is a 6 chain structure with sequence from [http://en.wikipedia.org/wiki/Dengue_virus Dengue virus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XBM OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2XBM FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=SAH:S-ADENOSYL-L-HOMOCYSTEINE'>SAH</scene>, <scene name='pdbligand=SO4:SULFATE+ION'>SO4</scene></td></tr>
 <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=G3A:GUANOSINE-P3-ADENOSINE-5,5-TRIPHOSPHATE'>G3A</scene></td></tr>
-<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2xbm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xbm OCA], [http://pdbe.org/2xbm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2xbm RCSB], [http://www.ebi.ac.uk/pdbsum/2xbm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2xbm ProSAT]</span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=2xbm FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xbm OCA], [http://pdbe.org/2xbm PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2xbm RCSB], [http://www.ebi.ac.uk/pdbsum/2xbm PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2xbm ProSAT]</span></td></tr>
 </table>
 == Evolutionary Conservation ==
@@ Line 29: / Line 29: @@
 ==See Also==
-*[[Nonstructural protein|Nonstructural protein]]
+*[[Nonstructural protein 3D structures|Nonstructural protein 3D structures]]
 == References ==
 <references/>
@@ Line 35: / Line 35: @@
 </StructureSection>
 [[Category: Dengue virus]]
+[[Category: Large Structures]]
 [[Category: Bodenreider, C]]
 [[Category: Chung, K Y]]

2xbm

From Proteopedia

Revision as of 15:09, 8 July 2020

Crystal structure of the dengue virus methyltransferase bound to a 5'- capped octameric RNA

Structural highlights

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

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