1xok: Difference between revisions

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[[Image:1xok.gif|left|200px]]


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==crystal structure of alfalfa mosaic virus RNA 3'UTR in complex with coat protein N terminal peptide==
The line below this paragraph, containing "STRUCTURE_1xok", creates the "Structure Box" on the page.
<StructureSection load='1xok' size='340' side='right'caption='[[1xok]], [[Resolution|resolution]] 3.00&Aring;' scene=''>
You may change the PDB parameter (which sets the PDB file loaded into the applet)
== Structural highlights ==
or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
<table><tr><td colspan='2'>[[1xok]] is a 4 chain structure with sequence from [https://en.wikipedia.org/wiki/Alfalfa_mosaic_virus_(strain_YSMV) Alfalfa mosaic virus (strain YSMV)]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XOK OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1XOK FirstGlance]. <br>
or leave the SCENE parameter empty for the default display.
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3&#8491;</td></tr>
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<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=BR:BROMIDE+ION'>BR</scene></td></tr>
{{STRUCTURE_1xok|  PDB=1xok  |  SCENE= }}
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=1xok FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1xok OCA], [https://pdbe.org/1xok PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1xok RCSB], [https://www.ebi.ac.uk/pdbsum/1xok PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1xok ProSAT]</span></td></tr>
 
</table>
'''crystal structure of alfalfa mosaic virus RNA 3'UTR in complex with coat protein N terminal peptide'''
== Function ==
 
[https://www.uniprot.org/uniprot/CAPSD_AMVYS CAPSD_AMVYS] Capsid protein. Binds to the to the 3' end of the nonpolyadenylated viral RNA and is involved in viral RNA translation initiation. Probably binds RNA and plays a role in packaging (By similarity).
 
__TOC__
==Overview==
</StructureSection>
Alfalfa mosaic virus genomic RNAs are infectious only when the viral coat protein binds to the RNA 3' termini. The crystal structure of an alfalfa mosaic virus RNA-peptide complex reveals that conserved AUGC repeats and Pro-Thr-x-Arg-Ser-x-x-Tyr coat protein amino acids cofold upon interacting. Alternating AUGC residues have opposite orientation, and they base pair in different adjacent duplexes. Localized RNA backbone reversals stabilized by arginine-guanine interactions place the adenosines and guanines in reverse order in the duplex. The results suggest that a uniform, organized 3' conformation, similar to that found on viral RNAs with transfer RNA-like ends, may be essential for replication.
[[Category: Large Structures]]
 
[[Category: Filman DJ]]
==About this Structure==
[[Category: Gehrke L]]
1XOK is a [[Single protein]] structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1XOK OCA].  
[[Category: Guogas LM]]
 
[[Category: Hogle JM]]
==Reference==
Cofolding organizes alfalfa mosaic virus RNA and coat protein for replication., Guogas LM, Filman DJ, Hogle JM, Gehrke L, Science. 2004 Dec 17;306(5704):2108-11. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/15604410 15604410]
[[Category: Single protein]]
[[Category: Filman, D J.]]
[[Category: Gehrke, L.]]
[[Category: Guogas, L M.]]
[[Category: Hogle, J M.]]
[[Category: Alpha helix]]
[[Category: Atypical rna duplex]]
[[Category: Protein-rna complex]]
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