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[[Image:3b31.jpg|left|200px]]


{{Structure
==Crystal structure of domain III of the Cricket Paralysis Virus IRES RNA==
|PDB= 3b31 |SIZE=350|CAPTION= <scene name='initialview01'>3b31</scene>, resolution 2.40&Aring;
<StructureSection load='3b31' size='340' side='right'caption='[[3b31]], [[Resolution|resolution]] 2.40&Aring;' scene=''>
|SITE=  
== Structural highlights ==
|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=IRI:IRIDIUM+HEXAMMINE+ION'>IRI</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene>, <scene name='pdbligand=U:URIDINE-5&#39;-MONOPHOSPHATE'>U</scene>
<table><tr><td colspan='2'>[[3b31]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3B31 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3B31 FirstGlance]. <br>
|ACTIVITY=
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.4&#8491;</td></tr>
|GENE=
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=IRI:IRIDIUM+HEXAMMINE+ION'>IRI</scene>, <scene name='pdbligand=PO4:PHOSPHATE+ION'>PO4</scene></td></tr>
|DOMAIN=
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3b31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3b31 OCA], [https://pdbe.org/3b31 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3b31 RCSB], [https://www.ebi.ac.uk/pdbsum/3b31 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3b31 ProSAT]</span></td></tr>
|RELATEDENTRY=
</table>
|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3b31 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3b31 OCA], [http://www.ebi.ac.uk/pdbsum/3b31 PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=3b31 RCSB]</span>
<div style="background-color:#fffaf0;">
}}
== Publication Abstract from PubMed ==
 
'''Crystal structure of domain III of the Cricket Paralysis Virus IRES RNA'''
 
 
==Overview==
Internal ribosome entry site (IRES) RNAs initiate protein synthesis in eukaryotic cells by a noncanonical cap-independent mechanism. IRESes are critical for many pathogenic viruses, but efforts to understand their function are complicated by the diversity of IRES sequences as well as by limited high-resolution structural information. The intergenic region (IGR) IRESes of the Dicistroviridae viruses are powerful model systems to begin to understand IRES function. Here we present the crystal structure of a Dicistroviridae IGR IRES domain that interacts with the ribosome's decoding groove. We find that this RNA domain precisely mimics the transfer RNA anticodon-messenger RNA codon interaction, and its modeled orientation on the ribosome helps explain translocation without peptide bond formation. When combined with a previous structure, this work completes the first high-resolution description of an IRES RNA and provides insight into how RNAs can manipulate complex biological machines.
Internal ribosome entry site (IRES) RNAs initiate protein synthesis in eukaryotic cells by a noncanonical cap-independent mechanism. IRESes are critical for many pathogenic viruses, but efforts to understand their function are complicated by the diversity of IRES sequences as well as by limited high-resolution structural information. The intergenic region (IGR) IRESes of the Dicistroviridae viruses are powerful model systems to begin to understand IRES function. Here we present the crystal structure of a Dicistroviridae IGR IRES domain that interacts with the ribosome's decoding groove. We find that this RNA domain precisely mimics the transfer RNA anticodon-messenger RNA codon interaction, and its modeled orientation on the ribosome helps explain translocation without peptide bond formation. When combined with a previous structure, this work completes the first high-resolution description of an IRES RNA and provides insight into how RNAs can manipulate complex biological machines.


==About this Structure==
tRNA-mRNA mimicry drives translation initiation from a viral IRES.,Costantino DA, Pfingsten JS, Rambo RP, Kieft JS Nat Struct Mol Biol. 2008 Jan;15(1):57-64. Epub 2007 Dec 23. PMID:18157151<ref>PMID:18157151</ref>
3B31 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=3B31 OCA].
 
==Reference==
tRNA-mRNA mimicry drives translation initiation from a viral IRES., Costantino DA, Pfingsten JS, Rambo RP, Kieft JS, Nat Struct Mol Biol. 2008 Jan;15(1):57-64. Epub 2007 Dec 23. PMID:[http://www.ncbi.nlm.nih.gov/pubmed/18157151 18157151]
[[Category: Protein complex]]
[[Category: Costantino, D A.]]
[[Category: Kieft, J S.]]
[[Category: Pfingsten, J S.]]
[[Category: Rambo, R P.]]
[[Category: hybrid state]]
[[Category: ire]]
[[Category: rna structure]]
[[Category: translation initiation]]
[[Category: trna anticodon]]
[[Category: trna mimicry]]


''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:22:37 2008''
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3b31" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
</StructureSection>
[[Category: Large Structures]]
[[Category: Costantino DA]]
[[Category: Kieft JS]]
[[Category: Pfingsten JS]]
[[Category: Rambo RP]]
Retrieved from "https://proteopedia.org/3b31"